Sol Genomics Network

clone(s) in cart (order)

Old browser version detected

This site is optimized for modern web browsers

Please upgrade your browser

Sorry!, some features may not work in outdated browsers

Sol Genomics Network

Search
- Organisms
- Loci & Genes
- Genome features
- Expression
- Accessions and Plots
- QTLs
- Markers
- BACs
- Unigenes
- ESTs and libraries
- Gene Families
- Insitu database
- Images
- People
- FAQ
Maps
- All Maps
- The New Comparative Viewer
- Comparative Viewer
- Submit a map
- Tomato
- Tomato-EXPEN 2000
- Tomato-Kazusa/SolCAP
- Tomato QTLs
- Tomato physical map
- Tomato FPC contig map
- Tomato IL map
- Tomato FISH map
- Tomato AGP map
- Pepper
- Pepper COSII map
- Pepper-AC99
- Pepper-FA03
- Eggplant
- Eggplant COSII map
- Eggplant-LXM 2002
- More Maps
- Potato-TXB 1992
- Tobacco SSR 2007
- Arabidopsis COSII
Genomes
- Sequenced Accessions
- Completed Genomes
- Tomato
- Potato
- Pepper
- Eggplant
- Solanum pennellii
- Solanum lycopersicoides
- Solanum pimpinellifolium
- Solanum lycopersicum var. cerasiforme
- Iochroma cyaneum
- Draft Genomes
- Nicotiana attenuata
- Nicotiana benthamiana
- Nicotiana tabacum
- Petunia axillaris
- Petunia inflata
- Solanum chilense
- Coffea humblotiana
- Resequencing projects
- Solanum lycopersicum inbreds
- 150 Tomato Genome Resequencing Project
- BGI Tomato 360 genomes
- Varitome Project
Projects
Tools
- Sequence Analysis
- BLAST
- VIGS Tool
- Alignment Analyzer
- Tree Browser
- Motif Finder
- Mapping
- Genome Browser (Jbrowse)
- SolBrowse Comparative genome viewer
- Comparative Map Viewer
- CAPS Designer
- solQTL: QTL Mapping
- Molecular Biology
- In Silico PCR
- Tomato Expression Atlas (TEA)
- Tomato Expression Database (TED)
- Systems Biology
- SolCyc Biochemical Pathways
- Coffee Interactomic Data
- SGN Ontology Browser
- Breeder Tools
- Breeders Toolbox
- Bulk Query
- FTP Site
- Download Genome Sequences
- Download Gene Sequences
- Clones, Arrays, Unigenes and BACs
- Unigene Converter
About
- About
- Contact
- Cite SGN
- Links
- Help
- FAQ
- Become SGN Editor
- Forum
- FTP data
- SlideShare
- Twitter
- Facebook

Advanced

This site uses cookies to provide logins and other features. Please accept the use of cookies by clicking Accept.

Expression Template: C6244_at

Template Basic Information

Template name:	C6244_at
Template type:	Probe Set
Platform:	Affymetrix TobEA
Internal db links:	SGN-U447156
External db links:	data not available

Annotations for unigene SGN-U447156 (manual: 0 | blast: 2 | go: 0 )

Manual annotations

None manual annotation was found for this unigene

Blast Annotations [Show All]

Database	Program	Best Match	Score	E-value	Identity	Alignment Length	Frame
genbank	blastx	gi\|2493146\|sp\|Q43434\|VATL_GOSHI	221	6e-56	99.39	495 bp (52.2%)	2
Description:	gi\|2493146\|sp\|Q43434\|VATL_GOSHI Vacuolar ATP synthase 16 kDa proteolipid subunit gi\|755148\|gb\|A&hellip
arabidopsis	blastx	At1G19910.1	220	1e-57	98.79	495 bp (52.2%)	2
Description:	Symbols: AVA-2PE, ATVHA-C2, AVA-P2 \| AVA-P2 (vacuolar-H+-pumping ATPase 16 kDa proteolipid sub&hellip
swissprot	blastx	No significant hits (or none blast was used over this dataset)

GO Terms Annotations

No Gene Ontology annotation

Probe Composition (11)

Probe name	Probe type	Template start coord	Template end coord	Spots
C6244_at_probe_01	PM	data not available	data not available	1
C6244_at_probe_02	PM	data not available	data not available	1
C6244_at_probe_03	PM	data not available	data not available	1
C6244_at_probe_04	PM	data not available	data not available	1
C6244_at_probe_05	PM	data not available	data not available	1
C6244_at_probe_06	PM	data not available	data not available	1
C6244_at_probe_07	PM	data not available	data not available	1
C6244_at_probe_08	PM	data not available	data not available	1
C6244_at_probe_09	PM	data not available	data not available	1
C6244_at_probe_10	PM	data not available	data not available	1
C6244_at_probe_11	PM	data not available	data not available	1

Graph: Expression Data by Experiment

Table: Expression Data by Experiment (19)

Experimental design name	Experiment name	Tissue	Experiment replicates	Replicates pValue<0.05	Mean	Median	SD	CV
TobEA	TobEA floral shoot apex	shoot apex	5	5	10.75	10.76	0.12	0.01
	TobEA vegetative shoot apex	shoot apex	8	8	11.42	11.46	0.27	0.02
	TobEA closed bud	flower bud	5	5	11.17	11.19	0.08	0.01
	TobEA open bud	flower bud	5	5	11.55	11.53	0.15	0.01
	TobEA cotyledons	cotyledon	5	5	11.76	11.88	0.27	0.02
	TobEA flower	flower	5	5	11.03	10.99	0.29	0.03
	TobEA lower stem	stem internode	5	5	10.72	10.80	0.26	0.02
	TobEA upper stem	stem internode	5	5	11.74	11.68	0.18	0.02
	TobEA cauline leaf	cauline leaf	5	5	10.66	10.59	0.26	0.02
	TobEA early senescent leaf	adult vascular leaf	5	5	10.29	10.30	0.85	0.08
	TobEA late senescent leaf	adult vascular leaf	5	5	10.00	9.95	0.21	0.02
	TobEA mature leaf	adult vascular leaf	5	5	10.52	10.54	0.14	0.01
	TobEA mid/early senescent leaf	adult vascular leaf	5	5	10.53	10.51	0.59	0.06
	TobEA mid/late senescent leaf	adult vascular leaf	5	5	10.33	10.44	0.70	0.07
	TobEA young leaf	juvenile vascular leaf	5	5	11.26	11.29	0.27	0.02
	TobEA mature root	root	5	5	11.07	11.06	0.09	0.01
	TobEA young root	root	6	6	11.44	11.46	0.20	0.02
	TobEA seed	seed	6	6	10.40	10.42	0.20	0.02
	TobEA young shoot	shoot system	5	5	11.49	11.70	0.45	0.04

Expression Data by Targets (experiment replicates) (100)

Experiment name	Target name	normalized_signal	pVal_call	flag
TobEA floral shoot apex	Atlas 146.CEL	10.762382	0.002	P
	Atlas 145.CEL	10.563467	0.002	P
	Atlas 143.CEL	10.910054	0.004	P
	Atlas 144.CEL	10.746395	0.002	P
	Atlas 147.CEL	10.767419	0.001	P
TobEA vegetative shoot apex	Atlas 247.CEL	11.038131	0.002	P
	Atlas 248.CEL	11.564863	7e-4	P
	Atlas 250.CEL	11.390345	0.003	P
	Atlas 61.CEL	11.670837	0.004	P
	Atlas 246.CEL	11.130296	0.003	P
	Atlas 59.CEL	11.808329	0.002	P
	Atlas 249.CEL	11.241277	0.002	P
	Atlas 58.CEL	11.522747	7e-4	P
TobEA closed bud	Atlas 173.CEL	11.09384	0.002	P
	Atlas 199.CEL	11.219875	0.001	P
	Atlas 163.CEL	11.186419	0.004	P
	Atlas 195.CEL	11.082174	0.002	P
	Atlas 161.CEL	11.262416	0.002	P
TobEA open bud	Atlas 167.CEL	11.369357	0.004	P
	Atlas 159.CEL	11.52902	0.002	P
	Atlas 171.CEL	11.48735	0.002	P
	Atlas 169.CEL	11.602596	0.004	P
	Atlas 244.CEL	11.767778	0.001	P
TobEA cotyledons	Atlas 70.CEL	11.939209	0.004	P
	Atlas 71.CEL	11.407373	7e-4	P
	Atlas 69.CEL	11.542428	0.002	P
	Atlas 74.CEL	12.025339	0.004	P
	Atlas 75.CEL	11.875257	0.003	P
TobEA flower	Atlas 166.CEL	11.379923	0.003	P
	Atlas 197.CEL	10.783916	0.002	P
	Atlas 198.CEL	10.988807	0.006	P
	Atlas 158.CEL	11.272983	0.001	P
	Atlas 165.CEL	10.725099	0.002	P
TobEA lower stem	Atlas 174.CEL	10.897678	0.003	P
	Atlas 245.CEL	10.873794	0.003	P
	Atlas 164.CEL	10.804279	0.001	P
	Atlas 172.CEL	10.750905	0.006	P
	Atlas 200.CEL	10.259764	2e-4	P
TobEA upper stem	Atlas 196.CEL	11.885359	7e-4	P
	Atlas 168.CEL	11.675498	0.001	P
	Atlas 170.CEL	11.621107	7e-4	P
	Atlas 162.CEL	11.561345	0.002	P
	Atlas 160.CEL	11.974077	0.002	P
TobEA cauline leaf	Atlas 233.CEL	10.342422	0.003	P
	Atlas 229.CEL	10.567343	0.002	P
	Atlas 231.CEL	10.767018	0.003	P
	Atlas 235.CEL	11.031585	0.001	P
	Atlas 237.CEL	10.589679	0.002	P
TobEA early senescent leaf	Atlas 187.CEL	9.567514	0.004	P
	Atlas 183.CEL	10.299548	0.006	P
	Atlas 175.CEL	11.401824	7e-4	P
	Atlas 182.CEL	10.82869	0.006	P
	Atlas 191.CEL	9.372246	0.002	P
TobEA late senescent leaf	Atlas 190.CEL	9.740769	0.011	P
	Atlas 194.CEL	10.247581	0.003	P
	Atlas 179.CEL	9.894102	7e-4	P
	Atlas 178.CEL	10.187672	0.002	P
	Atlas 186.CEL	9.947279	0.002	P
TobEA mature leaf	Atlas 94.CEL	10.512349	0.003	P
	Atlas 96.CEL	10.543356	0.002	P
	Atlas 97.CEL	10.643547	0.002	P
	Atlas 95.CEL	10.600787	0.002	P
	Atlas 93.CEL	10.275448	0.001	P
TobEA mid/early senescent leaf	Atlas 176.CEL	11.075099	0.001	P
	Atlas 181.CEL	9.724298	0.006	P
	Atlas 184.CEL	11.110389	0.002	P
	Atlas 188.CEL	10.233256	0.002	P
	Atlas 192.CEL	10.508248	0.003	P
TobEA mid/late senescent leaf	Atlas 177.CEL	11.2994	7e-4	P
	Atlas 180.CEL	10.61807	0.002	P
	Atlas 185.CEL	9.724193	0.006	P
	Atlas 189.CEL	9.593333	0.006	P
	Atlas 193.CEL	10.435605	0.002	P
TobEA young leaf	Atlas 54.CEL	11.665627	0.001	P
	Atlas 56.CEL	11.286038	0.002	P
	Atlas 55.CEL	11.347143	0.002	P
	Atlas 53.CEL	10.967559	0.002	P
	Atlas 57.CEL	11.05126	0.003	P
TobEA mature root	Atlas 65.CEL	11.061968	0.001	P
	Atlas 66.CEL	11.026259	7e-4	P
	Atlas 63.CEL	10.96365	0.003	P
	Atlas 64.CEL	11.208026	0.002	P
	Atlas 67.CEL	11.072979	0.002	P
TobEA young root	Atlas 42.CEL	11.414264	0.004	P
	Atlas 39.CEL	11.507082	0.001	P
	Atlas 43.CEL	11.670044	0.003	P
	Atlas 40.CEL	11.575831	0.001	P
	Atlas 41.CEL	11.113934	0.002	P
	Atlas 44.CEL	11.347936	0.002	P
TobEA seed	Atlas 78.CEL	10.523631	0.001	P
	Atlas 99.CEL	10.106092	0.003	P
	Atlas 77.CEL	10.402371	7e-4	P
	Atlas 76.CEL	10.429358	0.001	P
	Atlas 79.CEL	10.670743	0.002	P
	Atlas 98.CEL	10.280069	0.003	P
TobEA young shoot	Atlas 88.CEL	10.706318	0.001	P
	Atlas 87.CEL	11.699892	0.004	P
	Atlas 86.CEL	11.542244	0.001	P
	Atlas 89.CEL	11.789281	7e-4	P
	Atlas 90.CEL	11.729362	0.002	P

Correlation analysis (1)

Correlation Analisis ID:	1
Methodology:	Pearson Correlation Analysis
Description:	This correlation analysis was made using R software and loaded into the SGN database with a cutoff value of 0.8

Correlation Type:

Possitive correlations (8 templates correlated)

Template	Pearson	Internal Mapping
EB447074_at	0.83173	SGN-U465563
EB426797_s_at	0.8218687	SGN-U467518
C4885_at	0.8196647	SGN-U439464
C8596_x_at	0.8120045	SGN-U423832
C6125_at	0.810111	SGN-U425050
C44_at	0.8079741	SGN-U447267
C1352_s_at	0.8066548	SGN-U447466
C6639_at	0.8044572	SGN-U446220

Correlation Type:

Negative correlations (16 templates correlated)

Template	Pearson	Internal Mapping
C187_at	-0.8688391	SGN-U438575
TT11_H07_at	-0.8452874	SGN-U433858
EB427276_at	-0.8404454	SGN-U421719
BP535322_at	-0.8331882	SGN-U481203
EB446329_at	-0.82648	SGN-U428948
TT19_N18_at	-0.822253	SGN-U460396
BP128420_at	-0.8189307	SGN-U471309
TT02_N05_at	-0.8166976	SGN-U426199
DW001919_at	-0.8137717	SGN-U428978
C6952_at	-0.8115839	SGN-U439494
EB437044_at	-0.8079363	SGN-U462113
C4234_at	-0.804367	SGN-U436459
BP531457_at	-0.8037393	SGN-U421130
DW000817_at	-0.8026481	SGN-U443507
EB680066_at	-0.802148	SGN-U469517
TT27_P05_at	-0.8002034	SGN-U501449

Your Lists

Public Lists

List Contents

List Validation Report: Failed

Elements not found:

Optional: Add Missing Accessions to A List

Mismatched case

Click the Adjust Case button to align the case in the list with what is in the database.

Multiple mismatched case

Items listed here have mulitple case mismatches and must be fixed manually. If accessions need to be merged, contact the database directly.

List elements matching a synonym

Multiple synonym matches

Multiple synonym matches have to be resolved manually. Contact database administrators if necessary.

Fuzzy Search Results

Synonym Search Results

Create a New List from Unique Names:

Available Seedlots

Accessions	Seedlots
Accessions		Breeding Program	Seedlot Name	Contents	Seedlot Location	Count	Weight(g)

Create a New List from Selected Seedlots:

Manage Seedlots

Your Datasets

Public Datasets

Dataset Contents

Dataset Validation Failed

Elements not found:

Your Calendar

Having trouble viewing events on the calendar?
Are you associated with the breeding program you are interested in viewing?

Calendar Permissions

Add New Event

Project:

Event Type:

Start:

End:

Description:

Web URL:

http://www.

Event Info

Attribute	Value
Project Name:
Start Date:
End Date:
Event Type:
Event Description:
Event Web URL:

Edit Event

Project:

Event Type:

Start:

End:

Description:

Web URL:

Login

Show Password

Forgot Username

If you've forgotten your username, enter your email address below. An email will be sent with any account username(s) associated with your email address.

Email Address

Reset Password

To reset your password, please enter your email address. A link will be sent to that address with a link that will enable you to reset your password.

Email Address

Create New User

Notice

Before creating a new account, please check if you already have an account using the directory search.
A link will be emailed to you. Please click on it to activate the account.
All fields are required.

First Name:

Last Name:

Organization:

Username:

Username must be at least 7 characters long.

Password:

Password must be at least 7 characters long and different from your username.

Confirm Password:

Password must be at least 7 characters long and different from your username.

Email Address:

An email will be sent to this address requiring you to confirm its receipt to activate your account.