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
- Projects
- Tomato graph pangenome project
- Varitome project
- Nicotiana benthamiana BTI site
- 100 Tomato genomes project
- Tomato Immune Response Resequencing
- Previous Projects
- Solanaceae project (SOL)
- SOL-100 Project
- International Tomato Sequencing Project
- U.S. tomato sequencing project
Tools
- Sequence Analysis
- BLAST
- VIGS Tool
- Alignment Analyzer
- Tree Browser
- Motif Finder
- Mapping
- Genome Browser (Jbrowse)
- 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: Les.3598.1.S1_at

Template Basic Information

Template name:	Les.3598.1.S1_at
Template type:	Probe Set
Platform:	Affymetrix GeneChip Tomato Genome Array
Internal db links:	SGN-U568299
External db links:	GenBank: U39059.1

Annotations for unigene SGN-U568299 (manual: 0 | blast: 3 | go: 1 )

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\|1709205\|sp\|P54928\|IMP3_SOLLC	538	3e-151	100	798 bp (69.3%)	1
Description:	Inositol
arabidopsis	blastx	At3G02870.1	423	9e-119	76.32	798 bp (69.3%)	1
Description:	Symbols: VTC4 \| VTC4; 3'(2'),5'-bisphosphate nucleotidase/ inositol or phosphatidylinositol ph&hellip
swissprot	blastx	P54928	538	2e-152	100	798 bp (69.3%)	1
Description:	Inositol monophosphatase 3 OS=Solanum lycopersicum GN=IMP3 PE=2 SV=1

GO Terms Annotations

GO:0004437inositol or phosphatidylinositol phosphatase activity

Probe Composition (11)

Probe name	Probe type	Template start coord	Template end coord	Spots
Les.3598.1.S1_at:ProbePair0	PM	data not available	data not available	data not available
Les.3598.1.S1_at:ProbePair1	PM	data not available	data not available	data not available
Les.3598.1.S1_at:ProbePair10	PM	data not available	data not available	data not available
Les.3598.1.S1_at:ProbePair2	PM	data not available	data not available	data not available
Les.3598.1.S1_at:ProbePair3	PM	data not available	data not available	data not available
Les.3598.1.S1_at:ProbePair4	PM	data not available	data not available	data not available
Les.3598.1.S1_at:ProbePair5	PM	data not available	data not available	data not available
Les.3598.1.S1_at:ProbePair6	PM	data not available	data not available	data not available
Les.3598.1.S1_at:ProbePair7	PM	data not available	data not available	data not available
Les.3598.1.S1_at:ProbePair8	PM	data not available	data not available	data not available
Les.3598.1.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	437.08	437.08	28.70	0.07
	Gene expression data from Micro-Tom mature green fruit flesh	endocarp	3	3	479.45	512.78	108.43	0.23
	Gene expression data from Micro-Tom orange fruit flesh	endocarp	2	2	921.03	921.03	72.14	0.08
	Gene expression data from Micro-Tom red fruit flesh	endocarp	3	3	696.35	731.82	200.43	0.29
	Gene expression data from Aft mature green fruit peel	exocarp	3	3	161.63	170.96	24.20	0.15
	Gene expression data from Aft red fruit peel	exocarp	3	3	603.15	599.37	28.81	0.05
	Gene expression data from Line27859 mature green fruit peel	exocarp	3	3	212.27	216.50	18.57	0.09
	Gene expression data from Line27859 red fruit peel	exocarp	3	3	531.87	534.40	10.37	0.02
	Gene expression data from Micro-Tom mature green fruit peel	exocarp	3	3	329.98	318.84	33.55	0.10
	Gene expression data from Micro-Tom orange fruit peel	exocarp	2	2	820.88	820.88	101.41	0.12
	Gene expression data from Micro-Tom red fruit peel	exocarp	3	3	655.16	686.56	122.25	0.19
	Gene expression data from Micro-Tom yellow fruit peel	exocarp	2	2	679.29	679.29	116.28	0.17
	Gene expression data from Momotaro8 red fruit peel	exocarp	4	4	709.60	698.16	49.54	0.07
	Gene expression data from Micro-Tom hypocotyl	hypocotyl	2	2	221.28	221.28	11.99	0.05
	Gene expression data from Micro-Tom 3rd leaf	vascular leaf	2	2	311.15	311.15	8.64	0.03
	Gene expression data from all leaves of 3-week-old Micro-Tom plant	vascular leaf	3	3	404.43	453.40	88.22	0.22
	Gene expression data from all leaves of 5-week-old Micro-Tom plant	vascular leaf	3	3	400.57	414.71	55.91	0.14
	Gene expression data from Aft mature green fruit flesh	mesocarp	3	3	234.56	246.28	34.89	0.15
	Gene expression data from Aft red fruit flesh	mesocarp	3	3	882.35	894.87	34.22	0.04
	Gene expression data from Line27859 mature green fruit flesh	mesocarp	3	3	274.81	282.07	16.43	0.06
	Gene expression data from Line27859 red fruit flesh	mesocarp	3	3	436.20	433.43	32.54	0.07
	Gene expression data from Micro-Tom yellow fruit flesh	mesocarp	2	2	702.30	702.30	117.81	0.17
	Gene expression data from Momotaro8 red fruit flesh	mesocarp	4	4	720.70	732.86	68.48	0.10
	Gene expression data from Micro-Tom root	root	3	3	310.23	314.65	13.27	0.04

Expression Data by Targets (experiment replicates) (67)

Experiment name	Target name	normalized_signal	pVal_call	flag
Gene expression data from Micro-Tom cotyledon	GSM480171 extract 1	416.784	2e-4	P
	GSM480170 extract 1	457.376	2e-4	P
Gene expression data from Micro-Tom mature green fruit flesh	GSM480180 extract 1	358.259	2e-4	P
	GSM480182 extract 1	567.297	2e-4	P
	GSM480181 extract 1	512.781	2e-4	P
Gene expression data from Micro-Tom orange fruit flesh	GSM480185 extract 1	870.016	2e-4	P
	GSM480186 extract 1	972.043	2e-4	P
Gene expression data from Micro-Tom red fruit flesh	GSM480188 extract 1	876.677	2e-4	P
	GSM480187 extract 1	480.546	2e-4	P
	GSM480189 extract 1	731.819	2e-4	P
Gene expression data from Aft mature green fruit peel	GSM480206 extract 1	179.772	2e-4	P
	GSM480207 extract 1	134.157	2e-4	P
	GSM480208 extract 1	170.962	2e-4	P
Gene expression data from Aft red fruit peel	GSM480211 extract 1	599.367	2e-4	P
	GSM480209 extract 1	633.665	2e-4	P
	GSM480210 extract 1	576.423	2e-4	P
Gene expression data from Line27859 mature green fruit peel	GSM480218 extract 1	216.501	2e-4	P
	GSM480220 extract 1	191.952	2e-4	P
	GSM480219 extract 1	228.362	2e-4	P
Gene expression data from Line27859 red fruit peel	GSM480223 extract 1	540.748	2e-4	P
	GSM480221 extract 1	520.468	2e-4	P
	GSM480222 extract 1	534.398	2e-4	P
Gene expression data from Micro-Tom mature green fruit peel	GSM480190 extract 1	303.426	2e-4	P
	GSM480191 extract 1	367.687	2e-4	P
	GSM480192 extract 1	318.839	2e-4	P
Gene expression data from Micro-Tom orange fruit peel	GSM480195 extract 1	749.177	2e-4	P
	GSM480196 extract 1	892.59	2e-4	P
Gene expression data from Micro-Tom red fruit peel	GSM480199 extract 1	686.555	2e-4	P
	GSM480197 extract 1	520.277	2e-4	P
	GSM480198 extract 1	758.647	2e-4	P
Gene expression data from Micro-Tom yellow fruit peel	GSM480193 extract 1	597.07	2e-4	P
	GSM480194 extract 1	761.514	2e-4	P
Gene expression data from Momotaro8 red fruit peel	GSM480228 extract 1	695.761	2e-4	P
	GSM480230 extract 1	662.62	2e-4	P
	GSM480229 extract 1	700.556	2e-4	P
	GSM480231 extract 1	779.467	2e-4	P
Gene expression data from Micro-Tom hypocotyl	GSM480169 extract 1	229.761	2e-4	P
	GSM480168 extract 1	212.809	2e-4	P
Gene expression data from Micro-Tom 3rd leaf	GSM480173 extract 1	305.042	2e-4	P
	GSM480172 extract 1	317.261	2e-4	P
Gene expression data from all leaves of 3-week-old Micro-Tom plant	GSM480176 extract 1	302.588	2e-4	P
	GSM480174 extract 1	453.401	2e-4	P
	GSM480175 extract 1	457.304	2e-4	P
Gene expression data from all leaves of 5-week-old Micro-Tom plant	GSM480179 extract 1	448.065	2e-4	P
	GSM480177 extract 1	338.948	2e-4	P
	GSM480178 extract 1	414.707	2e-4	P
Gene expression data from Aft mature green fruit flesh	GSM480200 extract 1	262.095	2e-4	P
	GSM480202 extract 1	195.324	2e-4	P
	GSM480201 extract 1	246.276	2e-4	P
Gene expression data from Aft red fruit flesh	GSM480205 extract 1	894.867	2e-4	P
	GSM480204 extract 1	908.549	2e-4	P
	GSM480203 extract 1	843.629	2e-4	P
Gene expression data from Line27859 mature green fruit flesh	GSM480214 extract 1	256.003	2e-4	P
	GSM480212 extract 1	286.352	2e-4	P
	GSM480213 extract 1	282.074	2e-4	P
Gene expression data from Line27859 red fruit flesh	GSM480217 extract 1	433.434	2e-4	P
	GSM480216 extract 1	470.041	2e-4	P
	GSM480215 extract 1	405.128	2e-4	P
Gene expression data from Micro-Tom yellow fruit flesh	GSM480184 extract 1	785.605	2e-4	P
	GSM480183 extract 1	618.99	2e-4	P
Gene expression data from Momotaro8 red fruit flesh	GSM480225 extract 1	627.019	2e-4	P
	GSM480224 extract 1	742.623	2e-4	P
	GSM480226 extract 1	723.106	2e-4	P
	GSM480227 extract 1	790.034	2e-4	P
Gene expression data from Micro-Tom root	GSM480167 extract 1	314.646	2e-4	P
	GSM480165 extract 1	320.731	2e-4	P
	GSM480166 extract 1	295.316	2e-4	P

Correlation analysis (0)

No correlation analysis was found associated to this template

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

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.