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Expression Template: Les.2478.1.S1_at

Template Basic Information

Template name:	Les.2478.1.S1_at
Template type:	Probe Set
Platform:	Affymetrix GeneChip Tomato Genome Array
Internal db links:	SGN-U581203 SGN-U581203 SGN-U581203
External db links:	GenBank: AI780323

Annotations for unigene SGN-U581203 (manual: 2 | blast: 3 | go: 0 )

Manual annotations

Based on clone cLER-1-H11, annotated by Rob Alba	Created 2003-01-20, last modified 2003-01-20
Putative Homology: "chlorophyll a/b binding protein 1B, LHCII type I" Annotation Keywords: photosynthesis; light reactions; light-harvesting complex II; light-regulated gene

Blast Annotations [Show All]

Database	Program	Best Match	Score	E-value	Identity	Alignment Length	Frame
genbank	blastx	gi\|81074613\|gb\|ABB55370.1\|	515	3e-144	96.86	765 bp (72.7%)	1
Description:	chlorophyll a-b binding protein 3C-like [Solanum tuberosum]
arabidopsis	blastx	At1G29930.1	473	1e-133	89.06	765 bp (72.7%)	1
Description:	Symbols: AB140, CAB140, LHCB1.3, CAB1 \| CAB1 (CHLOROPHYLL A/B BINDING PROTEIN 1); chlorophyll &hellip
swissprot	blastx	P07369	515	2e-145	96.47	765 bp (72.7%)	1
Description:	Chlorophyll a-b binding protein 3C, chloroplastic OS=Solanum lycopersicum GN=CAB3C PE=3 SV=1

GO Terms Annotations

No Gene Ontology annotation

Annotations for unigene SGN-U581203 (manual: 2 | blast: 3 | go: 0 )

Manual annotations

Based on clone cLER-1-H11, annotated by Rob Alba	Created 2003-01-20, last modified 2003-01-20
Putative Homology: "chlorophyll a/b binding protein 1B, LHCII type I" Annotation Keywords: photosynthesis; light reactions; light-harvesting complex II; light-regulated gene

Blast Annotations [Show All]

Database	Program	Best Match	Score	E-value	Identity	Alignment Length	Frame
genbank	blastx	gi\|81074613\|gb\|ABB55370.1\|	515	3e-144	96.86	765 bp (72.7%)	1
Description:	chlorophyll a-b binding protein 3C-like [Solanum tuberosum]
arabidopsis	blastx	At1G29930.1	473	1e-133	89.06	765 bp (72.7%)	1
Description:	Symbols: AB140, CAB140, LHCB1.3, CAB1 \| CAB1 (CHLOROPHYLL A/B BINDING PROTEIN 1); chlorophyll &hellip
swissprot	blastx	P07369	515	2e-145	96.47	765 bp (72.7%)	1
Description:	Chlorophyll a-b binding protein 3C, chloroplastic OS=Solanum lycopersicum GN=CAB3C PE=3 SV=1

GO Terms Annotations

No Gene Ontology annotation

Annotations for unigene SGN-U581203 (manual: 2 | blast: 3 | go: 0 )

Manual annotations

Based on clone cLER-1-H11, annotated by Rob Alba	Created 2003-01-20, last modified 2003-01-20
Putative Homology: "chlorophyll a/b binding protein 1B, LHCII type I" Annotation Keywords: photosynthesis; light reactions; light-harvesting complex II; light-regulated gene

Blast Annotations [Show All]

Database	Program	Best Match	Score	E-value	Identity	Alignment Length	Frame
genbank	blastx	gi\|81074613\|gb\|ABB55370.1\|	515	3e-144	96.86	765 bp (72.7%)	1
Description:	chlorophyll a-b binding protein 3C-like [Solanum tuberosum]
arabidopsis	blastx	At1G29930.1	473	1e-133	89.06	765 bp (72.7%)	1
Description:	Symbols: AB140, CAB140, LHCB1.3, CAB1 \| CAB1 (CHLOROPHYLL A/B BINDING PROTEIN 1); chlorophyll &hellip
swissprot	blastx	P07369	515	2e-145	96.47	765 bp (72.7%)	1
Description:	Chlorophyll a-b binding protein 3C, chloroplastic OS=Solanum lycopersicum GN=CAB3C PE=3 SV=1

GO Terms Annotations

No Gene Ontology annotation

Probe Composition (11)

Probe name	Probe type	Template start coord	Template end coord	Spots
Les.2478.1.S1_at:ProbePair0	PM	data not available	data not available	data not available
Les.2478.1.S1_at:ProbePair1	PM	data not available	data not available	data not available
Les.2478.1.S1_at:ProbePair10	PM	data not available	data not available	data not available
Les.2478.1.S1_at:ProbePair2	PM	data not available	data not available	data not available
Les.2478.1.S1_at:ProbePair3	PM	data not available	data not available	data not available
Les.2478.1.S1_at:ProbePair4	PM	data not available	data not available	data not available
Les.2478.1.S1_at:ProbePair5	PM	data not available	data not available	data not available
Les.2478.1.S1_at:ProbePair6	PM	data not available	data not available	data not available
Les.2478.1.S1_at:ProbePair7	PM	data not available	data not available	data not available
Les.2478.1.S1_at:ProbePair8	PM	data not available	data not available	data not available
Les.2478.1.S1_at:ProbePair9	PM	data not available	data not available	data not available

Graph: Expression Data by Experiment

Table: Expression Data by Experiment (24)

Experimental design name	Experiment name	Tissue	Experiment replicates	Replicates pValue<0.05	Mean	Median	SD	CV
Expression data from various tomato plant tissues	Gene expression data from Micro-Tom cotyledon	cotyledon	2	2	6846.44	6846.44	1383.05	0.20
	Gene expression data from Line27859 red fruit flesh	endocarp	3	3	23.50	23.36	0.28	0.01
	Gene expression data from Micro-Tom orange fruit flesh	endocarp	2	2	37.11	37.11	32.06	0.86
	Gene expression data from Momotaro8 red fruit flesh	endocarp	4	4	115.76	123.92	22.22	0.19
	Gene expression data from Aft mature green fruit peel	exocarp	3	3	2876.69	2887.31	181.71	0.06
	Gene expression data from Aft red fruit peel	exocarp	3	3	95.92	79.60	38.43	0.40
	Gene expression data from Line27859 mature green fruit peel	exocarp	3	3	3529.02	3518.49	396.58	0.11
	Gene expression data from Line27859 red fruit peel	exocarp	3	3	56.40	59.57	9.02	0.16
	Gene expression data from Micro-Tom mature green fruit peel	exocarp	3	3	20.11	14.81	10.64	0.53
	Gene expression data from Micro-Tom orange fruit peel	exocarp	2	2	14.46	14.46	1.26	0.09
	Gene expression data from Micro-Tom red fruit peel	exocarp	3	3	6.95	6.11	4.24	0.61
	Gene expression data from Micro-Tom yellow fruit peel	exocarp	2	2	77.80	77.80	91.04	1.17
	Gene expression data from Momotaro8 red fruit peel	exocarp	4	4	104.12	103.08	5.57	0.05
	Gene expression data from Micro-Tom hypocotyl	hypocotyl	2	2	5015.11	5015.11	743.27	0.15
	Gene expression data from Micro-Tom 3rd leaf	vascular leaf	2	2	6682.17	6682.17	196.07	0.03
	Gene expression data from all leaves of 3-week-old Micro-Tom plant	vascular leaf	3	3	6464.65	6455.14	1138.99	0.18
	Gene expression data from all leaves of 5-week-old Micro-Tom plant	vascular leaf	3	3	8279.79	8466.07	464.11	0.06
	Gene expression data from Aft mature green fruit flesh	mesocarp	3	3	3711.21	3380.99	746.93	0.20
	Gene expression data from Aft red fruit flesh	mesocarp	3	3	256.77	258.30	14.08	0.05
	Gene expression data from Line27859 mature green fruit flesh	mesocarp	3	3	4277.85	4331.07	99.53	0.02
	Gene expression data from Micro-Tom mature green fruit flesh	mesocarp	3	3	119.33	110.33	67.34	0.56
	Gene expression data from Micro-Tom red fruit flesh	mesocarp	3	3	5.85	5.71	5.28	0.90
	Gene expression data from Micro-Tom yellow fruit flesh	mesocarp	2	2	489.18	489.18	567.34	1.16
	Gene expression data from Micro-Tom root	root	3	3	111.05	97.31	65.75	0.59

Expression Data by Targets (experiment replicates) (67)

Experiment name	Target name	normalized_signal	pVal_call	flag
Gene expression data from Micro-Tom cotyledon	GSM480170 extract 1	5868.48	2e-4	P
	GSM480171 extract 1	7824.41	2e-4	P
Gene expression data from Line27859 red fruit flesh	GSM480217 extract 1	23.8246	0.008	P
	GSM480215 extract 1	23.3163	2e-4	P
	GSM480216 extract 1	23.3595	0.003	P
Gene expression data from Micro-Tom orange fruit flesh	GSM480185 extract 1	14.4418	0.008	P
	GSM480186 extract 1	59.7791	2e-4	P
Gene expression data from Momotaro8 red fruit flesh	GSM480226 extract 1	129.828	2e-4	P
	GSM480227 extract 1	131.524	2e-4	P
	GSM480224 extract 1	118.013	2e-4	P
	GSM480225 extract 1	83.6702	7e-4	P
Gene expression data from Aft mature green fruit peel	GSM480206 extract 1	2887.31	2e-4	P
	GSM480207 extract 1	3052.85	2e-4	P
	GSM480208 extract 1	2689.9	2e-4	P
Gene expression data from Aft red fruit peel	GSM480209 extract 1	79.597	2e-4	P
	GSM480210 extract 1	139.823	2e-4	P
	GSM480211 extract 1	68.3426	2e-4	P
Gene expression data from Line27859 mature green fruit peel	GSM480218 extract 1	3518.49	2e-4	P
	GSM480219 extract 1	3930.76	2e-4	P
	GSM480220 extract 1	3137.81	2e-4	P
Gene expression data from Line27859 red fruit peel	GSM480221 extract 1	63.3974	2e-4	P
	GSM480222 extract 1	46.2157	2e-4	P
	GSM480223 extract 1	59.5734	2e-4	P
Gene expression data from Micro-Tom mature green fruit peel	GSM480192 extract 1	32.359	2e-4	P
	GSM480190 extract 1	14.8149	0.046	P
	GSM480191 extract 1	13.152	0.008	P
Gene expression data from Micro-Tom orange fruit peel	GSM480196 extract 1	13.5693	0.004	P
	GSM480195 extract 1	15.3529	0.019	P
Gene expression data from Micro-Tom red fruit peel	GSM480197 extract 1	3.18377	0.500	A
	GSM480198 extract 1	11.542	0.095	A
	GSM480199 extract 1	6.11391	0.219	A
Gene expression data from Micro-Tom yellow fruit peel	GSM480193 extract 1	13.427	2e-4	P
	GSM480194 extract 1	142.172	2e-4	P
Gene expression data from Momotaro8 red fruit peel	GSM480230 extract 1	98.6382	7e-4	P
	GSM480231 extract 1	104.371	2e-4	P
	GSM480228 extract 1	101.789	0.001	P
	GSM480229 extract 1	111.699	2e-4	P
Gene expression data from Micro-Tom hypocotyl	GSM480169 extract 1	5540.68	2e-4	P
	GSM480168 extract 1	4489.54	2e-4	P
Gene expression data from Micro-Tom 3rd leaf	GSM480172 extract 1	6820.81	2e-4	P
	GSM480173 extract 1	6543.53	2e-4	P
Gene expression data from all leaves of 3-week-old Micro-Tom plant	GSM480176 extract 1	7608.37	2e-4	P
	GSM480174 extract 1	6455.14	2e-4	P
	GSM480175 extract 1	5330.45	2e-4	P
Gene expression data from all leaves of 5-week-old Micro-Tom plant	GSM480177 extract 1	7751.48	2e-4	P
	GSM480178 extract 1	8466.07	2e-4	P
	GSM480179 extract 1	8621.83	2e-4	P
Gene expression data from Aft mature green fruit flesh	GSM480201 extract 1	3186.3	2e-4	P
	GSM480202 extract 1	4566.33	2e-4	P
	GSM480200 extract 1	3380.99	2e-4	P
Gene expression data from Aft red fruit flesh	GSM480205 extract 1	258.304	2e-4	P
	GSM480203 extract 1	241.986	2e-4	P
	GSM480204 extract 1	270.018	2e-4	P
Gene expression data from Line27859 mature green fruit flesh	GSM480213 extract 1	4339.45	2e-4	P
	GSM480214 extract 1	4331.07	2e-4	P
	GSM480212 extract 1	4163.02	2e-4	P
Gene expression data from Micro-Tom mature green fruit flesh	GSM480180 extract 1	56.9398	7e-4	P
	GSM480181 extract 1	110.328	2e-4	P
	GSM480182 extract 1	190.712	2e-4	P
Gene expression data from Micro-Tom red fruit flesh	GSM480188 extract 1	5.71049	0.195	A
	GSM480189 extract 1	11.2009	0.019	P
	GSM480187 extract 1	0.64003	0.568	A
Gene expression data from Micro-Tom yellow fruit flesh	GSM480184 extract 1	890.351	2e-4	P
	GSM480183 extract 1	88.0157	7e-4	P
Gene expression data from Micro-Tom root	GSM480166 extract 1	97.3062	7e-4	P
	GSM480165 extract 1	182.595	2e-4	P
	GSM480167 extract 1	53.2601	2e-4	P

Correlation analysis (0)

No correlation analysis was found associated to this template

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