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.1360.1.S1_at

Template Basic Information

Template name:	Les.1360.1.S1_at
Template type:	Probe Set
Platform:	Affymetrix GeneChip Tomato Genome Array
Internal db links:	SGN-U568260
External db links:	GenBank: AI489794

Annotations for unigene SGN-U568260 (manual: 1 | blast: 3 | go: 6 )

Manual annotations

Based on clone cLED-17-K23, annotated by Rob Alba	Created 2003-01-20, last modified 2003-01-20
Putative Homology: "kinase, calcium-dependent protein kinase" Annotation Keywords: signal transduction; kinase; phosphorylation; calcium dependent; CDPK; calcium signaling

Blast Annotations [Show All]

Database	Program	Best Match	Score	E-value	Identity	Alignment Length	Frame
genbank	blastx	gi\|163658596\|gb\|ABY28389.1\|	632	4e-179	93.77	1059 bp (59.3%)	1
Description:	calcium-dependent protein kinase 1 [Datura metel]
arabidopsis	blastx	At1G74740.1	546	2e-155	79.04	1059 bp (59.3%)	1
Description:	Symbols: CDPK1A, CPK30 \| CPK30 (calcium-dependent protein kinase 30); calcium- and calmodulin-&hellip
swissprot	blastx	Q9SSF8	546	2e-154	79.04	1059 bp (59.3%)	1
Description:	Calcium-dependent protein kinase 30 OS=Arabidopsis thaliana GN=CPK30 PE=1 SV=1

GO Terms Annotations

GO:0004672protein kinase activity
GO:0005524ATP binding
GO:0004674protein serine/threonine kinase activity
GO:0004713protein-tyrosine kinase activity
GO:0006468protein amino acid phosphorylation
GO:0005509calcium ion binding

Probe Composition (11)

Probe name	Probe type	Template start coord	Template end coord	Spots
Les.1360.1.S1_at:ProbePair0	PM	data not available	data not available	data not available
Les.1360.1.S1_at:ProbePair1	PM	data not available	data not available	data not available
Les.1360.1.S1_at:ProbePair10	PM	data not available	data not available	data not available
Les.1360.1.S1_at:ProbePair2	PM	data not available	data not available	data not available
Les.1360.1.S1_at:ProbePair3	PM	data not available	data not available	data not available
Les.1360.1.S1_at:ProbePair4	PM	data not available	data not available	data not available
Les.1360.1.S1_at:ProbePair5	PM	data not available	data not available	data not available
Les.1360.1.S1_at:ProbePair6	PM	data not available	data not available	data not available
Les.1360.1.S1_at:ProbePair7	PM	data not available	data not available	data not available
Les.1360.1.S1_at:ProbePair8	PM	data not available	data not available	data not available
Les.1360.1.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	160.88	160.88	45.52	0.28
	Gene expression data from Aft mature green fruit flesh	endocarp	3	3	423.44	406.42	63.79	0.15
	Gene expression data from Micro-Tom red fruit flesh	endocarp	3	3	1191.44	1204.73	104.13	0.09
	Gene expression data from Momotaro8 red fruit flesh	endocarp	4	4	395.52	259.18	324.49	0.82
	Gene expression data from Aft mature green fruit peel	exocarp	3	3	383.05	386.68	9.74	0.03
	Gene expression data from Aft red fruit peel	exocarp	3	3	468.25	461.10	38.49	0.08
	Gene expression data from Line27859 mature green fruit peel	exocarp	3	3	258.68	262.43	37.78	0.15
	Gene expression data from Line27859 red fruit peel	exocarp	3	3	246.67	237.16	25.51	0.10
	Gene expression data from Micro-Tom mature green fruit peel	exocarp	3	3	904.20	718.17	359.62	0.40
	Gene expression data from Micro-Tom orange fruit peel	exocarp	2	2	652.76	652.76	50.28	0.08
	Gene expression data from Micro-Tom red fruit peel	exocarp	3	3	1081.53	1230.51	273.16	0.25
	Gene expression data from Micro-Tom yellow fruit peel	exocarp	2	2	423.79	423.79	11.02	0.03
	Gene expression data from Momotaro8 red fruit peel	exocarp	4	4	465.65	311.00	334.64	0.72
	Gene expression data from Micro-Tom hypocotyl	hypocotyl	2	2	210.62	210.62	62.60	0.30
	Gene expression data from Micro-Tom 3rd leaf	vascular leaf	2	2	39.86	39.86	3.78	0.09
	Gene expression data from all leaves of 3-week-old Micro-Tom plant	vascular leaf	3	3	124.56	122.25	16.66	0.13
	Gene expression data from all leaves of 5-week-old Micro-Tom plant	vascular leaf	3	3	80.50	73.01	16.54	0.21
	Gene expression data from Aft red fruit flesh	mesocarp	3	3	743.59	737.72	36.12	0.05
	Gene expression data from Line27859 mature green fruit flesh	mesocarp	3	3	307.94	303.07	50.70	0.16
	Gene expression data from Line27859 red fruit flesh	mesocarp	3	3	610.26	595.60	42.21	0.07
	Gene expression data from Micro-Tom mature green fruit flesh	mesocarp	3	3	796.23	818.20	253.77	0.32
	Gene expression data from Micro-Tom orange fruit flesh	mesocarp	2	2	804.31	804.31	18.32	0.02
	Gene expression data from Micro-Tom yellow fruit flesh	mesocarp	2	2	645.84	645.84	24.74	0.04
	Gene expression data from Micro-Tom root	root	3	3	501.36	504.99	17.47	0.03

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	193.071	2e-4	P
	GSM480171 extract 1	128.69	2e-4	P
Gene expression data from Aft mature green fruit flesh	GSM480200 extract 1	494.009	2e-4	P
	GSM480201 extract 1	406.424	2e-4	P
	GSM480202 extract 1	369.875	2e-4	P
Gene expression data from Micro-Tom red fruit flesh	GSM480187 extract 1	1081.3	2e-4	P
	GSM480189 extract 1	1288.28	2e-4	P
	GSM480188 extract 1	1204.73	2e-4	P
Gene expression data from Momotaro8 red fruit flesh	GSM480224 extract 1	272.293	2e-4	P
	GSM480227 extract 1	879.126	2e-4	P
	GSM480225 extract 1	184.609	2e-4	P
	GSM480226 extract 1	246.064	2e-4	P
Gene expression data from Aft mature green fruit peel	GSM480206 extract 1	386.682	2e-4	P
	GSM480208 extract 1	390.455	2e-4	P
	GSM480207 extract 1	372.019	2e-4	P
Gene expression data from Aft red fruit peel	GSM480209 extract 1	509.814	2e-4	P
	GSM480210 extract 1	433.842	2e-4	P
	GSM480211 extract 1	461.095	2e-4	P
Gene expression data from Line27859 mature green fruit peel	GSM480218 extract 1	219.156	2e-4	P
	GSM480219 extract 1	262.43	2e-4	P
	GSM480220 extract 1	294.443	2e-4	P
Gene expression data from Line27859 red fruit peel	GSM480221 extract 1	227.288	2e-4	P
	GSM480222 extract 1	275.565	2e-4	P
	GSM480223 extract 1	237.157	2e-4	P
Gene expression data from Micro-Tom mature green fruit peel	GSM480191 extract 1	1318.73	2e-4	P
	GSM480192 extract 1	718.171	2e-4	P
	GSM480190 extract 1	675.715	2e-4	P
Gene expression data from Micro-Tom orange fruit peel	GSM480195 extract 1	688.315	2e-4	P
	GSM480196 extract 1	617.213	2e-4	P
Gene expression data from Micro-Tom red fruit peel	GSM480197 extract 1	766.274	2e-4	P
	GSM480198 extract 1	1247.82	2e-4	P
	GSM480199 extract 1	1230.51	2e-4	P
Gene expression data from Micro-Tom yellow fruit peel	GSM480194 extract 1	431.582	2e-4	P
	GSM480193 extract 1	415.991	2e-4	P
Gene expression data from Momotaro8 red fruit peel	GSM480228 extract 1	325.735	2e-4	P
	GSM480230 extract 1	296.26	2e-4	P
	GSM480229 extract 1	274.003	2e-4	P
	GSM480231 extract 1	966.599	2e-4	P
Gene expression data from Micro-Tom hypocotyl	GSM480168 extract 1	254.88	2e-4	P
	GSM480169 extract 1	166.353	2e-4	P
Gene expression data from Micro-Tom 3rd leaf	GSM480173 extract 1	37.1922	2e-4	P
	GSM480172 extract 1	42.5313	2e-4	P
Gene expression data from all leaves of 3-week-old Micro-Tom plant	GSM480176 extract 1	142.249	2e-4	P
	GSM480175 extract 1	109.177	2e-4	P
	GSM480174 extract 1	122.253	2e-4	P
Gene expression data from all leaves of 5-week-old Micro-Tom plant	GSM480177 extract 1	69.0265	2e-4	P
	GSM480178 extract 1	99.4596	2e-4	P
	GSM480179 extract 1	73.0072	2e-4	P
Gene expression data from Aft red fruit flesh	GSM480204 extract 1	710.772	2e-4	P
	GSM480203 extract 1	737.719	2e-4	P
	GSM480205 extract 1	782.284	2e-4	P
Gene expression data from Line27859 mature green fruit flesh	GSM480213 extract 1	303.072	2e-4	P
	GSM480212 extract 1	360.895	2e-4	P
	GSM480214 extract 1	259.845	2e-4	P
Gene expression data from Line27859 red fruit flesh	GSM480215 extract 1	595.599	2e-4	P
	GSM480216 extract 1	577.329	2e-4	P
	GSM480217 extract 1	657.836	2e-4	P
Gene expression data from Micro-Tom mature green fruit flesh	GSM480181 extract 1	1038.3	2e-4	P
	GSM480180 extract 1	818.195	2e-4	P
	GSM480182 extract 1	532.189	2e-4	P
Gene expression data from Micro-Tom orange fruit flesh	GSM480185 extract 1	817.262	2e-4	P
	GSM480186 extract 1	791.359	2e-4	P
Gene expression data from Micro-Tom yellow fruit flesh	GSM480183 extract 1	628.347	2e-4	P
	GSM480184 extract 1	663.335	2e-4	P
Gene expression data from Micro-Tom root	GSM480166 extract 1	504.993	2e-4	P
	GSM480165 extract 1	516.718	2e-4	P
	GSM480167 extract 1	482.359	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.