<?xml version="1.0" encoding="ISO-8859-1"?>
<GTH_output xmlns="http://www.genomethreader.org/GTH_output/" GTH_XML_version="1.1">
  <header xmlns="http://www.genomethreader.org/GTH_output/header/">
    <source program="GenomeThreader" version="0.9.54" build_date="2006-07-28 11:55:15" run_date="2009-02-20 11:31:32"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C04HBa0072F06-LxqYn/GenomeThreader_SGN_U_tomato/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C04HBa0072F06-LxqYn/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" type="ESTcDNA"/>
    </reference_files>
    <splice_site_parameters parameter_type="Bayesian" species="arabidopsis"/>
    <parameters>
      <parameter name="bssmfile" value="arabidopsis"/>
      <parameter name="scorematrixfile" value="BLOSUM62"/>
      <parameter name="searchmode" value="forward=True,reverse=True)"/>
      <parameter name="translationtable" value="1"/>
      <parameter name="frompos" value="0"/>
      <parameter name="topos" value="0"/>
      <parameter name="width" value="0"/>
      <parameter name="verbose" value="False"/>
      <parameter name="skipalignmentout" value="False"/>
      <parameter name="showintronmaxlen" value="120"/>
      <parameter name="minorflen" value="64"/>
      <parameter name="showseqnums" value="False"/>
      <parameter name="gs2out" value="False"/>
      <parameter name="maskpolyatails" value="False"/>
      <parameter name="noautoindex" value="False"/>
      <parameter name="minmatchlen" value="20"/>
      <parameter name="seedlength" value="16"/>
      <parameter name="exdrop" value="2"/>
      <parameter name="online" value="False"/>
      <parameter name="inverse" value="False"/>
      <parameter name="exact" value="False"/>
      <parameter name="chainwf" value="0.500000"/>
      <parameter name="gcmaxgapwidth" value="1000000"/>
      <parameter name="gcmincoverage" value="50"/>
      <parameter name="introncutout" value="False"/>
      <parameter name="autointroncutout" value="0"/>
      <parameter name="icinitialdelta" value="50"/>
      <parameter name="iciterations" value="2"/>
      <parameter name="icdeltaincrease" value="50"/>
      <parameter name="icminremintronlen" value="10"/>
      <parameter name="nou12intronmodel" value="False"/>
      <parameter name="u12donorprob" value="0.990000"/>
      <parameter name="u12donorprob1mism" value="0.900000"/>
      <parameter name="probies" value="0.500000"/>
      <parameter name="probdelgen" value="0.030000"/>
      <parameter name="identityweight" value="2.000000"/>
      <parameter name="mismatchweight" value="-2.000000"/>
      <parameter name="undetcharweight" value="0.000000"/>
      <parameter name="deletionweight" value="-4.000000"/>
      <parameter name="dpminexonlen" value="5"/>
      <parameter name="dpminintronlen" value="50"/>
      <parameter name="shortexonpenal" value="100"/>
      <parameter name="shortintronpenal" value="100"/>
      <parameter name="wzerotransition" value="80"/>
      <parameter name="wdecreasedoutput" value="80"/>
      <parameter name="leadcutoffsmode" value="RELAXED"/>
      <parameter name="termcutoffsmode" value="STRICT"/>
      <parameter name="cutoffsminexonlen" value="5"/>
      <parameter name="scoreminexonlen" value="50"/>
      <parameter name="minaveragessp" value="0.500000"/>
      <parameter name="minalignmentscore" value="0.900000"/>
      <parameter name="maxalignmentscore" value="1.000000"/>
      <parameter name="mincoverage" value="0.900000"/>
      <parameter name="maxcoverage" value="100.000000"/>
      <parameter name="intermediate" value="False"/>
      <parameter name="sortags" value="False"/>
      <parameter name="sortagswf" value="1.000000"/>
      <parameter name="first" value="0"/>
      <parameter name="exondistri" value="False"/>
      <parameter name="introndistri" value="False"/>
      <parameter name="refseqcovdistri" value="False"/>
    </parameters>
    <overall_reference_type>ESTcDNA</overall_reference_type>
  </header>
  <alignment_module>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0072F06-LxqYn/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U333179" ref_strand="+" ref_description="SGN-U333179        Tomato 200607 #1 [2 ESTs aligned]">
      <seq>gttctgacaaagttgcttcagacacatcaggcttttcacctgagcatggtagagcgatcatgggtgaagaagttggttcttgattaagacgtgatataagttgtgtgtgtgaaagagccattgtatgtggattgtactctagttgctaccatcaagccaggtaacatgactagtcagacagatgggtgaaaaatgtgatactggattgggataagctgagttgaggattttcacagagtgagtctagttctaggtcatttcagaaggtacagaagagcaaatgctagggatcctggaactacaaatctgctagaggtattaatgttggattggtgaaggcctaagcccctaaagggtggctttgcttggtgattgtgactagcggtacaaaatgaaaatgatggaagaatacgccatatgatctttggattcgagttgttgcacttaaacttgtgtaaaagttgaataaatacacacatattctacatcacataatatatacaggacattgccgtgtaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0072F06-LxqYn/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C04HBa0072F06.1" temp_strand="-" temp_description="C04HBa0072F06.1  CU929468.2 htgs_phase:3 submitted_to_sgn_as:C04HBa0072F06 sequenced_by:sanger upload_account_name:uk">
        <position start="16797" stop="15669"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="16497" g_stop="15963" g_length="535"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="527" r_length="527" r_score="0.964"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0072F06.1" gen_strand="-" ref_id="SGN-U333179" ref_strand="+">
        <total_alignment_score>0.964</total_alignment_score>
        <cumulative_length_of_scored_exons>535</cumulative_length_of_scored_exons>
        <coverage percentage="1.015" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0072F06.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U333179" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="16497" e_stop="15963"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTCTGACAAAGTTGCTTCAGACACATCAGGCTTTTCACCTGAGCATGGTAGAGCGATCATGGGTGAAGAAGTTGGTTCTTGATTAAGACGTGATATAAGTTGTGTGTGTGAAAGAGCCATTGTATGTGGATTGTACTCTAGTTGCTACCATCAAGCCAGGTAACATGACAAGTCAGACAGATGGGTGAAAAATGTGATACTGGATTGGGATAAGCTGAGTTGAGGATTTTCACAGAGTGAGTCTAGTTCTAGGTCATTTCAGAAGGTACAGAAGAGCAAATGCTAGGGATCCTGGAACTACAAATCTGCTAGAGGTATTAATGTTGGATTGGTGAAGGCCTAAGCCCCTAAAGGATGGCTTTGCTTGGTCATTGTGAGTGTGACTAGCGGTACAAAATGAAAATGATGGAAGAATACGCCATATGATCTTTGGATTCGAGTTGTTGCACTTAAACTTGTGTAGAAGTTGAATAAATATACACACATATTCTACATCACATAATATATACAAGACATTGCCGTGTAGAACGTATT</genome_strand>
        <mrna_strand>GTTCTGACAAAGTTGCTTCAGACACATCAGGCTTTTCACCTGAGCATGGTAGAGCGATCATGGGTGAAGAAGTTGGTTCTTGATTAAGACGTGATATAAGTTGTGTGTGTGAAAGAGCCATTGTATGTGGATTGTACTCTAGTTGCTACCATCAAGCCAGGTAACATGACTAGTCAGACAGATGGGTGAAAAATGTGATACTGGATTGGGATAAGCTGAGTTGAGGATTTTCACAGAGTGAGTCTAGTTCTAGGTCATTTCAGAAGGTACAGAAGAGCAAATGCTAGGGATCCTGGAACTACAAATCTGCTAGAGGTATTAATGTTGGATTGGTGAAGGCCTAAGCCCCTAAAGGGTGGCTTTGCTT-G-----GTGATTGTGACTAGCGGTACAAAATGAAAATGATGGAAGAATACGCCATATGATCTTTGGATTCGAGTTGTTGCACTTAAACTTGTGTAAAAGTTGAAT-AA-ATACACACATATTCTACATCACATAATATATACAGGACATTGCCGTGTAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0072F06-LxqYn/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U312417" ref_strand="+" ref_description="SGN-U312417        Tomato 200607 #1 [2 ESTs aligned] arabidopsis/peptide: | Symbol: None | 40S ribosomal protein S2 (RPS2D), 40S ribosomal protein S2 - Arabidopsis thaliana, SWISSPROT:RS2_ARATH | chr3:21290643-21291925 REVERSE | Aliases: T8H10.90(evalue: 7e-06, score=45.4) genbank/nr: gi|48103127|ref|XP_392843.1| similar to ENSANGP00000015322 [Apis mellifera] (evalue: 2e-05, score=50.8)">
      <seq>ttccctcaagcccattttacgaaaccctagctcccttataagcctaacaatccgtcatttttcatcttcacacatacacacactctgtaaaccctagctgcataccttatacctacaatcatggcggaaagaggaggaggggagagaggtgggttcggtcgtggatttggaggccgtggtggtagaggtggagaccgcggtggacggggccgtggcggccgtcgtccacgtcgtgaaacagaggaggagaaatgggttccggtcactaaactgggaacgcttgtgaaagatggcaaaattcgctcacttgagcatatttaccttctctcactcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0072F06-LxqYn/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C04HBa0072F06.1" temp_strand="+" temp_description="C04HBa0072F06.1  CU929468.2 htgs_phase:3 submitted_to_sgn_as:C04HBa0072F06 sequenced_by:sanger upload_account_name:uk">
        <position start="23198" stop="24131"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23498" g_stop="23831" g_length="334"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="334" r_length="334" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0072F06.1" gen_strand="+" ref_id="SGN-U312417" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>334</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0072F06.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-U312417" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23498" e_stop="23831"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCCCTCAAGCCCATTTTACGAAACCCTAGCTCCCTTATAAGCCTAACAATCCGTCATTTTTCATCTTCACACATACACACACTCTGTAAACCCTAGCTGCATACCTTATACCTACAATCATGGCGGAAAGAGGAGGAGGGGAGAGAGGTGGGTTCGGTCGTGGATTTGGAGGCCGTGGTGGTAGAGGTGGAGACCGCGGTGGACGGGGCCGTGGCGGCCGTCGTCCACGTCGTGAAACAGAGGAGGAGAAATGGGTTCCGGTCACTAAGCTAGGAAGGCTTGTGAAAGATGGCAAAATTCGCTCACTTGAGCAAATTTACCTTCACTCACTCC</genome_strand>
        <mrna_strand>TTCCCTCAAGCCCATTTTACGAAACCCTAGCTCCCTTATAAGCCTAACAATCCGTCATTTTTCATCTTCACACATACACACACTCTGTAAACCCTAGCTGCATACCTTATACCTACAATCATGGCGGAAAGAGGAGGAGGGGAGAGAGGTGGGTTCGGTCGTGGATTTGGAGGCCGTGGTGGTAGAGGTGGAGACCGCGGTGGACGGGGCCGTGGCGGCCGTCGTCCACGTCGTGAAACAGAGGAGGAGAAATGGGTTCCGGTCACTAAACTGGGAACGCTTGTGAAAGATGGCAAAATTCGCTCACTTGAGCATATTTACCTTCTCTCACTCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0072F06-LxqYn/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U312415" ref_strand="+" ref_description="SGN-U312415        Tomato 200607 #1 [127 ESTs aligned] arabidopsis/peptide: | Symbol: None | 40S ribosomal protein S2 (RPS2D), 40S ribosomal protein S2 - Arabidopsis thaliana, SWISSPROT:RS2_ARATH | chr3:21290643-21291925 REVERSE | Aliases: T8H10.90(evalue: 3e-115, score=412) genbank/nr: Ribosomal(evalue: 6e-120, score=433)">
      <seq>attttacgaaaccctagctcccttataaacctaacaatctgtttttcatcttcgtacacactctctgtaaaccctagctgtaaatctcataccttacaatcatggcggagagaggagcaggggacagaggaggcttcggtcgtggatttggaggacgtggtggtagaggtggagaccgcggtggaagaggccgtggcggccgtcgtccacgccgtgaaacagaggaggagaaatgggttccagtgacaaagctaggaaggctcgtgaaggatggcaaaatcaggtcacttgagcaaatctaccttcactcactcccaatcaaggagtttcaaatcattgatactcttatcggaccatctctcaaggatgaggtgatgaaaatcatgccagttcagaagcagacccgtgccggacagagaaccaggttcaaggcgtttgttgttgtaggtgacggtaatggccacgttggtctgggtgttaagtgctcaaaggaagtagctactgctattcgtggaggaattatattggctaagctatcagtgattccagtgaggagaggttactggggtaacaagattgggaagccacacactgtgccttgcaaggttacagggaaatgtgggtctgttactgtgaggatggtgcctgctcctcgtggtgctggtatagttgctgctcgtgtccccaagaaggtccttcagtttgctggtattgaagatgtcttcacatcttctcgcggatccaccaaaacccttggcaacttcgttaaggctacctttgattgtttaatgaagacttacgggttcctgaccccagacttctggaaagagactcggttcaccaaatctccattccaagagtactttgatatcttggcaaaacctgccaataaggttattgtgtacgccactgaagaggcagcacctgagagggttgaggcttgattcattttagatgtgatatgagtcagtagttctcttctctgatacgttagtattctaaattttgttctgtttctgagggatattttccgcagacttgcaaaacataatgttccttgttttggtttgttttcaacaatacatatgaatttgatctcatgtttttgcttgaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0072F06-LxqYn/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C04HBa0072F06.1" temp_strand="+" temp_description="C04HBa0072F06.1  CU929468.2 htgs_phase:3 submitted_to_sgn_as:C04HBa0072F06 sequenced_by:sanger upload_account_name:uk">
        <position start="23211" stop="25737"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23511" g_stop="24286" g_length="776"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="770" r_length="770" r_score="0.934"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="24287" i_stop="25076" i_length="790">
            <donor d_prob="0.983" d_score="1.00"/>
            <acceptor a_prob="0.958" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25077" g_stop="25436" g_length="360"/>
          <reference_exon_boundary r_type="cDNA" r_start="771" r_stop="1112" r_length="342" r_score="0.950"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="1113" polyA_stop="1160"/>
      <MATCH_line gen_id="C04HBa0072F06.1" gen_strand="+" ref_id="SGN-U312415" ref_strand="+">
        <total_alignment_score>0.939</total_alignment_score>
        <cumulative_length_of_scored_exons>1136</cumulative_length_of_scored_exons>
        <coverage percentage="0.979" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0072F06.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-U312415" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23511" e_stop="24286"/>
          <exon e_start="25077" e_stop="25436"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTTTACGAAACCCTAGCTCCCTTATAAGCCTAACAATCCGTCATTTTTCATCTTCACACATACACACACTCTGTAAACCCTAGCTGCATACCTTATACC-TACAATCATGGCGGAAAGAGGAGGAGGGGAGAGAGGTGGGTTCGGTCGTGGATTTGGAGGCCGTGGTGGTAGAGGTGGAGACCGCGGTGGACGGGGCCGTGGCGGCCGTCGTCCACGTCGTGAAACAGAGGAGGAGAAATGGGTTCCGGTCACTAAGCTAGGAAGGCTTGTGAAAGATGGCAAAATTCGCTCACTTGAGCAAATTTACCTTCACTCACTCCCAATCAAGGAGTTCCAAATCATAGATACCCTCATCGGTCCATCTCTCAAGGATGAGGTGATGAAAATCATGCCGGTTCAGAAGCAGACCCGTGCCGGGCAGAGAACCAGGTTTAAGGCGTTTGTTGTTGTAGGTGACGGGAATGGTCACGTTGGTTTGGGTGTTAAGTGCTCGAAGGAAGTCGCTACTGCTATTCGTGGAGGAATTATATTGGCTAAACTATCAGTGATTCCAGTGAGGAGAGGTTACTGGGGTAACAAGATTGGTAAGCCACACACTGTGCCTTGCAAGGTTACAGGGAAATGTGGGTCTGTTACTGTGAGGATGGTGCCTGCTCCTCGTGGTGCTGGTATAGTTGCTGCTCGTGTCCCCAAGAAGGTCCTTCAGTTTGCTGGTATCGAAGATGTCTTCACATCTTCTCGCGGATCCACCAAAACCCTTGGCAACTTCGTTAAGGTTCGATCTTTCAACAGATCCTGTGATTATCATTATTGTTAATTGTGTGATGATTCTATTACTTGTAGTTTTAATACTATAGCATAAGAATTGATGCGTATCACATTATAATTGAACAAAAAGGTTAATTTGATTGTACATTTTGTTTAAAATAGCTAATGTGGAGATGACAACCGGGTCTATTCCAGTAAAACTTTCCTTGAGTTTAATGTGTTTTATGTTAATATAACAATAAAGAAATGATCTTTTCTATAAGTAAGTTATATCACATGGCTACATCAAAGTTCTCAAATTTTTGGAAATATTGCACTGGAACTTTGTAGATTGTGACAGAGATAGTAACAATCTTTAGTCTTATAGTTCCAAATCATGTCTTTCTCGAGAACAAGATTGTTTAGTTTGGTTCCAAAAGTATGGATGTATTAAGAGTATTGGTTAAATTGGTGGGAAATTGTGTGTCTGCCACTGAATTCATTGTTGAGCAAGTCGAATTGTGTGATAGTAGGTGTGTACCATTACTGATTCTTACCATTTCCTGCAATACATGTGCTGCAATGTGTCATAAGCACTTTGTTCTTAAAAAGATATTAAATGACTAGTCGTTTGTTGTTTGGATTGTGGCTTATTGCAAGTGTTCATCGAAACACTTTTTGTTGTACCCAGCTACTATTTTTATCCAAAACTGGTGTGATGGTTTGTGTATAGCGTAAAAAGCATTAGCTTTCATTTTTGCTCATTTACAATATATTTGCTGTGCTTGAGTCTGATGCCACTCATTTTATACATGTAGGCTACCTTTGATTGTTTAATGAAGACTTACGGGTTCCTGACCCCAGACTTCTGGAAAGAGACTCGGTTCACCAAATCTCCATTCCAAGAGTACTTTGATATCTTGGCAAAACCTGCCAATAAGGTTATTGTGTACGCCACTGAAGAGGCAGCACCTGAGAGGGTTGAGGCTTGATTCATTTTAGATGTGATATGAGTCCTTCTGTCGTTTTGTTCTAGTAGTTCTCTTCTCTGATACGTTAGTATTCTAAATTTTGTTCTGTTTCTGAGGGATATTTTCCGCAGACTTGCAAAACATAATGTTCCTTGTTTTGGTTTGTTTTCAACAATACATATGAATTTGATCTCATGTTTTTGCTTG</genome_strand>
        <mrna_strand>ATTTTACGAAACCCTAGCTCCCTTATAAACCTAACAAT-C-T-GTTTTTCATCTT----CGTACACACTCTCTGTAAACCCTAGCTGTAAATCTCATACCTTACAATCATGGCGGAGAGAGGAGCAGGGGACAGAGGAGGCTTCGGTCGTGGATTTGGAGGACGTGGTGGTAGAGGTGGAGACCGCGGTGGAAGAGGCCGTGGCGGCCGTCGTCCACGCCGTGAAACAGAGGAGGAGAAATGGGTTCCAGTGACAAAGCTAGGAAGGCTCGTGAAGGATGGCAAAATCAGGTCACTTGAGCAAATCTACCTTCACTCACTCCCAATCAAGGAGTTTCAAATCATTGATACTCTTATCGGACCATCTCTCAAGGATGAGGTGATGAAAATCATGCCAGTTCAGAAGCAGACCCGTGCCGGACAGAGAACCAGGTTCAAGGCGTTTGTTGTTGTAGGTGACGGTAATGGCCACGTTGGTCTGGGTGTTAAGTGCTCAAAGGAAGTAGCTACTGCTATTCGTGGAGGAATTATATTGGCTAAGCTATCAGTGATTCCAGTGAGGAGAGGTTACTGGGGTAACAAGATTGGGAAGCCACACACTGTGCCTTGCAAGGTTACAGGGAAATGTGGGTCTGTTACTGTGAGGATGGTGCCTGCTCCTCGTGGTGCTGGTATAGTTGCTGCTCGTGTCCCCAAGAAGGTCCTTCAGTTTGCTGGTATTGAAGATGTCTTCACATCTTCTCGCGGATCCACCAAAACCCTTGGCAACTTCGTTAAG......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTACCTTTGATTGTTTAATGAAGACTTACGGGTTCCTGACCCCAGACTTCTGGAAAGAGACTCGGTTCACCAAATCTCCATTCCAAGAGTACTTTGATATCTTGGCAAAACCTGCCAATAAGGTTATTGTGTACGCCACTGAAGAGGCAGCACCTGAGAGGGTTGAGGCTTGATTCATTTTAGATGTGATATGA----------------G-TC-AGTAGTTCTCTTCTCTGATACGTTAGTATTCTAAATTTTGTTCTGTTTCTGAGGGATATTTTCCGCAGACTTGCAAAACATAATGTTCCTTGTTTTGGTTTGTTTTCAACAATACATATGAATTTGATCTCATGTTTTTGCTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0072F06-LxqYn/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U312414" ref_strand="+" ref_description="SGN-U312414        Tomato 200607 #1 [23 ESTs aligned] arabidopsis/peptide: | Symbol: None | 40S ribosomal protein S2 (RPS2B), similar to ribosomal protein S2 GI:430711 from (Drosophila melanogaster) | chr1:21846053-21847398 REVERSE | Aliases: T4M14.3, T4M14_3(evalue: 2e-106, score=382) genbank/nr: Ribosomal(evalue: 8e-111, score=403)">
      <seq>ctagctgtaaatctcataccttacaatcatggcggagagaggagcaggggacagaggaggcttcggtcgtggatttggaggacgtggtggtagaggtggagaccgcggtggaagaggccgtggcggccgtcgtccacgccgtgaaggatggcaaaatcaggtcacttgagcaaatctaccttcactcactcccaatcaaggagtttcaaatcattgatactcttatcggaccatctctcaaggatgaggtgatgaaaatcatgccagttcagaagcagacccgtgccggacagagaaccaggttcaaggcgtttgttgttgtaggtgacggtaatggccacgttggtctgggtgttaagtgctcaaaggaagtagctactgctattcgtggaggaattatattggctaagctatcagtgattccagtgaggagaggttactggggtaacaagattgggaagccacacactgtgccttgcaaggttacagggaaatgtgggtctgttactgtgaggatggtgcctgctcctcgtggtgctggtattgttgctgctcgtgtccctaagaaggttcttcagtttgctggtattgaagatgtcttcacatcttctcgtggatccaccaaaacccttggaaacttcgttaaggcgacatttgattgtttaatgaagacctacgggttcctgaccccagatttctggaaagagactcgcttcaccaaatctccattccaagagtactttgatatcttggcaaaacctgccaataaggttattgtctacgccaccgaagaggcagcacctgagagggttgaggcttgattcgttagatgttatgtgctctgttgttttgttctagtagttttctttattatgaaatgttagtattctaaattttgacttctgttcttgagggatattttccgcagactttgaaaggataatgttccttgttttggtttgttttcaacaatatatatgaagtttcttaattgaaaaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0072F06-LxqYn/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C04HBa0072F06.1" temp_strand="+" temp_description="C04HBa0072F06.1  CU929468.2 htgs_phase:3 submitted_to_sgn_as:C04HBa0072F06 sequenced_by:sanger upload_account_name:uk">
        <position start="23291" stop="25717"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23591" g_stop="23729" g_length="139"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="140" r_length="140" r_score="0.892"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23730" i_stop="23779" i_length="50">
            <donor d_prob="0.000" d_score="0.94"/>
            <acceptor a_prob="0.000" a_score="0.90"/>
          </gDNA_intron_boundary>
          <shorter_than_min_intron_len/>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23780" g_stop="24286" g_length="507"/>
          <reference_exon_boundary r_type="cDNA" r_start="141" r_stop="647" r_length="507" r_score="0.949"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24287" i_stop="25076" i_length="790">
            <donor d_prob="0.983" d_score="0.96"/>
            <acceptor a_prob="0.958" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="25077" g_stop="25413" g_length="337"/>
          <reference_exon_boundary r_type="cDNA" r_start="648" r_stop="981" r_length="334" r_score="0.890"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="995" polyA_stop="1020"/>
      <MATCH_line gen_id="C04HBa0072F06.1" gen_strand="+" ref_id="SGN-U312414" ref_strand="+">
        <total_alignment_score>0.921</total_alignment_score>
        <cumulative_length_of_scored_exons>983</cumulative_length_of_scored_exons>
        <coverage percentage="0.964" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0072F06.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-U312414" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23591" e_stop="23729"/>
          <exon e_start="23780" e_stop="24286"/>
          <exon e_start="25077" e_stop="25413"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTAGCTGCATACCTTATACCT-ACAATCATGGCGGAAAGAGGAGGAGGGGAGAGAGGTGGGTTCGGTCGTGGATTTGGAGGCCGTGGTGGTAGAGGTGGAGACCGCGGTGGACGGGGCCGTGGCGGCCGTCGTCCACGTCGTGAAACAGAGGAGGAGAAATGGGTTCCGGTCACTAAGCTAGGAAGGCTTGTGAAAGATGGCAAAATTCGCTCACTTGAGCAAATTTACCTTCACTCACTCCCAATCAAGGAGTTCCAAATCATAGATACCCTCATCGGTCCATCTCTCAAGGATGAGGTGATGAAAATCATGCCGGTTCAGAAGCAGACCCGTGCCGGGCAGAGAACCAGGTTTAAGGCGTTTGTTGTTGTAGGTGACGGGAATGGTCACGTTGGTTTGGGTGTTAAGTGCTCGAAGGAAGTCGCTACTGCTATTCGTGGAGGAATTATATTGGCTAAACTATCAGTGATTCCAGTGAGGAGAGGTTACTGGGGTAACAAGATTGGTAAGCCACACACTGTGCCTTGCAAGGTTACAGGGAAATGTGGGTCTGTTACTGTGAGGATGGTGCCTGCTCCTCGTGGTGCTGGTATAGTTGCTGCTCGTGTCCCCAAGAAGGTCCTTCAGTTTGCTGGTATCGAAGATGTCTTCACATCTTCTCGCGGATCCACCAAAACCCTTGGCAACTTCGTTAAGGTTCGATCTTTCAACAGATCCTGTGATTATCATTATTGTTAATTGTGTGATGATTCTATTACTTGTAGTTTTAATACTATAGCATAAGAATTGATGCGTATCACATTATAATTGAACAAAAAGGTTAATTTGATTGTACATTTTGTTTAAAATAGCTAATGTGGAGATGACAACCGGGTCTATTCCAGTAAAACTTTCCTTGAGTTTAATGTGTTTTATGTTAATATAACAATAAAGAAATGATCTTTTCTATAAGTAAGTTATATCACATGGCTACATCAAAGTTCTCAAATTTTTGGAAATATTGCACTGGAACTTTGTAGATTGTGACAGAGATAGTAACAATCTTTAGTCTTATAGTTCCAAATCATGTCTTTCTCGAGAACAAGATTGTTTAGTTTGGTTCCAAAAGTATGGATGTATTAAGAGTATTGGTTAAATTGGTGGGAAATTGTGTGTCTGCCACTGAATTCATTGTTGAGCAAGTCGAATTGTGTGATAGTAGGTGTGTACCATTACTGATTCTTACCATTTCCTGCAATACATGTGCTGCAATGTGTCATAAGCACTTTGTTCTTAAAAAGATATTAAATGACTAGTCGTTTGTTGTTTGGATTGTGGCTTATTGCAAGTGTTCATCGAAACACTTTTTGTTGTACCCAGCTACTATTTTTATCCAAAACTGGTGTGATGGTTTGTGTATAGCGTAAAAAGCATTAGCTTTCATTTTTGCTCATTTACAATATATTTGCTGTGCTTGAGTCTGATGCCACTCATTTTATACATGTAGGCTACCTTTGATTGTTTAATGAAGACTTACGGGTTCCTGACCCCAGACTTCTGGAAAGAGACTCGGTTCACCAAATCTCCATTCCAAGAGTACTTTGATATCTTGGCAAAACCTGCCAATAAGGTTATTGTGTACGCCACTGAAGAGGCAGCACCTGAGAGGGTTGAGGCTTGATTCATTTTAGATGTGATATGAGTCCTTCTGTCGTTTTGTTCTAGTAGTTCTC-TT-CTCTGATACGTTAGTATTCTAAATTTTG--TTCTGTTTCTGAGGGATATTTTCCGCAGACTTGCAAAACATAATGTTCCTTGTTTTGGTTTGTTTTCAACAATACATATGA</genome_strand>
        <mrna_strand>CTAGCTGTAAATCTCATACCTTACAATCATGGCGGAGAGAGGAGCAGGGGACAGAGGAGGCTTCGGTCGTGGATTTGGAGGACGTGGTGGTAGAGGTGGAGACCGCGGTGGAAGAGGCCGTGGCGGCCGTCGTCCACGCC..................................................GTGAAGGATGGCAAAATCAGGTCACTTGAGCAAATCTACCTTCACTCACTCCCAATCAAGGAGTTTCAAATCATTGATACTCTTATCGGACCATCTCTCAAGGATGAGGTGATGAAAATCATGCCAGTTCAGAAGCAGACCCGTGCCGGACAGAGAACCAGGTTCAAGGCGTTTGTTGTTGTAGGTGACGGTAATGGCCACGTTGGTCTGGGTGTTAAGTGCTCAAAGGAAGTAGCTACTGCTATTCGTGGAGGAATTATATTGGCTAAGCTATCAGTGATTCCAGTGAGGAGAGGTTACTGGGGTAACAAGATTGGGAAGCCACACACTGTGCCTTGCAAGGTTACAGGGAAATGTGGGTCTGTTACTGTGAGGATGGTGCCTGCTCCTCGTGGTGCTGGTATTGTTGCTGCTCGTGTCCCTAAGAAGGTTCTTCAGTTTGCTGGTATTGAAGATGTCTTCACATCTTCTCGTGGATCCACCAAAACCCTTGGAAACTTCGTTAAG......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCGACATTTGATTGTTTAATGAAGACCTACGGGTTCCTGACCCCAGATTTCTGGAAAGAGACTCGCTTCACCAAATCTCCATTCCAAGAGTACTTTGATATCTTGGCAAAACCTGCCAATAAGGTTATTGTCTACGCCACCGAAGAGGCAGCACCTGAGAGGGTTGAGGCTTGATTC--GTTAGATGT--TAT--GTGC-TCTGTTGTTTTGTTCTAGTAGTTTTCTTTATTATGAAATGTTAGTATTCTAAATTTTGACTTCTGTTCTTGAGGGATATTTTCCGCAGACTTTGAAAGGATAATGTTCCTTGTTTTGGTTTGTTTTCAACAATATATATGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0072F06-LxqYn/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U312422" ref_strand="+" ref_description="SGN-U312422        Tomato 200607 #1 [3 ESTs aligned] arabidopsis/peptide: | Symbol: None | 40S ribosomal protein S2 (RPS2B), similar to ribosomal protein S2 GI:430711 from (Drosophila melanogaster) | chr1:21846053-21847398 REVERSE | Aliases: T4M14.3, T4M14_3(evalue: 2e-97, score=352) genbank/nr: Ribosomal(evalue: 7e-100, score=366)">
      <seq>gtttcaaatcatcgataccctcatcggtccatctctcaaggatgaggtgatgaaaatcatgccggttcagaagcagacccgtgccggacagagaactaggtttaaggcgtttgttgttgtaggtgacgggaatggtcacgttggtttgggtgttaagtgctcgaaggaagtcgctactgctattcgtggaggaattatattggctaaactatcagtgattccagtgaggagaggttactggggtaacaagattggtaagccacacactgtgccttgcaaggttacagggaaatgtgggtctgttactgtgaggatggtgcctgctcctcgtggtgctggtatagttgctgctcgtgtccccaagaaggtccttcagtttgctggtatcgaagatgtcttcacatcttctcgcggatccaccaaaacccttggcaacttcgttaaggctacctttgattgtttaatgaagacttacgggttcctgaccccagacttctggaaagagactcggttcaccaaatctccattccaagagtactttgatatcttggcaaaacctgccaataaggttattgtgtacgccactgaagaggcagcacctgagagggttgaggcttgattcattttagatgtgatatgagtccttctgtcgttttgttctagtagttctcttctctgatacgttagtattctaaattttgttctgtttctgagggatattttccgcagacttgcaaaacataatgttccttgttttggtttgttttcaacaatacatatgaatttgatctcatatttttgcggaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0072F06-LxqYn/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C04HBa0072F06.1" temp_strand="+" temp_description="C04HBa0072F06.1  CU929468.2 htgs_phase:3 submitted_to_sgn_as:C04HBa0072F06 sequenced_by:sanger upload_account_name:uk">
        <position start="23542" stop="25733"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23842" g_stop="24286" g_length="445"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="445" r_length="445" r_score="0.991"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="24287" i_stop="25076" i_length="790">
            <donor d_prob="0.983" d_score="1.00"/>
            <acceptor a_prob="0.958" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25077" g_stop="25431" g_length="355"/>
          <reference_exon_boundary r_type="cDNA" r_start="446" r_stop="800" r_length="355" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="805" polyA_stop="822"/>
      <MATCH_line gen_id="C04HBa0072F06.1" gen_strand="+" ref_id="SGN-U312422" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>800</cumulative_length_of_scored_exons>
        <coverage percentage="0.973" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0072F06.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-U312422" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23842" e_stop="24286"/>
          <exon e_start="25077" e_stop="25431"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTCCAAATCATAGATACCCTCATCGGTCCATCTCTCAAGGATGAGGTGATGAAAATCATGCCGGTTCAGAAGCAGACCCGTGCCGGGCAGAGAACCAGGTTTAAGGCGTTTGTTGTTGTAGGTGACGGGAATGGTCACGTTGGTTTGGGTGTTAAGTGCTCGAAGGAAGTCGCTACTGCTATTCGTGGAGGAATTATATTGGCTAAACTATCAGTGATTCCAGTGAGGAGAGGTTACTGGGGTAACAAGATTGGTAAGCCACACACTGTGCCTTGCAAGGTTACAGGGAAATGTGGGTCTGTTACTGTGAGGATGGTGCCTGCTCCTCGTGGTGCTGGTATAGTTGCTGCTCGTGTCCCCAAGAAGGTCCTTCAGTTTGCTGGTATCGAAGATGTCTTCACATCTTCTCGCGGATCCACCAAAACCCTTGGCAACTTCGTTAAGGTTCGATCTTTCAACAGATCCTGTGATTATCATTATTGTTAATTGTGTGATGATTCTATTACTTGTAGTTTTAATACTATAGCATAAGAATTGATGCGTATCACATTATAATTGAACAAAAAGGTTAATTTGATTGTACATTTTGTTTAAAATAGCTAATGTGGAGATGACAACCGGGTCTATTCCAGTAAAACTTTCCTTGAGTTTAATGTGTTTTATGTTAATATAACAATAAAGAAATGATCTTTTCTATAAGTAAGTTATATCACATGGCTACATCAAAGTTCTCAAATTTTTGGAAATATTGCACTGGAACTTTGTAGATTGTGACAGAGATAGTAACAATCTTTAGTCTTATAGTTCCAAATCATGTCTTTCTCGAGAACAAGATTGTTTAGTTTGGTTCCAAAAGTATGGATGTATTAAGAGTATTGGTTAAATTGGTGGGAAATTGTGTGTCTGCCACTGAATTCATTGTTGAGCAAGTCGAATTGTGTGATAGTAGGTGTGTACCATTACTGATTCTTACCATTTCCTGCAATACATGTGCTGCAATGTGTCATAAGCACTTTGTTCTTAAAAAGATATTAAATGACTAGTCGTTTGTTGTTTGGATTGTGGCTTATTGCAAGTGTTCATCGAAACACTTTTTGTTGTACCCAGCTACTATTTTTATCCAAAACTGGTGTGATGGTTTGTGTATAGCGTAAAAAGCATTAGCTTTCATTTTTGCTCATTTACAATATATTTGCTGTGCTTGAGTCTGATGCCACTCATTTTATACATGTAGGCTACCTTTGATTGTTTAATGAAGACTTACGGGTTCCTGACCCCAGACTTCTGGAAAGAGACTCGGTTCACCAAATCTCCATTCCAAGAGTACTTTGATATCTTGGCAAAACCTGCCAATAAGGTTATTGTGTACGCCACTGAAGAGGCAGCACCTGAGAGGGTTGAGGCTTGATTCATTTTAGATGTGATATGAGTCCTTCTGTCGTTTTGTTCTAGTAGTTCTCTTCTCTGATACGTTAGTATTCTAAATTTTGTTCTGTTTCTGAGGGATATTTTCCGCAGACTTGCAAAACATAATGTTCCTTGTTTTGGTTTGTTTTCAACAATACATATGAATTTGATCTCATGTTTTT</genome_strand>
        <mrna_strand>GTTTCAAATCATCGATACCCTCATCGGTCCATCTCTCAAGGATGAGGTGATGAAAATCATGCCGGTTCAGAAGCAGACCCGTGCCGGACAGAGAACTAGGTTTAAGGCGTTTGTTGTTGTAGGTGACGGGAATGGTCACGTTGGTTTGGGTGTTAAGTGCTCGAAGGAAGTCGCTACTGCTATTCGTGGAGGAATTATATTGGCTAAACTATCAGTGATTCCAGTGAGGAGAGGTTACTGGGGTAACAAGATTGGTAAGCCACACACTGTGCCTTGCAAGGTTACAGGGAAATGTGGGTCTGTTACTGTGAGGATGGTGCCTGCTCCTCGTGGTGCTGGTATAGTTGCTGCTCGTGTCCCCAAGAAGGTCCTTCAGTTTGCTGGTATCGAAGATGTCTTCACATCTTCTCGCGGATCCACCAAAACCCTTGGCAACTTCGTTAAG......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTACCTTTGATTGTTTAATGAAGACTTACGGGTTCCTGACCCCAGACTTCTGGAAAGAGACTCGGTTCACCAAATCTCCATTCCAAGAGTACTTTGATATCTTGGCAAAACCTGCCAATAAGGTTATTGTGTACGCCACTGAAGAGGCAGCACCTGAGAGGGTTGAGGCTTGATTCATTTTAGATGTGATATGAGTCCTTCTGTCGTTTTGTTCTAGTAGTTCTCTTCTCTGATACGTTAGTATTCTAAATTTTGTTCTGTTTCTGAGGGATATTTTCCGCAGACTTGCAAAACATAATGTTCCTTGTTTTGGTTTGTTTTCAACAATACATATGAATTTGATCTCATATTTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0072F06-LxqYn/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U333543" ref_strand="-" ref_description="SGN-U333543        Tomato 200607 #1 [1 ESTs aligned] arabidopsis/peptide: | Symbol: None | 40S ribosomal protein S2 (RPS2D), 40S ribosomal protein S2 - Arabidopsis thaliana, SWISSPROT:RS2_ARATH | chr3:21290643-21291925 REVERSE | Aliases: T8H10.90(evalue: 6e-116, score=414) genbank/nr: Ribosomal(evalue: 1e-117, score=426)">
      <seq>gaaaatcatgccagttcagaagcagacccgtgccggacagagaaccaggttcaaggcgtttgttgttgtaggtgacggtaatggccacgttggtttgggtgttaagtgctcaaaggaagtcgctactgctattcgtggaggaattatattggctaagctatcagtgattccagtgaggagaggttactggggtaacaagattgggaagccacacactgtgccttgcaaggttacagggaaatgtgggtctgttactgtgaggatggtgcctgctcctcgtggtgctggtattgttgctgcccgtgtccctaagaaggtccttcagtttgctggtattgaagatgtcttcccatcttctcgtggatccaccaaaacccttggaaacttcgttaaggcgacatttgattgtttaatgaaaacctacgggttcctgaccccagatttctggaaagagactcgcttcaccaaatctccattccaagagtactttgatatcttggcaaaccctgccaataaggttattgtttacgcccccgaagaggcagcccctgagagggttgaggcttgattcattagatgttatgtgctctgttgttttgttctagtagttttctttattatgaaatgttagtattctaaattttgacttctgttcttgagggatattttccgcacgactttcaaaaggataatgttcccttgttttggtttgttttaaagcaatatatatgaagttttcttaattgaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0072F06-LxqYn/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C04HBa0072F06.1" temp_strand="+" temp_description="C04HBa0072F06.1  CU929468.2 htgs_phase:3 submitted_to_sgn_as:C04HBa0072F06 sequenced_by:sanger upload_account_name:uk">
        <position start="23593" stop="25725"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23893" g_stop="24286" g_length="394"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="394" r_length="394" r_score="0.962"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="24287" i_stop="25076" i_length="790">
            <donor d_prob="0.983" d_score="0.94"/>
            <acceptor a_prob="0.958" a_score="0.90"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25077" g_stop="25389" g_length="313"/>
          <reference_exon_boundary r_type="cDNA" r_start="395" r_stop="707" r_length="313" r_score="0.863"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="747" polyA_stop="767"/>
      <MATCH_line gen_id="C04HBa0072F06.1" gen_strand="+" ref_id="SGN-U333543" ref_strand="-">
        <total_alignment_score>0.918</total_alignment_score>
        <cumulative_length_of_scored_exons>707</cumulative_length_of_scored_exons>
        <coverage percentage="0.922" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0072F06.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-U333543" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="23893" e_stop="24286"/>
          <exon e_start="25077" e_stop="25389"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAAATCATGCCGGTTCAGAAGCAGACCCGTGCCGGGCAGAGAACCAGGTTTAAGGCGTTTGTTGTTGTAGGTGACGGGAATGGTCACGTTGGTTTGGGTGTTAAGTGCTCGAAGGAAGTCGCTACTGCTATTCGTGGAGGAATTATATTGGCTAAACTATCAGTGATTCCAGTGAGGAGAGGTTACTGGGGTAACAAGATTGGTAAGCCACACACTGTGCCTTGCAAGGTTACAGGGAAATGTGGGTCTGTTACTGTGAGGATGGTGCCTGCTCCTCGTGGTGCTGGTATAGTTGCTGCTCGTGTCCCCAAGAAGGTCCTTCAGTTTGCTGGTATCGAAGATGTCTTCACATCTTCTCGCGGATCCACCAAAACCCTTGGCAACTTCGTTAAGGTTCGATCTTTCAACAGATCCTGTGATTATCATTATTGTTAATTGTGTGATGATTCTATTACTTGTAGTTTTAATACTATAGCATAAGAATTGATGCGTATCACATTATAATTGAACAAAAAGGTTAATTTGATTGTACATTTTGTTTAAAATAGCTAATGTGGAGATGACAACCGGGTCTATTCCAGTAAAACTTTCCTTGAGTTTAATGTGTTTTATGTTAATATAACAATAAAGAAATGATCTTTTCTATAAGTAAGTTATATCACATGGCTACATCAAAGTTCTCAAATTTTTGGAAATATTGCACTGGAACTTTGTAGATTGTGACAGAGATAGTAACAATCTTTAGTCTTATAGTTCCAAATCATGTCTTTCTCGAGAACAAGATTGTTTAGTTTGGTTCCAAAAGTATGGATGTATTAAGAGTATTGGTTAAATTGGTGGGAAATTGTGTGTCTGCCACTGAATTCATTGTTGAGCAAGTCGAATTGTGTGATAGTAGGTGTGTACCATTACTGATTCTTACCATTTCCTGCAATACATGTGCTGCAATGTGTCATAAGCACTTTGTTCTTAAAAAGATATTAAATGACTAGTCGTTTGTTGTTTGGATTGTGGCTTATTGCAAGTGTTCATCGAAACACTTTTTGTTGTACCCAGCTACTATTTTTATCCAAAACTGGTGTGATGGTTTGTGTATAGCGTAAAAAGCATTAGCTTTCATTTTTGCTCATTTACAATATATTTGCTGTGCTTGAGTCTGATGCCACTCATTTTATACATGTAGGCTACCTTTGATTGTTTAATGAAGACTTACGGGTTCCTGACCCCAGACTTCTGGAAAGAGACTCGGTTCACCAAATCTCCATTCCAAGAGTACTTTGATATCTTGGCAAAACCTGCCAATAAGGTTATTGTGTACGCCACTGAAGAGGCAGCACCTGAGAGGGTTGAGGCTTGATTCATTTTAGATGTGATATGAGTCCTTCTGTCGTTTTGTTCTAGTAGTTCTC-TT-CTCTGATACGTTAGTATTCTAAATTTTG--TTCTGTTTCTGAGGGATATTTTCCGCA-GACTTGCAAAA-CATAATGTT-CCTTGTTTTG</genome_strand>
        <mrna_strand>GAAAATCATGCCAGTTCAGAAGCAGACCCGTGCCGGACAGAGAACCAGGTTCAAGGCGTTTGTTGTTGTAGGTGACGGTAATGGCCACGTTGGTTTGGGTGTTAAGTGCTCAAAGGAAGTCGCTACTGCTATTCGTGGAGGAATTATATTGGCTAAGCTATCAGTGATTCCAGTGAGGAGAGGTTACTGGGGTAACAAGATTGGGAAGCCACACACTGTGCCTTGCAAGGTTACAGGGAAATGTGGGTCTGTTACTGTGAGGATGGTGCCTGCTCCTCGTGGTGCTGGTATTGTTGCTGCCCGTGTCCCTAAGAAGGTCCTTCAGTTTGCTGGTATTGAAGATGTCTTCCCATCTTCTCGTGGATCCACCAAAACCCTTGGAAACTTCGTTAAG......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCGACATTTGATTGTTTAATGAAAACCTACGGGTTCCTGACCCCAGATTTCTGGAAAGAGACTCGCTTCACCAAATCTCCATTCCAAGAGTACTTTGATATCTTGGCAAACCCTGCCAATAAGGTTATTGTTTACGCCCCCGAAGAGGCAGCCCCTGAGAGGGTTGAGGCTTGATTCA--TTAGATGT--TAT--GTGC-TCTGTTGTTTTGTTCTAGTAGTTTTCTTTATTATGAAATGTTAGTATTCTAAATTTTGACTTCTGTTCTTGAGGGATATTTTCCGCACGACTTTCAAAAGGATAATGTTCCCTTGTTTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0072F06-LxqYn/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U322720" ref_strand="+" ref_description="SGN-U322720        Tomato 200607 #1 [7 ESTs aligned] arabidopsis/peptide: | Symbol: None | VHS domain-containing protein / GAT domain-containing protein, weak similarity to Hrs (Rattus norvegicus) GI:8547026; contains Pfam profiles PF00790: VHS domain, PF03127: GAT domain | chr1:7485206-7488675 REVERSE | Aliases: F24J8.3, F24J8_3(evalue: 4e-76, score=282) genbank/nr: VHS(evalue: 8e-82, score=307)">
      <seq>gaagaagaagcctgatttaaatgtgagggagaagattttgattttgatagattcatggcaagaagctttgggagggccagggggacgatttccccagtattacgctgcatataatgagctgaaggctgcaggtgtagagtttccacctcgagaggaaaacagtgtacctttatttacaccaccacaaacccatccaatagtccacacgccttccgcttatgaggaggctgcagttgaggcctctcttgagtctgatccctctggactcagtgtcgcggagattcaaagtgccgaggggctatcagatgtcctcacggagatgcttggtgccttggatccaaagaaccctcagtccgtgaaggaggaggtgatagtcgatcttgttgaacagtgtcggtcttaccaaaagcgtgtgatgattcttgtgaacaacacagtagacgaggatctgctgtgtaaaggattggcactcaatgacaatctgcagcgagttcttcgtagacatgacgatattgccaaaggaacctcaacaattactgtaccacccagagaaactcctgttgcaccccttatgaatgtgaatcatgaggatgatgagtcagaagatgatttctctcacttatcacggagaacttcaagagatccatcacagggacaggggcggaagactattgatgtgaagagtgagccaatgcgaattactccaactcttcctcctccaccttcatcaaggagaccagtttttacggatgggaaaatggttgattatctcagcggtgacaggtttgaatctgaaagatcaatgggaacagaaggatcatcacctattgctgcttcaactaattcaaacaatgcgagttccatcccatggtcaagtcccaagccatcttcatctgcaccccctccagatgatttgctaaatccaactgctgatgagaacttcttgaaccccactgcatctatgtttactggaaaaaacaaccagaatgaatccaattcaaaagccaaatctgctgataacttgcctccagcaccttgggatgctcctcctcctaccgcaatccctccaccaccagccagatatgatcagagacagcagtactttgagaaacatgtttctggtggctcccctcccgcaagaactggatcgagttcctatgacagcatagttggacaaacaaagaatctctctattaattcttcttcaccatccaaaccagagaaacctgaggacgcactcttcaaagatcttgttgattttgcaaaagccaagtcttcctcatcttcaaaccaatccaatagatcattttgagtgatttcaatgaatatgaataatgtgtggtggggtgtatatctactttttcttcttgtagcaataaatattagagaggactgagttttatggattactggtgctgcttcttctgctttattttctgttcggctttcagcctttaggtgagtgatagtgtagctgacatgacatttatatcttggatcatataagatggttaatatttctgttttaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0072F06-LxqYn/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C04HBa0072F06.1" temp_strand="+" temp_description="C04HBa0072F06.1  CU929468.2 htgs_phase:3 submitted_to_sgn_as:C04HBa0072F06 sequenced_by:sanger upload_account_name:uk">
        <position start="35956" stop="45263"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="36166" g_stop="36175" g_length="10"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="10" r_length="10" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="36176" i_stop="36263" i_length="88">
            <donor d_prob="0.999" d_score="0.00"/>
            <acceptor a_prob="0.977" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="36264" g_stop="36377" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="11" r_stop="124" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="36378" i_stop="41173" i_length="4796">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="41174" g_stop="41319" g_length="146"/>
          <reference_exon_boundary r_type="cDNA" r_start="125" r_stop="270" r_length="146" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="41320" i_stop="41967" i_length="648">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.991" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="41968" g_stop="42049" g_length="82"/>
          <reference_exon_boundary r_type="cDNA" r_start="271" r_stop="352" r_length="82" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="42050" i_stop="42690" i_length="641">
            <donor d_prob="0.992" d_score="1.00"/>
            <acceptor a_prob="0.967" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="42691" g_stop="42776" g_length="86"/>
          <reference_exon_boundary r_type="cDNA" r_start="353" r_stop="438" r_length="86" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="42777" i_stop="42849" i_length="73">
            <donor d_prob="0.911" d_score="1.00"/>
            <acceptor a_prob="0.991" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="42850" g_stop="43041" g_length="192"/>
          <reference_exon_boundary r_type="cDNA" r_start="439" r_stop="630" r_length="192" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="43042" i_stop="44066" i_length="1025">
            <donor d_prob="0.984" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="44067" g_stop="44963" g_length="897"/>
          <reference_exon_boundary r_type="cDNA" r_start="631" r_stop="1527" r_length="897" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="1528" polyA_stop="1545"/>
      <MATCH_line gen_id="C04HBa0072F06.1" gen_strand="+" ref_id="SGN-U322720" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>1527</cumulative_length_of_scored_exons>
        <coverage percentage="0.988" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0072F06.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-U322720" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="36166" e_stop="36175"/>
          <exon e_start="36264" e_stop="36377"/>
          <exon e_start="41174" e_stop="41319"/>
          <exon e_start="41968" e_stop="42049"/>
          <exon e_start="42691" e_stop="42776"/>
          <exon e_start="42850" e_stop="43041"/>
          <exon e_start="44067" e_stop="44963"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAGAAGAAGGTAAACAACACCTAATATACATGGTTTCCTTAATTTGTTAAACCTATTTGAGATCTCTAATAACTAGGCTTATTGTTTTTGATTACAGCCTGATTTAAATGTGAGGGAGAAGATTTTGATTTTGATAGATTCATGGCAAGAAGCTTTGGGAGGGCCAGGGGGACGATTTCCCCAGTATTACGCTGCATATAATGAGCTGAAGGTGATTTATTTGTGTCTCTATTATTATGCTCTTGCACCTGTCAGTCTTTAAGTGAAAGTCTGTTCAACGTCGTCCTTGGTTGATTTTCCCCTTACTGTAGCACTTGCTATAGCAAAGGTTCATGTTTTTTCAGTTGCAGTTGGTAATAATGACTTAGATATTTTATCACATAAAAGAAATAAATTCCTGGATATAGCTGAATCAATTCCTCTCTTACTTTCTCAATAAAAAAGATTATGGTGTAACCAAAAGTGGCTAAGCAAGTCTAGGTGTCAGAAATGATCTGTTAGATAAGAAAGTGAGTATGGTTTTCCTGATATCAGTTCACATTGACCTCTATTTAGATTCTTTTGAACTGGATAAAATGAACCGAAGGGAATGGAAAATGAACCAAAGATAGATGAATACAATAGAAAGAAGAGAGTTCCTTCCTTTTTTTTTTTTTGAGAAAGGTAACATTCGTATGTATTGACAAAAACCAGTACATGGGTTTTAATGAAAACCATAATTACAACTTATCAACAAAACAAGATATCTGAATCTAAATTCTAAATAGAGCCAAGGATCTCAATAATTGACTCAGTATCCTCTAAGTACAACTGTTTACACCAGAAACAAAAAAGTTTGATACAGTTCAATTTGATCTTCTGGAGATCACAACTTTTGCTCTCAAAACATCTAGCGTTTCTCTCTCTCCACTCTCCAGACTGTCCACCAGATACAGGCTGGGACAATCTTCCAACTATCTCTGTCTGAAGCTCCCCCACCTACCTCTTCCCAACTGTAGAGAAAGGTGGGTGATCCCGTTAGGCATAGTCCAAATAACACCCCTGAGGCTGATAAAAATCCTCCAACGTTGGGTTGTTATCCTGCACTGTAAAAATAGATGGCCAACTGTCTCAACCTCTTCTCCACACAAATAGCATCTCGAGCACACAGAGAACTTCTTCTTCTTGAGATTATCTTTTGTCAGGACTACTTCTCTTGCCAGTAACCAAGTAAAACATGCCACCTTGAAAGGGGTTTTTGTTTTCCAGATCTGTTTATATGGCCAATTTGATGGTTGTTGGCCACCTTTGTTCAAAAACTTGTATGCTGAGTTCACCTTTAACATGCCTTTGCTGTCTTTGTTCCACCATAATCTATCAACTTCATTCTTTGTCCCTTTGATCTCTGCGAGAGCTTTGAAAAATTCTGTCACAGTTTCAATTTTCCCAGTCATTAAAATTTCTTCTTAAATGGATGTTCCATCCTTGATGTGTCCAACTGTCAGCTACACTCATTTGTTGATGTATTGCCAAAGCATACAGTTCAGGAAAAGATTTTTTAAACTAGCATGTCCCAGCCATTTGTCCTCCCAGAATGAATGAGGTCTTACTTCGATTGCCTACCCTCACAGTTGTGTTATTTCTCAAACAAGGCCACATGATTCTGATAGACCTCCATAGACTTACACCATAGGGTGTTGATACCTCATTTGTCATCCATTTGTCCTCATCTCCATATTTAGCTTTAGTTGCCTTCCTTTTAGGTGCAGAGTATAACTGGAGAAGAATAATTTTTACCTCTACATTGCCCTGTTGAATAATTAAGCGGTCCTTAGTAGAAACTAGTTTCTCTTGCCAAACCAAACAAGTTAAATGAATTCAACAAAAGAAGTGCTAACCAACTATTGATCATGGAAGTTCTGCAGAATTTCTGTTTATGAGACTGCTACAGCCTAATTGATGGATTCAACCTCATTTTATCAATATATGTTGCCTTTGGCTTCCGTTTGCTTTCCCACTCGTTATTTCCTAAATGGAGAGTACTTCCCTCCAATATTATTTTGTCTGTAAATTAGTTAACTGATACTAGCTTCAGCTCAAAAGTTTTGGCAAAGACTTCCTGAGATGATAGTTATATTTTTCTTTCTGTTGTCAACTTCATAATTGCAAAAATATGTTTAAGAGCATTAACGTTTGAGTCCTCAAAACATGTTTGATATACTCAGTTCAGTTATGGAATCAATCCTCACAACATGTATTTACAGTTATGGGGATCTAGCTAAATATAGATCATTATAGAGGCCTTTCTGGGAAGTATGCTTTTTCTACGTGGAGCATTAACATAAAATATTTAGCTCCTCTAATAGGAAAATAAAGAGGACAAGGTTTAACCTCACAGCACTAAGATGAATGCGTTGGTTCTGTGAATGTTCAGACATATGCAACTTATAGAGAGTTAGGACCACTTTTAGTAGGTTCAGACATATGCAAGTTATAGAGAGTTACTACCACTTTGAGAAGTACACATTATGCCAGTAAAAGACAGATTTGTTCTAATAACACATCAAGTGGACAAAAATTGGAAGTCCTGTTGATCTAGGATAACTTTTCTATGCAGTTTATATCTTCTTATATGCTACTCTTTTTACTGTTGTGCTGTGCATGCTTCTTTTTCTTTTAATTTTTTCGAAGTTCTCTTCATATACTAGTTGAAATTGCATATTGCACTTTTCTATGCGAGTGGTTTTCATTTTTCAGTAGATCTTTTAGAAATACCGCATGCCAATTAAGGTGTGTATTTTCAAATGTGTTATTGCAATTTTTTTTAAAATGTCAAGCTGCTTTTACGTGGATTGTCTTCCATACAGAATTCTGTGTGGGGTGTGCAGGTTAAACAAGCATCCTGGATGATACAGAATTTTGTCTTCCATAATAACTATGTAACCATACCACCCACAGTTTGTCCTTTTTCTTGCATAGGTTCCACAGCGGCTTCCATAATACTGCTATACCTTACATTGATGCTAAATATAACACAGAAACAACATAAATCTTTAAATTAATAGAGTGTCCTAAATTATTAAAAATTCCAAAATACCTTCTATTTCCTCTATACACAAGAAATTGTTTGACATCGTCATTGTTCCATTGTATAACCGTAGCTTCTGACATGTTTTTGTACCAGAGAGTTCTTTATATACGTGTTGCCTTTGTCCTGAGTTGTTGTGTTTTCTTAATCACCTCAACCTTTACAGTTCACCAACATTTTTGTTCTTTTCTTTTATATTTTTTTGGGTTTTTCTAATGTACAATATTAATGGCTGCACCATTGAATAAAAGAAAAGTACAATATTAATGGCTGCACTGTTTAATCATGCTATGGTAATTCTTGCTATGATCTTAGGGTTACTTCGAGTACGTTTTATAATTCACAACTCTTTTCCTAAGTTTTCTTATATGTTTCTTGTATAAGTTGATTGCTCATGATTTGTAGAACTTCTCTAATGAATGGAGGATACCATTTTGTATCATTATGTTTGAATTAATCCATTGTCACAGTTGCTCCATCGTATTGCATTTGTTTCTTTTGTAACCCTTTTCCTCTCCAATTAGGAAATCAAGATGGAAATGAGTTGTTTTAGATTTTACCGTGTATCACCTGAAGCCTTCATCTTCTTATGTAGACTAGCTTCTGGACACACGTGTCAATCAATACAATTTTCTTAAAATCACATGAATATTATTAACATGCCTGTTGTATAAAAAAAATCATAATTTGAAGGAAAAAAGGTGTAAACACCTTTAGCAAAATGTGAAGTATATCAACTGCTATACCATTGTAATTTGTTACATCAAAATTCTGTATGTTAAGATCACACTCCTATATATGGAGACTTAGTTACATTTTAAAACTAAGTATGATATGGTGGTGAAAATAATTTTTCCAAGAAATTAATATCAGACTTAACATGATTTGAGTAAAAGCATATAAGATTTCACACAGGCTATTGTAAAATTTTACACAAAAAAACTTGCTCATCGCCTCATCCATTGTGGATTGTCTGTCAATTTTCAGTAAAAAGCACAGAAGTTTCCAATTTATTATTGATTAACTCACGTTTAAATTAAAAGATTAGTCATAGAATCGACAAGAATACTTCTGGCAACTTAATTAGATTTGTACTTTTGTCCTCACTGGAACATTAAATTTAACTTCTCCTTGCTATTTTGTTGATATAATATGCACCATTTGTTAGCGACAAGGGTATATATGCGCCATTTTTTTAACGAGGGTATATCCGTTACGATGTTCTAAATCATAAAGTTTGAAGAGTATCTTTGCCCCTTTTCCATAAATGAAGTAAATAACCTCTGCTGCATGCATACATTCTCGTAGTTAGAACTTTTTAAAAAGATCTTTTGAACAGTTGCCAGTTCAAAAAAAAGAAGATCTGTTAATTAACAAATGATATATATACAGCAGTAACCAGTGTTACTATGGCTTTTGTGCCGGCCTCCATCCTAGTTCCCTGGCCTGCAAGAAGAGAATGCTACAATATTGTGTTGTCTAATATTGGTGTTTATAAATGTGTGCGACAAATTGGTTAACTTGAAGTTGAACGTTTTCTGGCTTCTATCTTGAACTATATTGTGACATGGTGTTTGTTCCAAGTTTAATCGAAGACTACTTAGCATTAATTGAATTTGGTTGGGAGTTTAAAACTTACCACAAATTACAGAAGATACAAAATATATGATGATTATACATTCTATATGCATATCTAACAGGGTATTGGAAAAGATTCTGAATGACTTGATTGTTAATGTCAATTTTTTTTTTTTTAAACATTGATGTTTAAGAGATAATGATTTATAAAGATACTACCATCAATCAACATTTAAAGGTTATTTTGTCATTCTGTCTTCCAACTTTTATACTTGATAATATTAGTTTTTATTAATTTGATTGATCACTGATCTAGATTCATTCAAATCTTCATATGTTTTCTTTAAAAATGAACATTGCAGGCTGCAGGTGTAGAGTTTCCACCTCGAGAGGAAAACAGTGTACCTTTATTTACACCACCACAAACCCATCCAATAGTCCACACGCCTTCCGCTTATGAGGAGGCTGCAGTTGAGGCCTCTCTTGAGTCTGATCCCTCTGGACTCAGGTATTGATTAACTTATTCTTTCCGTTTAGTACGGTTCATGCTCAAAGTGTTAGAATTCTGTTTATGAACATTTCACTTATTAAAGGACACTATTAAGATCTATATGGATATTGTTTATGTGCACCTTCCTCTTTTCAGTAAGTGCTTCACTATTGTTTATATGCACCACCTCTCTGTTTTAAAGGTCAATTAGTGTACCTTTATTGGACTCCCGAGTTTACTATCTAGAGATTGAAATTTTTGGTAGTACTTGTGGTATCCAGCATTTATGGCAACTTTGTTCTAGTGTAAGTGAAGTTTCTGATTCAAACAATGCATTGTTGGATGAAAAAGGATGGGTGGTCTTAGATAATCTTCCCCTCTTTAGAAAGCTTTTGGGGTTGAGGTCCATTTATCGTTGTGTCAGAGCAGGTCCCATCCTAATTCGTAGTTGATTAATTTTGGCACCCCATATTGAATTTCCCACGCCCCAGATGTCTATCCCTGGGCATGGGGTAGAGTGTTAAAGAGTTCCACATTGGATGAAAAAAGGATGGACGGTCTCCATGCATTATTGTCTTTGGACAATCCTCCCCTCTTGAGTAAGCAACATTTCTAAAGAACTGGTAATTTCAAGTAAGTGACATTTTTGGTATCCTGTCTTTTCAGTGTCGCGGAGATTCAAAGTGCCGAGGGGCTATCAGATGTCCTCACGGAGATGCTTGGTGCCTTGGATCCAAAGAACCCTCAGGTCAGAACTTGGTTTGTGCTCTTTTTTCTCAGGTTCATAGTGGTTACTTATCCCCATTCGCTACTATAAAAGTTGAAAACCGGAAGGGTGATGTGAATTATTCGTAGGTTAAATGAGTTTTTAAAGATAGTCTTTGGGTGCTTTATTCGGTTAAGTGGAAAATTTCAGAACTATACTTTCTCTGAATGCTACCTTCCACCCCTTCACTAATTGAAATGAGAAGCTTAGTTAAAATGATAACTATCCCCTCCCCGGTGAAACAAAAATTAGTAGAGGAAAAATAAATTGTACCTTCAGAAGTCCTTTTAAAAATATCTGGCATGGCTTTTGTCTCCCTTTTTGATGGGGGCATGTTGTTACATCTAGGTCTTTATTGGGTTTTTGTTTAATTTTGTAGGTTAAATAGGGTTACTAAAGTGTAGATATCCTATTCTTCCTTTCAGTACTTTTATAGCTGAAATACTAGGAACTATCATGTTGTATTCCATTTTCAGTATAAGTGATGTTACATTCCATCATTGAGTGTTAAAATACATATCGGTTCATCAACATTGTTTCATGCAATTTGTGTTTGGCGTAACTTGTCAAGTCCAAGATGAATTATCGTTCGTGTTTTAATTTATTATGTGACGTCTATGCAGTCCGTGAAGGAGGAGGTGATAGTCGATCTTGTTGAACAGTGTCGGTCTTACCAAAAGCGTGTGATGATTCTTGTGAACAACACAGTGTAAGAACCTGAAGTTTTAGTGGTTTTATTACAATTTTAAAAGCATGTTAACATTGTTTTCCTTTGCAAATAGAGACGAGGATCTGCTGTGTAAAGGATTGGCACTCAATGACAATCTGCAGCGAGTTCTTCGTAGACATGACGATATTGCCAAAGGAACCTCAACAATTACTGTACCACCCAGAGAAACTCCTGTTGCACCCCTTATGAATGTGAATCATGAGGATGATGAGTCAGAAGATGATTTCTCTCACTTATCACGGAGGTAATGCTTGGTCATTTTGCTATTATACTGATTCTCTTTCTCCACCCGCACAGTAGTTTTGTTCAGTTTTATATAGTTTTGCCTTGTTTGTGCTGTTCTTACTGCAAATATTGCCACTTTAGAGTACGAGATGCAGTAAAGCATTTAGATGAGATCCTTAGATGGTCATTGATATGAGAATATAAATTAATTCTCTATTCTCCATCAAGGGAAGTTGGATTCATTTTGCGGCGAAGAATATTATGTCAAATGGTTCCGAGATATCATTTTCACTTTAGTTCTCTCAGCTGTTTAGGTGGTTAATACACTTCAAAATAGCCTATTTGAAATGCATCTGAGGTAACCTACTTATAGATTTTTTTCACTGAAAAACAGTTGTAGTTAATTCCATTAGTACTAATATTGGGCTGGTTATATTACCATAAGAAGTTTGGGGCCAAAGGCCTAAATAATGTTTTTGAGGGGAAAGTTTGGGGTAAAAGAGTCCATGGTACCCAATTCTTGATTTTTTTTCTTTTCTGGACCTACTTTTGGTGGTGTGACCATAACTTCATAGTATTGTCAAATTCAGAGGACAATTCACTGGTTCTCAAGGGAAAGACTTCTGCAGATTGATATTGGTGTCCACTGTCCAGGAGCTTAAGAAATTGTGCAATCTAGTGTCTCTGTGAATTTACTATATTCATTTGTGTGCTGGCATGACACAATTCTGTTTCTTGGTTAAGAATAATATTCTTTGAGTGAGATTCTTGAGCAATGAGACTGGAACACCTTGCCATGATGTCCCTTTTGGGGGGGGGGGGGGAGAGACAATGACGATTAAGAGATTATAACTTATAATTGTCAATATGTTTATAACCATTGTTAAGTTTAGAGGTTTGTGCTTTAATTTGATCAAGAATTCCAAAATGCGTAGGAATATTTTGTTGTGCTTTTTCCAAAATCTCTATTAGTATCCCTTGACGGTGTGGTCTTTGGCTTTTGTTTTTCCTTTTCTTGATGTGTTACTGTCACTCCATTTGCAGAACTTCAAGAGATCCATCACAGGGACAGGGGCGGAAGACTATTGATGTGAAGAGTGAGCCAATGCGAATTACTCCAACTCTTCCTCCTCCACCTTCATCAAGGAGACCAGTTTTTACGGATGGGAAAATGGTTGATTATCTCAGCGGTGACAGGTTTGAATCTGAAAGATCAATGGGAACAGAAGGATCATCACCTATTGCTGCTTCAACTAATTCAAACAATGCGAGTTCCATCCCATGGTCAAGTCCCAAGCCATCTTCATCTGCACCCCCTCCAGATGATTTGCTAAATCCAACTGCTGATGAGAACTTCTTGAACCCCACTGCATCTATGTTTACTGGAAAAAACAACCAGAATGAATCCAATTCAAAAGCCAAATCTGCTGATAACTTGCCTCCAGCACCTTGGGATGCTCCTCCTCCTACCGCAATCCCTCCACCACCAGCCAGATATGATCAGAGACAGCAGTACTTTGAGAAACATGTTTCTGGTGGCTCCCCTCCCGCAAGAACTGGATCGAGTTCCTATGACAGCATAGTTGGACAAACAAAGAATCTCTCTATTAATTCTTCTTCACCATCCAAACCAGAGAAACCTGAGGACGCACTCTTCAAAGATCTTGTTGATTTTGCAAAAGCCAAGTCTTCCTCATCTTCAAACCAATCCAATAGATCATTTTGAGTGATTTCAATGAATATGAATAATGTGTGGTGGGGTGTATATCTACTTTTTCTTCTTGTAGCAATAAATATTAGAGAGGACTGAGTTTTATGGATTACTGGTGCTGCTTCTTCTGCTTTATTTTCTGTTCGGCTTTCAGCCTTTAGGTGAGTGATAGTGTAGCTGACATGACATTTATATCTTGGATCATATAAGATGGTTAATATTTCTGTTTT</genome_strand>
        <mrna_strand>GAAGAAGAAG........................................................................................CCTGATTTAAATGTGAGGGAGAAGATTTTGATTTTGATAGATTCATGGCAAGAAGCTTTGGGAGGGCCAGGGGGACGATTTCCCCAGTATTACGCTGCATATAATGAGCTGAAG............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTGCAGGTGTAGAGTTTCCACCTCGAGAGGAAAACAGTGTACCTTTATTTACACCACCACAAACCCATCCAATAGTCCACACGCCTTCCGCTTATGAGGAGGCTGCAGTTGAGGCCTCTCTTGAGTCTGATCCCTCTGGACTCAG........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TGTCGCGGAGATTCAAAGTGCCGAGGGGCTATCAGATGTCCTCACGGAGATGCTTGGTGCCTTGGATCCAAAGAACCCTCAG.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TCCGTGAAGGAGGAGGTGATAGTCGATCTTGTTGAACAGTGTCGGTCTTACCAAAAGCGTGTGATGATTCTTGTGAACAACACAGT.........................................................................AGACGAGGATCTGCTGTGTAAAGGATTGGCACTCAATGACAATCTGCAGCGAGTTCTTCGTAGACATGACGATATTGCCAAAGGAACCTCAACAATTACTGTACCACCCAGAGAAACTCCTGTTGCACCCCTTATGAATGTGAATCATGAGGATGATGAGTCAGAAGATGATTTCTCTCACTTATCACGGAG.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AACTTCAAGAGATCCATCACAGGGACAGGGGCGGAAGACTATTGATGTGAAGAGTGAGCCAATGCGAATTACTCCAACTCTTCCTCCTCCACCTTCATCAAGGAGACCAGTTTTTACGGATGGGAAAATGGTTGATTATCTCAGCGGTGACAGGTTTGAATCTGAAAGATCAATGGGAACAGAAGGATCATCACCTATTGCTGCTTCAACTAATTCAAACAATGCGAGTTCCATCCCATGGTCAAGTCCCAAGCCATCTTCATCTGCACCCCCTCCAGATGATTTGCTAAATCCAACTGCTGATGAGAACTTCTTGAACCCCACTGCATCTATGTTTACTGGAAAAAACAACCAGAATGAATCCAATTCAAAAGCCAAATCTGCTGATAACTTGCCTCCAGCACCTTGGGATGCTCCTCCTCCTACCGCAATCCCTCCACCACCAGCCAGATATGATCAGAGACAGCAGTACTTTGAGAAACATGTTTCTGGTGGCTCCCCTCCCGCAAGAACTGGATCGAGTTCCTATGACAGCATAGTTGGACAAACAAAGAATCTCTCTATTAATTCTTCTTCACCATCCAAACCAGAGAAACCTGAGGACGCACTCTTCAAAGATCTTGTTGATTTTGCAAAAGCCAAGTCTTCCTCATCTTCAAACCAATCCAATAGATCATTTTGAGTGATTTCAATGAATATGAATAATGTGTGGTGGGGTGTATATCTACTTTTTCTTCTTGTAGCAATAAATATTAGAGAGGACTGAGTTTTATGGATTACTGGTGCTGCTTCTTCTGCTTTATTTTCTGTTCGGCTTTCAGCCTTTAGGTGAGTGATAGTGTAGCTGACATGACATTTATATCTTGGATCATATAAGATGGTTAATATTTCTGTTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0072F06-LxqYn/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U329773" ref_strand="+" ref_description="SGN-U329773        Tomato 200607 #1 [3 ESTs aligned] arabidopsis/peptide: AT2G24180.1 | Symbol: None | cytochrome P450 family protein | chr2:10288927-10290815 FORWARD | Aliases: F27D4.9, F27D4_9 (evalue: 6e-35, score=143) genbank/nr: gi|6739506|gb|AAF27282.1| cytochrome P450 [Capsicum annuum](evalue: 3e-52, score=207)">
      <seq>ggaattcggcacgaggccttttttttcttagcttccaaaaatggagtatcaacattatcccttaattatctttatctcacttgttctcttcctctcctctttgttttttctgtctcaaaaatggaaatctgcaaacaaaaagttgcctcctggaccatggagactaccttttataggaaacatgcatcaactaatgagcgatttaccacatcgttcacttagaactctatcgaaaaaatatggcccaatcatgcacttacgtcttgggaatatttcaaccattgttgtatcgtcaccagaaatggcaaaagaagtcatgaaaactcaagacctccattttgtagatcggccacaaattatgtccgcgagtatcatattttatgattgcacggacataggctttagttcctatggagattactggagaaatatgcgaaaggtttgtgtactagaacttcttagtacaaaaatggtcaaatcatctgcttcaattcgacaagaggagatatcaaatctcatttcctctctccgttccactgcacctgactcgttgatcaacttatccaacaagatcttttggtttacaaataccgtaacttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0072F06-LxqYn/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C04HBa0072F06.1" temp_strand="-" temp_description="C04HBa0072F06.1  CU929468.2 htgs_phase:3 submitted_to_sgn_as:C04HBa0072F06 sequenced_by:sanger upload_account_name:uk">
        <position start="55685" stop="54516"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="55401" g_stop="54816" g_length="586"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="600" r_length="600" r_score="0.930"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0072F06.1" gen_strand="-" ref_id="SGN-U329773" ref_strand="+">
        <total_alignment_score>0.930</total_alignment_score>
        <cumulative_length_of_scored_exons>586</cumulative_length_of_scored_exons>
        <coverage percentage="0.977" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0072F06.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U329773" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="55401" e_stop="54816"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATAAGTGTGCATTTTTCCTTTTTTTTCTGAGCTTCCAAAAATGGAGTATCAACATTATCCCTTAATTATCTTTATCTCACTTGTTCTCTTCCTCTCCTCTTTGTTTTTTCTGTCTCAAAAATGGAAATCTGCAAACAAAAAGTTGCCCCCTGGACCATGGAGACTACCTTTTATAGGAAACATGCATCAACTAATGAGCGATTTACCACATCGTTCACTTAGAACTCTATCGAAAAAATATGGCCCAATCATGCACTTACGTCTTGGGAATATTTCAACCATTGTTGTATCGTCACCAGAAATGGCAAAAGAAGTCATGAAAACTCAAGACCTCCATTTTGTAGATCGGCCACAAATTATGTCCGCGAGTATCATATTTTATGATTGCACGGACATAGGCTTTAGTTCCTATGGAGATTACTGGAGAAATATGCGAAA-----G-G---T-----TTCTTAGTACAAAAATGGTCAAATCATCTGCTTCAATTCGACAAGAGGAGATATCAAATCTCATTTCCTCTCTCCGTTCCACTGCACCTGACTCGTTGATCAACTTATCCAACTAGATCTTTTGGTTTACAAATACCGTAACTTG</genome_strand>
        <mrna_strand>GGAATTCGGCACGAGGCCTTTTTTTTCTTAGCTTCCAAAAATGGAGTATCAACATTATCCCTTAATTATCTTTATCTCACTTGTTCTCTTCCTCTCCTCTTTGTTTTTTCTGTCTCAAAAATGGAAATCTGCAAACAAAAAGTTGCCTCCTGGACCATGGAGACTACCTTTTATAGGAAACATGCATCAACTAATGAGCGATTTACCACATCGTTCACTTAGAACTCTATCGAAAAAATATGGCCCAATCATGCACTTACGTCTTGGGAATATTTCAACCATTGTTGTATCGTCACCAGAAATGGCAAAAGAAGTCATGAAAACTCAAGACCTCCATTTTGTAGATCGGCCACAAATTATGTCCGCGAGTATCATATTTTATGATTGCACGGACATAGGCTTTAGTTCCTATGGAGATTACTGGAGAAATATGCGAAAGGTTTGTGTACTAGAACTTCTTAGTACAAAAATGGTCAAATCATCTGCTTCAATTCGACAAGAGGAGATATCAAATCTCATTTCCTCTCTCCGTTCCACTGCACCTGACTCGTTGATCAACTTATCCAACAAGATCTTTTGGTTTACAAATACCGTAACTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0072F06-LxqYn/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U346104" ref_strand="+" ref_description="SGN-U346104        Tomato 200607 #1 [1 ESTs aligned]">
      <seq>tttttttttttttttttatttaatatattatgtatagtcataataaagaaaatttacaaggtactgaaaatttataaaagaacaaataaagaaatttaaacgtagtgaaagttaggcgagttaaattatgacccgcaattttaatcaatcacagctcaatccatttcaactcgatcatttgccacttacaatgttgtgtattacttcatcaatttgttgtgaaagaggaatctgggcatcaagatgcaactttgttcctaatcccttgagcaataatagaatactttgtgaacttttgaccacacttgcctcatgaacaataacttcaaaactatccatttgaatgtcatttgatgggcgatcttttcaattgaattcccctcta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0072F06-LxqYn/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C04HBa0072F06.1" temp_strand="+" temp_description="C04HBa0072F06.1  CU929468.2 htgs_phase:3 submitted_to_sgn_as:C04HBa0072F06 sequenced_by:sanger upload_account_name:uk">
        <position start="60646" stop="61621"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="60945" g_stop="61321" g_length="377"/>
          <reference_exon_boundary r_type="cDNA" r_start="8" r_stop="385" r_length="378" r_score="0.955"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0072F06.1" gen_strand="+" ref_id="SGN-U346104" ref_strand="+">
        <total_alignment_score>0.955</total_alignment_score>
        <cumulative_length_of_scored_exons>377</cumulative_length_of_scored_exons>
        <coverage percentage="0.979" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0072F06.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-U346104" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="60945" e_stop="61321"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTTTATTTTATTTAATATATTATATATAGTCATAATAAAGAAAATTTACAAGGTACTGAAAATTTATAAAAGAACAAATAAAGAAATTTAAACTTAGTGAAAGTTAGGCGAGTTAAATTATGACCCGCAATTTTAATCAATCACAGCTCAATCCATTTCAACTCGCTCATTTGCCACTTACAATGTTTTGTATTACTTCATCAATTTGTTGTGAAAGAGGAATCTGGGCATCAAGATGCAACTTTGTTCCTAATCCCTTGAGCAATAATAGAATACTTCTTGAACTTTTGACCTCGCTTGCCTCATGAACAATAACTTCAAAACTATCCATTTCAATGTCATTTGGT-GGTGATTTCTTCAATTGAATTCCCCTCTA</genome_strand>
        <mrna_strand>TTTTTTTTTTATTTAATATATTATGTATAGTCATAATAAAGAAAATTTACAAGGTACTGAAAATTTATAAAAGAACAAATAAAGAAATTTAAACGTAGTGAAAGTTAGGCGAGTTAAATTATGACCCGCAATTTTAATCAATCACAGCTCAATCCATTTCAACTCGATCATTTGCCACTTACAATGTTGTGTATTACTTCATCAATTTGTTGTGAAAGAGGAATCTGGGCATCAAGATGCAACTTTGTTCCTAATCCCTTGAGCAATAATAGAATACTTTGTGAACTTTTGACCACACTTGCCTCATGAACAATAACTTCAAAACTATCCATTTGAATGTCATTTGATGGGCGATCTTTTCAATTGAATTCCCCTCTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0072F06-LxqYn/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U337637" ref_strand="+" ref_description="SGN-U337637        Tomato 200607 #1 [1 ESTs aligned] arabidopsis/peptide: | Symbol: None | expressed protein | chr1:16710509-16712153 REVERSE | Aliases: F9C16.20, F9C16_20(evalue: 4e-12, score=68.9) genbank/nr: beta-galactosidase(evalue: 3e-29, score=131)">
      <seq>catgaagaactaatgaatgctactgttagagtctattttcattctagctcgaagaagtacaaccgtgtagaatgttggggtcctctaaaagatgcagctaagggaagacaaggggattatatcaatggtttgttatcgacaagcaaggaagattttcaacctctgaaattccagggaagtgcaaaatcaatcttccaagctcttttcaccttccttctctgagctaatacactaaggtgagagactgcaaagagtttatagatttaggtcgtttcgtcctaataattctactttttgcacttggaaggatctctcttgaaacacatattagagtcatgggatcctacatttcgatgacttgtaaagacgagaattgtttgcaaggtcattagattcttttaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0072F06-LxqYn/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C04HBa0072F06.1" temp_strand="-" temp_description="C04HBa0072F06.1  CU929468.2 htgs_phase:3 submitted_to_sgn_as:C04HBa0072F06 sequenced_by:sanger upload_account_name:uk">
        <position start="63030" stop="61639"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="62730" g_stop="62629" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="102" r_length="102" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="62628" i_stop="62240" i_length="389">
            <donor d_prob="0.964" d_score="1.00"/>
            <acceptor a_prob="0.994" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="62239" g_stop="61938" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="103" r_stop="404" r_length="302" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0072F06.1" gen_strand="-" ref_id="SGN-U337637" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>404</cumulative_length_of_scored_exons>
        <coverage percentage="0.985" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0072F06.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U337637" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="62730" e_stop="62629"/>
          <exon e_start="62239" e_stop="61938"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGAAGAACTAATGAATGCTACTGTTAGAGTCTATTTTCATTCTAGCTCGAAGAAGTACAACCGTGTAGAATGTTGGGGTCCTCTAAAAGATGCAGCTAAGGTAGCACATAATTACAACAATATCATCTTTTACTCGTTTGTCCTAAAGAAACATTCAGGCTTCAGCACATAGATAAAAAATGAAAATGAAATCTCTCGTTTGAATTTATTAGATAAAATGCCACTCTTTTATTCCATTTTGTGTGCCAAACTTACTAGTTCGCGAGTCTTTGTTTGATCATGGTTTTCCTACACATGTTTTTTTCATTTCCAAGTTTTAGTATGTGTGGTTAATTAAAGAAAGATAACACACTTGGTGCTTGAACTCGACTTAAAAAATGTTGTTTTGATGATCATACTGAACATTGGGGCAAGGGAGTGCTATTGAATCGAGAACTATATTCAAAGTTATTCTTCGAGATTTTTATACAACTTATTCATGTTTTCCAGGGAAGACAAGGGGATTATATCAATGGTTTGTTATCGACAAGCAAGGAAGATTTTCAACCTCTGAAATTCCAGGGAAGTGCAAAATCAATCTTCCAAGCTCTTTTCACCTTCCTTCTCTGAGCTAATACACTAAGGTGAGAGACTGCAAAGAGTTTATAGATTTAGGTCGTTTCGTCCTAATAATTTTACTTTTTGCACTTGGAAGGATCTCTCTTGAAACACATATTAGAGTCATGGGATCCTACATTTCGATGACTTGTAAAGACGAGAATTGTTTGCAAGGTCATTAGATTCTTTTACAT</genome_strand>
        <mrna_strand>CATGAAGAACTAATGAATGCTACTGTTAGAGTCTATTTTCATTCTAGCTCGAAGAAGTACAACCGTGTAGAATGTTGGGGTCCTCTAAAAGATGCAGCTAAG.....................................................................................................................................................................................................................................................................................................................................................................................................GGAAGACAAGGGGATTATATCAATGGTTTGTTATCGACAAGCAAGGAAGATTTTCAACCTCTGAAATTCCAGGGAAGTGCAAAATCAATCTTCCAAGCTCTTTTCACCTTCCTTCTCTGAGCTAATACACTAAGGTGAGAGACTGCAAAGAGTTTATAGATTTAGGTCGTTTCGTCCTAATAATTCTACTTTTTGCACTTGGAAGGATCTCTCTTGAAACACATATTAGAGTCATGGGATCCTACATTTCGATGACTTGTAAAGACGAGAATTGTTTGCAAGGTCATTAGATTCTTTTAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>10</total_number_ESTs_reported>
    </alignment_module>
  <PGL_module xmlns="http://www.genomethreader.org/GTH_output/PGL_module/">
    <predicted_gene_location>
      <PGL_line PGL_serial="1" PGL_strand="-" PGL_start="16497" PGL_stop="15963"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="16497" e_stop="15963"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.964"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.964">
            <gDNA_exon_boundary e_start="16497" e_stop="15963" e_length="535"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="16497" stop="15963"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U333179" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="1" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>GTTCTGACAAAGTTGCTTCAGACACATCAGGCTTTTCACCTGAGCATGGTAGAGCGATCATGGGTGAAGAAGTTGGTTCTTGATTAAGACGTGATATAAGTTGTGTGTGTGAAAGAGCCATTGTATGTGGATTGTACTCTAGTTGCTACCATCAAGCCAGGTAACATGACAAGTCAGACAGATGGGTGAAAAATGTGATACTGGATTGGGATAAGCTGAGTTGAGGATTTTCACAGAGTGAGTCTAGTTCTAGGTCATTTCAGAAGGTACAGAAGAGCAAATGCTAGGGATCCTGGAACTACAAATCTGCTAGAGGTATTAATGTTGGATTGGTGAAGGCCTAAGCCCCTAAAGGATGGCTTTGCTTGGTCATTGTGAGTGTGACTAGCGGTACAAAATGAAAATGATGGAAGAATACGCCATATGATCTTTGGATTCGAGTTGTTGCACTTAAACTTGTGTAGAAGTTGAATAAATATACACACATATTCTACATCACATAATATATACAAGACATTGCCGTGTAGAACGTATT</gDNA_template>
            <first_frame> V  L  T  K  L  L  Q  T  H  Q  A  F  H  L  S  M  V  E  R  S  W  V  K  K  L  V  L  D  *  D  V  I  *  V  V  C  V  K  E  P  L  Y  V  D  C  T  L  V  A  T  I  K  P  G  N  M  T  S  Q  T  D  G  *  K  M  *  Y  W  I  G  I  S  *  V  E  D  F  H  R  V  S  L  V  L  G  H  F  R  R  Y  R  R  A  N  A  R  D  P  G  T  T  N  L  L  E  V  L  M  L  D  W  *  R  P  K  P  L  K  D  G  F  A  W  S  L  *  V  *  L  A  V  Q  N  E  N  D  G  R  I  R  H  M  I  F  G  F  E  L  L  H  L  N  L  C  R  S  *  I  N  I  H  T  Y  S  T  S  H  N  I  Y  K  T  L  P  C  R  T  Y  </first_frame>
            <second_frame>  F  *  Q  S  C  F  R  H  I  R  L  F  T  *  A  W  *  S  D  H  G  *  R  S  W  F  L  I  K  T  *  Y  K  L  C  V  *  K  S  H  C  M  W  I  V  L  *  L  L  P  S  S  Q  V  T  *  Q  V  R  Q  M  G  E  K  C  D  T  G  L  G  *  A  E  L  R  I  F  T  E  *  V  *  F  *  V  I  S  E  G  T  E  E  Q  M  L  G  I  L  E  L  Q  I  C  *  R  Y  *  C  W  I  G  E  G  L  S  P  *  R  M  A  L  L  G  H  C  E  C  D  *  R  Y  K  M  K  M  M  E  E  Y  A  I  *  S  L  D  S  S  C  C  T  *  T  C  V  E  V  E  *  I  Y  T  H  I  L  H  H  I  I  Y  T  R  H  C  R  V  E  R  I </second_frame>
            <third_frame>   S  D  K  V  A  S  D  T  S  G  F  S  P  E  H  G  R  A  I  M  G  E  E  V  G  S  *  L  R  R  D  I  S  C  V  C  E  R  A  I  V  C  G  L  Y  S  S  C  Y  H  Q  A  R  *  H  D  K  S  D  R  W  V  K  N  V  I  L  D  W  D  K  L  S  *  G  F  S  Q  S  E  S  S  S  R  S  F  Q  K  V  Q  K  S  K  C  *  G  S  W  N  Y  K  S  A  R  G  I  N  V  G  L  V  K  A  *  A  P  K  G  W  L  C  L  V  I  V  S  V  T  S  G  T  K  *  K  *  W  K  N  T  P  Y  D  L  W  I  R  V  V  A  L  K  L  V  *  K  L  N  K  Y  T  H  I  F  Y  I  T  *  Y  I  Q  D  I  A  V  *  N  V   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C04HBa0072F06.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="2" PGL_strand="+" PGL_start="23498" PGL_stop="25436"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="23498" e_stop="24286"/>
            <exon e_start="25077" e_stop="25436"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.983" acc_prob="0.958" e_score="0.934"/>
          <exon-only e_score="0.997"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.934">
            <gDNA_exon_boundary e_start="23498" e_stop="24286" e_length="789"/>
          </exon>
          <intron i_serial="1" don_prob="0.983" acc_prob="0.958">
            <gDNA_intron_boundary i_start="24287" i_stop="25076" i_length="790"/>
          </intron>
          <exon e_serial="2" e_score="0.997">
            <gDNA_exon_boundary e_start="25077" e_stop="25436" e_length="360"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23498" stop="23831"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U312417" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23511" stop="24286"/>
              <exon start="25077" stop="25436"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U312415" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23842" stop="24286"/>
              <exon start="25077" stop="25431"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U312422" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23893" stop="24286"/>
              <exon start="25077" stop="25389"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U333543" strand="-"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="2" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>TTCCCTCAAGCCCATTTTACGAAACCCTAGCTCCCTTATAAGCCTAACAATCCGTCATTTTTCATCTTCACACATACACACACTCTGTAAACCCTAGCTGCATACCTTATACCTACAATCATGGCGGAAAGAGGAGGAGGGGAGAGAGGTGGGTTCGGTCGTGGATTTGGAGGCCGTGGTGGTAGAGGTGGAGACCGCGGTGGACGGGGCCGTGGCGGCCGTCGTCCACGTCGTGAAACAGAGGAGGAGAAATGGGTTCCGGTCACTAAGCTAGGAAGGCTTGTGAAAGATGGCAAAATTCGCTCACTTGAGCAAATTTACCTTCACTCACTCCCAATCAAGGAGTTCCAAATCATAGATACCCTCATCGGTCCATCTCTCAAGGATGAGGTGATGAAAATCATGCCGGTTCAGAAGCAGACCCGTGCCGGGCAGAGAACCAGGTTTAAGGCGTTTGTTGTTGTAGGTGACGGGAATGGTCACGTTGGTTTGGGTGTTAAGTGCTCGAAGGAAGTCGCTACTGCTATTCGTGGAGGAATTATATTGGCTAAACTATCAGTGATTCCAGTGAGGAGAGGTTACTGGGGTAACAAGATTGGTAAGCCACACACTGTGCCTTGCAAGGTTACAGGGAAATGTGGGTCTGTTACTGTGAGGATGGTGCCTGCTCCTCGTGGTGCTGGTATAGTTGCTGCTCGTGTCCCCAAGAAGGTCCTTCAGTTTGCTGGTATCGAAGATGTCTTCACATCTTCTCGCGGATCCACCAAAACCCTTGGCAACTTCGTTAAG : GCTACCTTTGATTGTTTAATGAAGACTTACGGGTTCCTGACCCCAGACTTCTGGAAAGAGACTCGGTTCACCAAATCTCCATTCCAAGAGTACTTTGATATCTTGGCAAAACCTGCCAATAAGGTTATTGTGTACGCCACTGAAGAGGCAGCACCTGAGAGGGTTGAGGCTTGATTCATTTTAGATGTGATATGAGTCCTTCTGTCGTTTTGTTCTAGTAGTTCTCTTCTCTGATACGTTAGTATTCTAAATTTTGTTCTGTTTCTGAGGGATATTTTCCGCAGACTTGCAAAACATAATGTTCCTTGTTTTGGTTTGTTTTCAACAATACATATGAATTTGATCTCATGTTTTTGCTTG</gDNA_template>
            <first_frame> F  P  Q  A  H  F  T  K  P  *  L  P  Y  K  P  N  N  P  S  F  F  I  F  T  H  T  H  T  L  *  T  L  A  A  Y  L  I  P  T  I  M  A  E  R  G  G  G  E  R  G  G  F  G  R  G  F  G  G  R  G  G  R  G  G  D  R  G  G  R  G  R  G  G  R  R  P  R  R  E  T  E  E  E  K  W  V  P  V  T  K  L  G  R  L  V  K  D  G  K  I  R  S  L  E  Q  I  Y  L  H  S  L  P  I  K  E  F  Q  I  I  D  T  L  I  G  P  S  L  K  D  E  V  M  K  I  M  P  V  Q  K  Q  T  R  A  G  Q  R  T  R  F  K  A  F  V  V  V  G  D  G  N  G  H  V  G  L  G  V  K  C  S  K  E  V  A  T  A  I  R  G  G  I  I  L  A  K  L  S  V  I  P  V  R  R  G  Y  W  G  N  K  I  G  K  P  H  T  V  P  C  K  V  T  G  K  C  G  S  V  T  V  R  M  V  P  A  P  R  G  A  G  I  V  A  A  R  V  P  K  K  V  L  Q  F  A  G  I  E  D  V  F  T  S  S  R  G  S  T  K  T  L  G  N  F  V  K  :  A  T  F  D  C  L  M  K  T  Y  G  F  L  T  P  D  F  W  K  E  T  R  F  T  K  S  P  F  Q  E  Y  F  D  I  L  A  K  P  A  N  K  V  I  V  Y  A  T  E  E  A  A  P  E  R  V  E  A  *  F  I  L  D  V  I  *  V  L  L  S  F  C  S  S  S  S  L  L  *  Y  V  S  I  L  N  F  V  L  F  L  R  D  I  F  R  R  L  A  K  H  N  V  P  C  F  G  L  F  S  T  I  H  M  N  L  I  S  C  F  C  L </first_frame>
            <second_frame>  S  L  K  P  I  L  R  N  P  S  S  L  I  S  L  T  I  R  H  F  S  S  S  H  I  H  T  L  C  K  P  *  L  H  T  L  Y  L  Q  S  W  R  K  E  E  E  G  R  E  V  G  S  V  V  D  L  E  A  V  V  V  E  V  E  T  A  V  D  G  A  V  A  A  V  V  H  V  V  K  Q  R  R  R  N  G  F  R  S  L  S  *  E  G  L  *  K  M  A  K  F  A  H  L  S  K  F  T  F  T  H  S  Q  S  R  S  S  K  S  *  I  P  S  S  V  H  L  S  R  M  R  *  *  K  S  C  R  F  R  S  R  P  V  P  G  R  E  P  G  L  R  R  L  L  L  *  V  T  G  M  V  T  L  V  W  V  L  S  A  R  R  K  S  L  L  L  F  V  E  E  L  Y  W  L  N  Y  Q  *  F  Q  *  G  E  V  T  G  V  T  R  L  V  S  H  T  L  C  L  A  R  L  Q  G  N  V  G  L  L  L  *  G  W  C  L  L  L  V  V  L  V  *  L  L  L  V  S  P  R  R  S  F  S  L  L  V  S  K  M  S  S  H  L  L  A  D  P  P  K  P  L  A  T  S  L  R :   L  P  L  I  V  *  *  R  L  T  G  S  *  P  Q  T  S  G  K  R  L  G  S  P  N  L  H  S  K  S  T  L  I  S  W  Q  N  L  P  I  R  L  L  C  T  P  L  K  R  Q  H  L  R  G  L  R  L  D  S  F  *  M  *  Y  E  S  F  C  R  F  V  L  V  V  L  F  S  D  T  L  V  F  *  I  L  F  C  F  *  G  I  F  S  A  D  L  Q  N  I  M  F  L  V  L  V  C  F  Q  Q  Y  I  *  I  *  S  H  V  F  A   </second_frame>
            <third_frame>   P  S  S  P  F  Y  E  T  L  A  P  L  *  A  *  Q  S  V  I  F  H  L  H  T  Y  T  H  S  V  N  P  S  C  I  P  Y  T  Y  N  H  G  G  K  R  R  R  G  E  R  W  V  R  S  W  I  W  R  P  W  W  *  R  W  R  P  R  W  T  G  P  W  R  P  S  S  T  S  *  N  R  G  G  E  M  G  S  G  H  *  A  R  K  A  C  E  R  W  Q  N  S  L  T  *  A  N  L  P  S  L  T  P  N  Q  G  V  P  N  H  R  Y  P  H  R  S  I  S  Q  G  *  G  D  E  N  H  A  G  S  E  A  D  P  C  R  A  E  N  Q  V  *  G  V  C  C  C  R  *  R  E  W  S  R  W  F  G  C  *  V  L  E  G  S  R  Y  C  Y  S  W  R  N  Y  I  G  *  T  I  S  D  S  S  E  E  R  L  L  G  *  Q  D  W  *  A  T  H  C  A  L  Q  G  Y  R  E  M  W  V  C  Y  C  E  D  G  A  C  S  S  W  C  W  Y  S  C  C  S  C  P  Q  E  G  P  S  V  C  W  Y  R  R  C  L  H  I  F  S  R  I  H  Q  N  P  W  Q  L  R  *   : G  Y  L  *  L  F  N  E  D  L  R  V  P  D  P  R  L  L  E  R  D  S  V  H  Q  I  S  I  P  R  V  L  *  Y  L  G  K  T  C  Q  *  G  Y  C  V  R  H  *  R  G  S  T  *  E  G  *  G  L  I  H  F  R  C  D  M  S  P  S  V  V  L  F  *  *  F  S  S  L  I  R  *  Y  S  K  F  C  S  V  S  E  G  Y  F  P  Q  T  C  K  T  *  C  S  L  F  W  F  V  F  N  N  T  Y  E  F  D  L  M  F  L  L  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0072F06.1" strand="+"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="23588" stop="24286"/>
                    <exon start="25077" stop="25250"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>870</number_coding_nucleotides>
                  <number_encoded_amino_acids>290</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>TLAAYLIPTIMAERGGGERGGFGRGFGGRGGRGGDRGGRGRGGRRPRRETEEEKWVPVTKLGRLVKDGKIRSLEQIYLHSLPIKEFQIIDTLIGPSLKDEVMKIMPVQKQTRAGQRTRFKAFVVVGDGNGHVGLGVKCSKEVATAIRGGIILAKLSVIPVRRGYWGNKIGKPHTVPCKVTGKCGSVTVRMVPAPRGAGIVAARVPKKVLQFAGIEDVFTSSRGSTKTLGNFVKATFDCLMKTYGFLTPDFWKETRFTKSPFQEYFDILAKPANKVIVYATEEAAPERVEA*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="23591" e_stop="23729"/>
            <exon e_start="23780" e_stop="24286"/>
            <exon e_start="25077" e_stop="25431"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.000" acc_prob="0.000" e_score="0.892"/>
          <exon-intron don_prob="0.983" acc_prob="0.958" e_score="0.949"/>
          <exon-only e_score="0.997"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.892">
            <gDNA_exon_boundary e_start="23591" e_stop="23729" e_length="139"/>
          </exon>
          <intron i_serial="1" don_prob="0.000" acc_prob="0.000">
            <gDNA_intron_boundary i_start="23730" i_stop="23779" i_length="50"/>
          </intron>
          <exon e_serial="2" e_score="0.949">
            <gDNA_exon_boundary e_start="23780" e_stop="24286" e_length="507"/>
          </exon>
          <intron i_serial="2" don_prob="0.983" acc_prob="0.958">
            <gDNA_intron_boundary i_start="24287" i_stop="25076" i_length="790"/>
          </intron>
          <exon e_serial="3" e_score="0.997">
            <gDNA_exon_boundary e_start="25077" e_stop="25431" e_length="355"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23591" stop="23729"/>
              <exon start="23780" stop="24286"/>
              <exon start="25077" stop="25413"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U312414" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23842" stop="24286"/>
              <exon start="25077" stop="25431"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U312422" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23893" stop="24286"/>
              <exon start="25077" stop="25389"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U333543" strand="-"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="2" AGS_serial="2" gDNA_strand="+"/>
          <translation>
            <gDNA_template>CTAGCTGCATACCTTATACCTACAATCATGGCGGAAAGAGGAGGAGGGGAGAGAGGTGGGTTCGGTCGTGGATTTGGAGGCCGTGGTGGTAGAGGTGGAGACCGCGGTGGACGGGGCCGTGGCGGCCGTCGTCCACGTC : GTGAAAGATGGCAAAATTCGCTCACTTGAGCAAATTTACCTTCACTCACTCCCAATCAAGGAGTTCCAAATCATAGATACCCTCATCGGTCCATCTCTCAAGGATGAGGTGATGAAAATCATGCCGGTTCAGAAGCAGACCCGTGCCGGGCAGAGAACCAGGTTTAAGGCGTTTGTTGTTGTAGGTGACGGGAATGGTCACGTTGGTTTGGGTGTTAAGTGCTCGAAGGAAGTCGCTACTGCTATTCGTGGAGGAATTATATTGGCTAAACTATCAGTGATTCCAGTGAGGAGAGGTTACTGGGGTAACAAGATTGGTAAGCCACACACTGTGCCTTGCAAGGTTACAGGGAAATGTGGGTCTGTTACTGTGAGGATGGTGCCTGCTCCTCGTGGTGCTGGTATAGTTGCTGCTCGTGTCCCCAAGAAGGTCCTTCAGTTTGCTGGTATCGAAGATGTCTTCACATCTTCTCGCGGATCCACCAAAACCCTTGGCAACTTCGTTAAG : GCTACCTTTGATTGTTTAATGAAGACTTACGGGTTCCTGACCCCAGACTTCTGGAAAGAGACTCGGTTCACCAAATCTCCATTCCAAGAGTACTTTGATATCTTGGCAAAACCTGCCAATAAGGTTATTGTGTACGCCACTGAAGAGGCAGCACCTGAGAGGGTTGAGGCTTGATTCATTTTAGATGTGATATGAGTCCTTCTGTCGTTTTGTTCTAGTAGTTCTCTTCTCTGATACGTTAGTATTCTAAATTTTGTTCTGTTTCTGAGGGATATTTTCCGCAGACTTGCAAAACATAATGTTCCTTGTTTTGGTTTGTTTTCAACAATACATATGAATTTGATCTCATGTTTTT</gDNA_template>
            <first_frame> L  A  A  Y  L  I  P  T  I  M  A  E  R  G  G  G  E  R  G  G  F  G  R  G  F  G  G  R  G  G  R  G  G  D  R  G  G  R  G  R  G  G  R  R  P  R   : R  E  R  W  Q  N  S  L  T  *  A  N  L  P  S  L  T  P  N  Q  G  V  P  N  H  R  Y  P  H  R  S  I  S  Q  G  *  G  D  E  N  H  A  G  S  E  A  D  P  C  R  A  E  N  Q  V  *  G  V  C  C  C  R  *  R  E  W  S  R  W  F  G  C  *  V  L  E  G  S  R  Y  C  Y  S  W  R  N  Y  I  G  *  T  I  S  D  S  S  E  E  R  L  L  G  *  Q  D  W  *  A  T  H  C  A  L  Q  G  Y  R  E  M  W  V  C  Y  C  E  D  G  A  C  S  S  W  C  W  Y  S  C  C  S  C  P  Q  E  G  P  S  V  C  W  Y  R  R  C  L  H  I  F  S  R  I  H  Q  N  P  W  Q  L  R  *   : G  Y  L  *  L  F  N  E  D  L  R  V  P  D  P  R  L  L  E  R  D  S  V  H  Q  I  S  I  P  R  V  L  *  Y  L  G  K  T  C  Q  *  G  Y  C  V  R  H  *  R  G  S  T  *  E  G  *  G  L  I  H  F  R  C  D  M  S  P  S  V  V  L  F  *  *  F  S  S  L  I  R  *  Y  S  K  F  C  S  V  S  E  G  Y  F  P  Q  T  C  K  T  *  C  S  L  F  W  F  V  F  N  N  T  Y  E  F  D  L  M  F   </first_frame>
            <second_frame>  *  L  H  T  L  Y  L  Q  S  W  R  K  E  E  E  G  R  E  V  G  S  V  V  D  L  E  A  V  V  V  E  V  E  T  A  V  D  G  A  V  A  A  V  V  H  V  :  V  K  D  G  K  I  R  S  L  E  Q  I  Y  L  H  S  L  P  I  K  E  F  Q  I  I  D  T  L  I  G  P  S  L  K  D  E  V  M  K  I  M  P  V  Q  K  Q  T  R  A  G  Q  R  T  R  F  K  A  F  V  V  V  G  D  G  N  G  H  V  G  L  G  V  K  C  S  K  E  V  A  T  A  I  R  G  G  I  I  L  A  K  L  S  V  I  P  V  R  R  G  Y  W  G  N  K  I  G  K  P  H  T  V  P  C  K  V  T  G  K  C  G  S  V  T  V  R  M  V  P  A  P  R  G  A  G  I  V  A  A  R  V  P  K  K  V  L  Q  F  A  G  I  E  D  V  F  T  S  S  R  G  S  T  K  T  L  G  N  F  V  K  :  A  T  F  D  C  L  M  K  T  Y  G  F  L  T  P  D  F  W  K  E  T  R  F  T  K  S  P  F  Q  E  Y  F  D  I  L  A  K  P  A  N  K  V  I  V  Y  A  T  E  E  A  A  P  E  R  V  E  A  *  F  I  L  D  V  I  *  V  L  L  S  F  C  S  S  S  S  L  L  *  Y  V  S  I  L  N  F  V  L  F  L  R  D  I  F  R  R  L  A  K  H  N  V  P  C  F  G  L  F  S  T  I  H  M  N  L  I  S  C  F  </second_frame>
            <third_frame>   S  C  I  P  Y  T  Y  N  H  G  G  K  R  R  R  G  E  R  W  V  R  S  W  I  W  R  P  W  W  *  R  W  R  P  R  W  T  G  P  W  R  P  S  S  T  S :   *  K  M  A  K  F  A  H  L  S  K  F  T  F  T  H  S  Q  S  R  S  S  K  S  *  I  P  S  S  V  H  L  S  R  M  R  *  *  K  S  C  R  F  R  S  R  P  V  P  G  R  E  P  G  L  R  R  L  L  L  *  V  T  G  M  V  T  L  V  W  V  L  S  A  R  R  K  S  L  L  L  F  V  E  E  L  Y  W  L  N  Y  Q  *  F  Q  *  G  E  V  T  G  V  T  R  L  V  S  H  T  L  C  L  A  R  L  Q  G  N  V  G  L  L  L  *  G  W  C  L  L  L  V  V  L  V  *  L  L  L  V  S  P  R  R  S  F  S  L  L  V  S  K  M  S  S  H  L  L  A  D  P  P  K  P  L  A  T  S  L  R :   L  P  L  I  V  *  *  R  L  T  G  S  *  P  Q  T  S  G  K  R  L  G  S  P  N  L  H  S  K  S  T  L  I  S  W  Q  N  L  P  I  R  L  L  C  T  P  L  K  R  Q  H  L  R  G  L  R  L  D  S  F  *  M  *  Y  E  S  F  C  R  F  V  L  V  V  L  F  S  D  T  L  V  F  *  I  L  F  C  F  *  G  I  F  S  A  D  L  Q  N  I  M  F  L  V  L  V  C  F  Q  Q  Y  I  *  I  *  S  H  V  F </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0072F06.1" strand="+"/>
                <serials PGL_serial="2" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="23595" stop="23729"/>
                    <exon start="23780" stop="24286"/>
                    <exon start="25077" stop="25250"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>813</number_coding_nucleotides>
                  <number_encoded_amino_acids>271</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>LHTLYLQSWRKEEEGREVGSVVDLEAVVVEVETAVDGAVAAVVHVVKDGKIRSLEQIYLHSLPIKEFQIIDTLIGPSLKDEVMKIMPVQKQTRAGQRTRFKAFVVVGDGNGHVGLGVKCSKEVATAIRGGIILAKLSVIPVRRGYWGNKIGKPHTVPCKVTGKCGSVTVRMVPAPRGAGIVAARVPKKVLQFAGIEDVFTSSRGSTKTLGNFVKATFDCLMKTYGFLTPDFWKETRFTKSPFQEYFDILAKPANKVIVYATEEAAPERVEA*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="3" PGL_strand="+" PGL_start="36166" PGL_stop="44963"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="36166" e_stop="36175"/>
            <exon e_start="36264" e_stop="36377"/>
            <exon e_start="41174" e_stop="41319"/>
            <exon e_start="41968" e_stop="42049"/>
            <exon e_start="42691" e_stop="42776"/>
            <exon e_start="42850" e_stop="43041"/>
            <exon e_start="44067" e_stop="44963"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.999" acc_prob="0.977" e_score="1.000"/>
          <exon-intron don_prob="0.994" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="1.000" acc_prob="0.991" e_score="1.000"/>
          <exon-intron don_prob="0.992" acc_prob="0.967" e_score="1.000"/>
          <exon-intron don_prob="0.911" acc_prob="0.991" e_score="1.000"/>
          <exon-intron don_prob="0.984" acc_prob="0.999" e_score="1.000"/>
          <exon-only e_score="1.000"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="36166" e_stop="36175" e_length="10"/>
          </exon>
          <intron i_serial="1" don_prob="0.999" acc_prob="0.977">
            <gDNA_intron_boundary i_start="36176" i_stop="36263" i_length="88"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="36264" e_stop="36377" e_length="114"/>
          </exon>
          <intron i_serial="2" don_prob="0.994" acc_prob="1.000">
            <gDNA_intron_boundary i_start="36378" i_stop="41173" i_length="4796"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="41174" e_stop="41319" e_length="146"/>
          </exon>
          <intron i_serial="3" don_prob="1.000" acc_prob="0.991">
            <gDNA_intron_boundary i_start="41320" i_stop="41967" i_length="648"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="41968" e_stop="42049" e_length="82"/>
          </exon>
          <intron i_serial="4" don_prob="0.992" acc_prob="0.967">
            <gDNA_intron_boundary i_start="42050" i_stop="42690" i_length="641"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="42691" e_stop="42776" e_length="86"/>
          </exon>
          <intron i_serial="5" don_prob="0.911" acc_prob="0.991">
            <gDNA_intron_boundary i_start="42777" i_stop="42849" i_length="73"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="42850" e_stop="43041" e_length="192"/>
          </exon>
          <intron i_serial="6" don_prob="0.984" acc_prob="0.999">
            <gDNA_intron_boundary i_start="43042" i_stop="44066" i_length="1025"/>
          </intron>
          <exon e_serial="7" e_score="1.000">
            <gDNA_exon_boundary e_start="44067" e_stop="44963" e_length="897"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="36166" stop="36175"/>
              <exon start="36264" stop="36377"/>
              <exon start="41174" stop="41319"/>
              <exon start="41968" stop="42049"/>
              <exon start="42691" stop="42776"/>
              <exon start="42850" stop="43041"/>
              <exon start="44067" stop="44963"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U322720" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="3" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>GAAGAAGAAG : CCTGATTTAAATGTGAGGGAGAAGATTTTGATTTTGATAGATTCATGGCAAGAAGCTTTGGGAGGGCCAGGGGGACGATTTCCCCAGTATTACGCTGCATATAATGAGCTGAAG : GCTGCAGGTGTAGAGTTTCCACCTCGAGAGGAAAACAGTGTACCTTTATTTACACCACCACAAACCCATCCAATAGTCCACACGCCTTCCGCTTATGAGGAGGCTGCAGTTGAGGCCTCTCTTGAGTCTGATCCCTCTGGACTCAG : TGTCGCGGAGATTCAAAGTGCCGAGGGGCTATCAGATGTCCTCACGGAGATGCTTGGTGCCTTGGATCCAAAGAACCCTCAG : TCCGTGAAGGAGGAGGTGATAGTCGATCTTGTTGAACAGTGTCGGTCTTACCAAAAGCGTGTGATGATTCTTGTGAACAACACAGT : AGACGAGGATCTGCTGTGTAAAGGATTGGCACTCAATGACAATCTGCAGCGAGTTCTTCGTAGACATGACGATATTGCCAAAGGAACCTCAACAATTACTGTACCACCCAGAGAAACTCCTGTTGCACCCCTTATGAATGTGAATCATGAGGATGATGAGTCAGAAGATGATTTCTCTCACTTATCACGGAG : AACTTCAAGAGATCCATCACAGGGACAGGGGCGGAAGACTATTGATGTGAAGAGTGAGCCAATGCGAATTACTCCAACTCTTCCTCCTCCACCTTCATCAAGGAGACCAGTTTTTACGGATGGGAAAATGGTTGATTATCTCAGCGGTGACAGGTTTGAATCTGAAAGATCAATGGGAACAGAAGGATCATCACCTATTGCTGCTTCAACTAATTCAAACAATGCGAGTTCCATCCCATGGTCAAGTCCCAAGCCATCTTCATCTGCACCCCCTCCAGATGATTTGCTAAATCCAACTGCTGATGAGAACTTCTTGAACCCCACTGCATCTATGTTTACTGGAAAAAACAACCAGAATGAATCCAATTCAAAAGCCAAATCTGCTGATAACTTGCCTCCAGCACCTTGGGATGCTCCTCCTCCTACCGCAATCCCTCCACCACCAGCCAGATATGATCAGAGACAGCAGTACTTTGAGAAACATGTTTCTGGTGGCTCCCCTCCCGCAAGAACTGGATCGAGTTCCTATGACAGCATAGTTGGACAAACAAAGAATCTCTCTATTAATTCTTCTTCACCATCCAAACCAGAGAAACCTGAGGACGCACTCTTCAAAGATCTTGTTGATTTTGCAAAAGCCAAGTCTTCCTCATCTTCAAACCAATCCAATAGATCATTTTGAGTGATTTCAATGAATATGAATAATGTGTGGTGGGGTGTATATCTACTTTTTCTTCTTGTAGCAATAAATATTAGAGAGGACTGAGTTTTATGGATTACTGGTGCTGCTTCTTCTGCTTTATTTTCTGTTCGGCTTTCAGCCTTTAGGTGAGTGATAGTGTAGCTGACATGACATTTATATCTTGGATCATATAAGATGGTTAATATTTCTGTTTT</gDNA_template>
            <first_frame> E  E  E   : A  *  F  K  C  E  G  E  D  F  D  F  D  R  F  M  A  R  S  F  G  R  A  R  G  T  I  S  P  V  L  R  C  I  *  *  A  E   : G  C  R  C  R  V  S  T  S  R  G  K  Q  C  T  F  I  Y  T  T  T  N  P  S  N  S  P  H  A  F  R  L  *  G  G  C  S  *  G  L  S  *  V  *  S  L  W  T  Q  :  C  R  G  D  S  K  C  R  G  A  I  R  C  P  H  G  D  A  W  C  L  G  S  K  E  P  S   : V  R  E  G  G  G  D  S  R  S  C  *  T  V  S  V  L  P  K  A  C  D  D  S  C  E  Q  H  S  :  R  R  G  S  A  V  *  R  I  G  T  Q  *  Q  S  A  A  S  S  S  *  T  *  R  Y  C  Q  R  N  L  N  N  Y  C  T  T  Q  R  N  S  C  C  T  P  Y  E  C  E  S  *  G  *  *  V  R  R  *  F  L  S  L  I  T  E  :  N  F  K  R  S  I  T  G  T  G  A  E  D  Y  *  C  E  E  *  A  N  A  N  Y  S  N  S  S  S  S  T  F  I  K  E  T  S  F  Y  G  W  E  N  G  *  L  S  Q  R  *  Q  V  *  I  *  K  I  N  G  N  R  R  I  I  T  Y  C  C  F  N  *  F  K  Q  C  E  F  H  P  M  V  K  S  Q  A  I  F  I  C  T  P  S  R  *  F  A  K  S  N  C  *  *  E  L  L  E  P  H  C  I  Y  V  Y  W  K  K  Q  P  E  *  I  Q  F  K  S  Q  I  C  *  *  L  A  S  S  T  L  G  C  S  S  S  Y  R  N  P  S  T  T  S  Q  I  *  S  E  T  A  V  L  *  E  T  C  F  W  W  L  P  S  R  K  N  W  I  E  F  L  *  Q  H  S  W  T  N  K  E  S  L  Y  *  F  F  F  T  I  Q  T  R  E  T  *  G  R  T  L  Q  R  S  C  *  F  C  K  S  Q  V  F  L  I  F  K  P  I  Q  *  I  I  L  S  D  F  N  E  Y  E  *  C  V  V  G  C  I  S  T  F  S  S  C  S  N  K  Y  *  R  G  L  S  F  M  D  Y  W  C  C  F  F  C  F  I  F  C  S  A  F  S  L  *  V  S  D  S  V  A  D  M  T  F  I  S  W  I  I  *  D  G  *  Y  F  C  F </first_frame>
            <second_frame>  K  K  K  :  P  D  L  N  V  R  E  K  I  L  I  L  I  D  S  W  Q  E  A  L  G  G  P  G  G  R  F  P  Q  Y  Y  A  A  Y  N  E  L  K  :  A  A  G  V  E  F  P  P  R  E  E  N  S  V  P  L  F  T  P  P  Q  T  H  P  I  V  H  T  P  S  A  Y  E  E  A  A  V  E  A  S  L  E  S  D  P  S  G  L  S :   V  A  E  I  Q  S  A  E  G  L  S  D  V  L  T  E  M  L  G  A  L  D  P  K  N  P  Q  :  S  V  K  E  E  V  I  V  D  L  V  E  Q  C  R  S  Y  Q  K  R  V  M  I  L  V  N  N  T  V :   D  E  D  L  L  C  K  G  L  A  L  N  D  N  L  Q  R  V  L  R  R  H  D  D  I  A  K  G  T  S  T  I  T  V  P  P  R  E  T  P  V  A  P  L  M  N  V  N  H  E  D  D  E  S  E  D  D  F  S  H  L  S  R  R :   T  S  R  D  P  S  Q  G  Q  G  R  K  T  I  D  V  K  S  E  P  M  R  I  T  P  T  L  P  P  P  P  S  S  R  R  P  V  F  T  D  G  K  M  V  D  Y  L  S  G  D  R  F  E  S  E  R  S  M  G  T  E  G  S  S  P  I  A  A  S  T  N  S  N  N  A  S  S  I  P  W  S  S  P  K  P  S  S  S  A  P  P  P  D  D  L  L  N  P  T  A  D  E  N  F  L  N  P  T  A  S  M  F  T  G  K  N  N  Q  N  E  S  N  S  K  A  K  S  A  D  N  L  P  P  A  P  W  D  A  P  P  P  T  A  I  P  P  P  P  A  R  Y  D  Q  R  Q  Q  Y  F  E  K  H  V  S  G  G  S  P  P  A  R  T  G  S  S  S  Y  D  S  I  V  G  Q  T  K  N  L  S  I  N  S  S  S  P  S  K  P  E  K  P  E  D  A  L  F  K  D  L  V  D  F  A  K  A  K  S  S  S  S  S  N  Q  S  N  R  S  F  *  V  I  S  M  N  M  N  N  V  W  W  G  V  Y  L  L  F  L  L  V  A  I  N  I  R  E  D  *  V  L  W  I  T  G  A  A  S  S  A  L  F  S  V  R  L  S  A  F  R  *  V  I  V  *  L  T  *  H  L  Y  L  G  S  Y  K  M  V  N  I  S  V   </second_frame>
            <third_frame>   R  R  S :   L  I  *  M  *  G  R  R  F  *  F  *  *  I  H  G  K  K  L  W  E  G  Q  G  D  D  F  P  S  I  T  L  H  I  M  S  *  R :   L  Q  V  *  S  F  H  L  E  R  K  T  V  Y  L  Y  L  H  H  H  K  P  I  Q  *  S  T  R  L  P  L  M  R  R  L  Q  L  R  P  L  L  S  L  I  P  L  D  S   : V  S  R  R  F  K  V  P  R  G  Y  Q  M  S  S  R  R  C  L  V  P  W  I  Q  R  T  L  S :   P  *  R  R  R  *  *  S  I  L  L  N  S  V  G  L  T  K  S  V  *  *  F  L  *  T  T  Q   : *  T  R  I  C  C  V  K  D  W  H  S  M  T  I  C  S  E  F  F  V  D  M  T  I  L  P  K  E  P  Q  Q  L  L  Y  H  P  E  K  L  L  L  H  P  L  *  M  *  I  M  R  M  M  S  Q  K  M  I  S  L  T  Y  H  G   : E  L  Q  E  I  H  H  R  D  R  G  G  R  L  L  M  *  R  V  S  Q  C  E  L  L  Q  L  F  L  L  H  L  H  Q  G  D  Q  F  L  R  M  G  K  W  L  I  I  S  A  V  T  G  L  N  L  K  D  Q  W  E  Q  K  D  H  H  L  L  L  L  Q  L  I  Q  T  M  R  V  P  S  H  G  Q  V  P  S  H  L  H  L  H  P  L  Q  M  I  C  *  I  Q  L  L  M  R  T  S  *  T  P  L  H  L  C  L  L  E  K  T  T  R  M  N  P  I  Q  K  P  N  L  L  I  T  C  L  Q  H  L  G  M  L  L  L  L  P  Q  S  L  H  H  Q  P  D  M  I  R  D  S  S  T  L  R  N  M  F  L  V  A  P  L  P  Q  E  L  D  R  V  P  M  T  A  *  L  D  K  Q  R  I  S  L  L  I  L  L  H  H  P  N  Q  R  N  L  R  T  H  S  S  K  I  L  L  I  L  Q  K  P  S  L  P  H  L  Q  T  N  P  I  D  H  F  E  *  F  Q  *  I  *  I  M  C  G  G  V  Y  I  Y  F  F  F  L  *  Q  *  I  L  E  R  T  E  F  Y  G  L  L  V  L  L  L  L  L  Y  F  L  F  G  F  Q  P  L  G  E  *  *  C  S  *  H  D  I  Y  I  L  D  H  I  R  W  L  I  F  L  F  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0072F06.1" strand="+"/>
                <serials PGL_serial="3" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="36167" stop="36175"/>
                    <exon start="36264" stop="36377"/>
                    <exon start="41174" stop="41319"/>
                    <exon start="41968" stop="42049"/>
                    <exon start="42691" stop="42776"/>
                    <exon start="42850" stop="43041"/>
                    <exon start="44067" stop="44748"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>1308</number_coding_nucleotides>
                  <number_encoded_amino_acids>436</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>KKKPDLNVREKILILIDSWQEALGGPGGRFPQYYAAYNELKAAGVEFPPREENSVPLFTPPQTHPIVHTPSAYEEAAVEASLESDPSGLSVAEIQSAEGLSDVLTEMLGALDPKNPQSVKEEVIVDLVEQCRSYQKRVMILVNNTVDEDLLCKGLALNDNLQRVLRRHDDIAKGTSTITVPPRETPVAPLMNVNHEDDESEDDFSHLSRRTSRDPSQGQGRKTIDVKSEPMRITPTLPPPPSSRRPVFTDGKMVDYLSGDRFESERSMGTEGSSPIAASTNSNNASSIPWSSPKPSSSAPPPDDLLNPTADENFLNPTASMFTGKNNQNESNSKAKSADNLPPAPWDAPPPTAIPPPPARYDQRQQYFEKHVSGGSPPARTGSSSYDSIVGQTKNLSINSSSPSKPEKPEDALFKDLVDFAKAKSSSSSNQSNRSF*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="4" PGL_strand="-" PGL_start="55401" PGL_stop="54816"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="55401" e_stop="54816"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.930"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.930">
            <gDNA_exon_boundary e_start="55401" e_stop="54816" e_length="586"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="55401" stop="54816"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U329773" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="4" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>ATAAGTGTGCATTTTTCCTTTTTTTTCTGAGCTTCCAAAAATGGAGTATCAACATTATCCCTTAATTATCTTTATCTCACTTGTTCTCTTCCTCTCCTCTTTGTTTTTTCTGTCTCAAAAATGGAAATCTGCAAACAAAAAGTTGCCCCCTGGACCATGGAGACTACCTTTTATAGGAAACATGCATCAACTAATGAGCGATTTACCACATCGTTCACTTAGAACTCTATCGAAAAAATATGGCCCAATCATGCACTTACGTCTTGGGAATATTTCAACCATTGTTGTATCGTCACCAGAAATGGCAAAAGAAGTCATGAAAACTCAAGACCTCCATTTTGTAGATCGGCCACAAATTATGTCCGCGAGTATCATATTTTATGATTGCACGGACATAGGCTTTAGTTCCTATGGAGATTACTGGAGAAATATGCGAAAGGTTTCTTAGTACAAAAATGGTCAAATCATCTGCTTCAATTCGACAAGAGGAGATATCAAATCTCATTTCCTCTCTCCGTTCCACTGCACCTGACTCGTTGATCAACTTATCCAACTAGATCTTTTGGTTTACAAATACCGTAACTTG</gDNA_template>
            <first_frame> I  S  V  H  F  S  F  F  F  *  A  S  K  N  G  V  S  T  L  S  L  N  Y  L  Y  L  T  C  S  L  P  L  L  F  V  F  S  V  S  K  M  E  I  C  K  Q  K  V  A  P  W  T  M  E  T  T  F  Y  R  K  H  A  S  T  N  E  R  F  T  T  S  F  T  *  N  S  I  E  K  I  W  P  N  H  A  L  T  S  W  E  Y  F  N  H  C  C  I  V  T  R  N  G  K  R  S  H  E  N  S  R  P  P  F  C  R  S  A  T  N  Y  V  R  E  Y  H  I  L  *  L  H  G  H  R  L  *  F  L  W  R  L  L  E  K  Y  A  K  G  F  L  V  Q  K  W  S  N  H  L  L  Q  F  D  K  R  R  Y  Q  I  S  F  P  L  S  V  P  L  H  L  T  R  *  S  T  Y  P  T  R  S  F  G  L  Q  I  P  *  L  </first_frame>
            <second_frame>  *  V  C  I  F  P  F  F  S  E  L  P  K  M  E  Y  Q  H  Y  P  L  I  I  F  I  S  L  V  L  F  L  S  S  L  F  F  L  S  Q  K  W  K  S  A  N  K  K  L  P  P  G  P  W  R  L  P  F  I  G  N  M  H  Q  L  M  S  D  L  P  H  R  S  L  R  T  L  S  K  K  Y  G  P  I  M  H  L  R  L  G  N  I  S  T  I  V  V  S  S  P  E  M  A  K  E  V  M  K  T  Q  D  L  H  F  V  D  R  P  Q  I  M  S  A  S  I  I  F  Y  D  C  T  D  I  G  F  S  S  Y  G  D  Y  W  R  N  M  R  K  V  S  *  Y  K  N  G  Q  I  I  C  F  N  S  T  R  G  D  I  K  S  H  F  L  S  P  F  H  C  T  *  L  V  D  Q  L  I  Q  L  D  L  L  V  Y  K  Y  R  N  L </second_frame>
            <third_frame>   K  C  A  F  F  L  F  F  L  S  F  Q  K  W  S  I  N  I  I  P  *  L  S  L  S  H  L  F  S  S  S  P  L  C  F  F  C  L  K  N  G  N  L  Q  T  K  S  C  P  L  D  H  G  D  Y  L  L  *  E  T  C  I  N  *  *  A  I  Y  H  I  V  H  L  E  L  Y  R  K  N  M  A  Q  S  C  T  Y  V  L  G  I  F  Q  P  L  L  Y  R  H  Q  K  W  Q  K  K  S  *  K  L  K  T  S  I  L  *  I  G  H  K  L  C  P  R  V  S  Y  F  M  I  A  R  T  *  A  L  V  P  M  E  I  T  G  E  I  C  E  R  F  L  S  T  K  M  V  K  S  S  A  S  I  R  Q  E  E  I  S  N  L  I  S  S  L  R  S  T  A  P  D  S  L  I  N  L  S  N  *  I  F  W  F  T  N  T  V  T   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0072F06.1" strand="-"/>
                <serials PGL_serial="4" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="55397" stop="54954"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>441</number_coding_nucleotides>
                  <number_encoded_amino_acids>147</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>VCIFPFFSELPKMEYQHYPLIIFISLVLFLSSLFFLSQKWKSANKKLPPGPWRLPFIGNMHQLMSDLPHRSLRTLSKKYGPIMHLRLGNISTIVVSSPEMAKEVMKTQDLHFVDRPQIMSASIIFYDCTDIGFSSYGDYWRNMRKVS*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="5" PGL_strand="+" PGL_start="60945" PGL_stop="61321"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="60945" e_stop="61321"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.955"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.955">
            <gDNA_exon_boundary e_start="60945" e_stop="61321" e_length="377"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="60945" stop="61321"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U346104" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="5" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>ATTTTATTTTATTTAATATATTATATATAGTCATAATAAAGAAAATTTACAAGGTACTGAAAATTTATAAAAGAACAAATAAAGAAATTTAAACTTAGTGAAAGTTAGGCGAGTTAAATTATGACCCGCAATTTTAATCAATCACAGCTCAATCCATTTCAACTCGCTCATTTGCCACTTACAATGTTTTGTATTACTTCATCAATTTGTTGTGAAAGAGGAATCTGGGCATCAAGATGCAACTTTGTTCCTAATCCCTTGAGCAATAATAGAATACTTCTTGAACTTTTGACCTCGCTTGCCTCATGAACAATAACTTCAAAACTATCCATTTCAATGTCATTTGGTGGTGATTTCTTCAATTGAATTCCCCTCTA</gDNA_template>
            <first_frame> I  L  F  Y  L  I  Y  Y  I  *  S  *  *  R  K  F  T  R  Y  *  K  F  I  K  E  Q  I  K  K  F  K  L  S  E  S  *  A  S  *  I  M  T  R  N  F  N  Q  S  Q  L  N  P  F  Q  L  A  H  L  P  L  T  M  F  C  I  T  S  S  I  C  C  E  R  G  I  W  A  S  R  C  N  F  V  P  N  P  L  S  N  N  R  I  L  L  E  L  L  T  S  L  A  S  *  T  I  T  S  K  L  S  I  S  M  S  F  G  G  D  F  F  N  *  I  P  L   </first_frame>
            <second_frame>  F  Y  F  I  *  Y  I  I  Y  S  H  N  K  E  N  L  Q  G  T  E  N  L  *  K  N  K  *  R  N  L  N  L  V  K  V  R  R  V  K  L  *  P  A  I  L  I  N  H  S  S  I  H  F  N  S  L  I  C  H  L  Q  C  F  V  L  L  H  Q  F  V  V  K  E  E  S  G  H  Q  D  A  T  L  F  L  I  P  *  A  I  I  E  Y  F  L  N  F  *  P  R  L  P  H  E  Q  *  L  Q  N  Y  P  F  Q  C  H  L  V  V  I  S  S  I  E  F  P  S  </second_frame>
            <third_frame>   F  I  L  F  N  I  L  Y  I  V  I  I  K  K  I  Y  K  V  L  K  I  Y  K  R  T  N  K  E  I  *  T  *  *  K  L  G  E  L  N  Y  D  P  Q  F  *  S  I  T  A  Q  S  I  S  T  R  S  F  A  T  Y  N  V  L  Y  Y  F  I  N  L  L  *  K  R  N  L  G  I  K  M  Q  L  C  S  *  S  L  E  Q  *  *  N  T  S  *  T  F  D  L  A  C  L  M  N  N  N  F  K  T  I  H  F  N  V  I  W  W  *  F  L  Q  L  N  S  P  L </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C04HBa0072F06.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="6" PGL_strand="-" PGL_start="62730" PGL_stop="61938"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="62730" e_stop="62629"/>
            <exon e_start="62239" e_stop="61938"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.964" acc_prob="0.994" e_score="1.000"/>
          <exon-only e_score="0.990"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="62730" e_stop="62629" e_length="102"/>
          </exon>
          <intron i_serial="1" don_prob="0.964" acc_prob="0.994">
            <gDNA_intron_boundary i_start="62628" i_stop="62240" i_length="389"/>
          </intron>
          <exon e_serial="2" e_score="0.990">
            <gDNA_exon_boundary e_start="62239" e_stop="61938" e_length="302"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="62730" stop="62629"/>
              <exon start="62239" stop="61938"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U337637" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="6" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>CATGAAGAACTAATGAATGCTACTGTTAGAGTCTATTTTCATTCTAGCTCGAAGAAGTACAACCGTGTAGAATGTTGGGGTCCTCTAAAAGATGCAGCTAAG : GGAAGACAAGGGGATTATATCAATGGTTTGTTATCGACAAGCAAGGAAGATTTTCAACCTCTGAAATTCCAGGGAAGTGCAAAATCAATCTTCCAAGCTCTTTTCACCTTCCTTCTCTGAGCTAATACACTAAGGTGAGAGACTGCAAAGAGTTTATAGATTTAGGTCGTTTCGTCCTAATAATTTTACTTTTTGCACTTGGAAGGATCTCTCTTGAAACACATATTAGAGTCATGGGATCCTACATTTCGATGACTTGTAAAGACGAGAATTGTTTGCAAGGTCATTAGATTCTTTTACAT</gDNA_template>
            <first_frame> H  E  E  L  M  N  A  T  V  R  V  Y  F  H  S  S  S  K  K  Y  N  R  V  E  C  W  G  P  L  K  D  A  A  K  :  G  R  Q  G  D  Y  I  N  G  L  L  S  T  S  K  E  D  F  Q  P  L  K  F  Q  G  S  A  K  S  I  F  Q  A  L  F  T  F  L  L  *  A  N  T  L  R  *  E  T  A  K  S  L  *  I  *  V  V  S  S  *  *  F  Y  F  L  H  L  E  G  S  L  L  K  H  I  L  E  S  W  D  P  T  F  R  *  L  V  K  T  R  I  V  C  K  V  I  R  F  F  Y   </first_frame>
            <second_frame>  M  K  N  *  *  M  L  L  L  E  S  I  F  I  L  A  R  R  S  T  T  V  *  N  V  G  V  L  *  K  M  Q  L  R :   E  D  K  G  I  I  S  M  V  C  Y  R  Q  A  R  K  I  F  N  L  *  N  S  R  E  V  Q  N  Q  S  S  K  L  F  S  P  S  F  S  E  L  I  H  *  G  E  R  L  Q  R  V  Y  R  F  R  S  F  R  P  N  N  F  T  F  C  T  W  K  D  L  S  *  N  T  Y  *  S  H  G  I  L  H  F  D  D  L  *  R  R  E  L  F  A  R  S  L  D  S  F  T  </second_frame>
            <third_frame>   *  R  T  N  E  C  Y  C  *  S  L  F  S  F  *  L  E  E  V  Q  P  C  R  M  L  G  S  S  K  R  C  S  *   : G  K  T  R  G  L  Y  Q  W  F  V  I  D  K  Q  G  R  F  S  T  S  E  I  P  G  K  C  K  I  N  L  P  S  S  F  H  L  P  S  L  S  *  Y  T  K  V  R  D  C  K  E  F  I  D  L  G  R  F  V  L  I  I  L  L  F  A  L  G  R  I  S  L  E  T  H  I  R  V  M  G  S  Y  I  S  M  T  C  K  D  E  N  C  L  Q  G  H  *  I  L  L  H </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0072F06.1" strand="-"/>
                <serials PGL_serial="6" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="62730" stop="62629"/>
                    <exon start="62239" stop="62120"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>219</number_coding_nucleotides>
                  <number_encoded_amino_acids>73</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>HEELMNATVRVYFHSSSKKYNRVECWGPLKDAAKGRQGDYINGLLSTSKEDFQPLKFQGSAKSIFQALFTFLL*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 14 chains have been computed
$ 
$ memory statistics:
$ 18768 bytes spliced alignments in total
$ 10 spliced alignments have been stored
$ 1876 bytes was the average size of a spliced alignment
$ 11816 bytes predicted gene locations in total
$ 6 predicted gene locations have been stored
$ 1969 bytes was the average size of a predicted gene location
$ 0 megabytes was the average size of the backtrace matrix
$ 16 backtrace matrices have been allocated
$ 
$ date finished: 2009-02-20 11:31:48
-->
