Glyma11g02480 - SoyBase

SoyBase SoyBase transitions to NEW site on 10/1/2024
Integrating Genetics and Genomics to Advance Soybean Research

Warning: Undefined variable $sxsome in /var/www/html/include/SeqFeatClass.php on line 665

Warning: Undefined variable $sstart in /var/www/html/include/SeqFeatClass.php on line 665

Warning: Undefined variable $send in /var/www/html/include/SeqFeatClass.php on line 665

Warning: get_headers(): php_network_getaddresses: getaddrinfo for bar.utoronto.ca failed: Temporary failure in name resolution in /var/www/html/include/SeqFeatClass.php on line 1018

Warning: get_headers(https://bar.utoronto.ca/api/efp_image/efp_soybean/soybean/Absolute/Glyma11g02480): Failed to open stream: php_network_getaddresses: getaddrinfo for bar.utoronto.ca failed: Temporary failure in name resolution in /var/www/html/include/SeqFeatClass.php on line 1018

Warning: Trying to access array offset on false in /var/www/html/include/SeqFeatClass.php on line 1019

Warning: get_headers(): php_network_getaddresses: getaddrinfo for bar.utoronto.ca failed: Temporary failure in name resolution in /var/www/html/include/SeqFeatClass.php on line 1020

Warning: get_headers(https://bar.utoronto.ca/api/efp_image/efp_soybean/soybean_severin/Absolute/Glyma11g02480): Failed to open stream: php_network_getaddresses: getaddrinfo for bar.utoronto.ca failed: Temporary failure in name resolution in /var/www/html/include/SeqFeatClass.php on line 1020

Warning: Trying to access array offset on false in /var/www/html/include/SeqFeatClass.php on line 1021

Deprecated: preg_match(): Passing null to parameter #2 ($subject) of type string is deprecated in /var/www/html/include/SeqFeatClass.php on line 1025

Deprecated: preg_match(): Passing null to parameter #2 ($subject) of type string is deprecated in /var/www/html/include/SeqFeatClass.php on line 1031

Report for Sequence Feature Glyma11g02480

Feature Type:	gene_model
Chromosome:	Gm11
Start:	1609996
stop:	1613274
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma11g02480

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT4G23470	AT	Annotation by Michelle Graham. TAIR10: PLAC8 family protein \| chr4:12249289-12251079 FORWARD LENGTH=233	SoyBase	E_val: 4.00E-116	ISS
GO:0006970	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to osmotic stress	SoyBase	N/A	ISS
GO:0009697	GO-bp	Annotation by Michelle Graham. GO Biological Process: salicylic acid biosynthetic process	SoyBase	N/A	ISS
GO:0009863	GO-bp	Annotation by Michelle Graham. GO Biological Process: salicylic acid mediated signaling pathway	SoyBase	N/A	ISS
GO:0010167	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to nitrate	SoyBase	N/A	ISS
GO:0015706	GO-bp	Annotation by Michelle Graham. GO Biological Process: nitrate transport	SoyBase	N/A	ISS
GO:0031348	GO-bp	Annotation by Michelle Graham. GO Biological Process: negative regulation of defense response	SoyBase	N/A	ISS
GO:0045087	GO-bp	Annotation by Michelle Graham. GO Biological Process: innate immune response	SoyBase	N/A	ISS
GO:0046686	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to cadmium ion	SoyBase	N/A	ISS
GO:0048767	GO-bp	Annotation by Michelle Graham. GO Biological Process: root hair elongation	SoyBase	N/A	ISS
GO:0005634	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: nucleus	SoyBase	N/A	ISS
PF04749	PFAM	PLAC8 family	JGI		ISS
UniRef100_F4JNK5	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: PLAC8 family protein n=1 Tax=Arabidopsis thaliana RepID=F4JNK5_ARATH	SoyBase	E_val: 2.00E-113	ISS
UniRef100_UPI000233C85E	UniRef	Annotation by Michelle Graham. Best UniRef hit: UPI000233C85E related cluster n=1 Tax=unknown RepID=UPI000233C85E	SoyBase	E_val: 1.00E-162	ISS

Expression Patterns of Glyma11g02480

Gene expression representations made with eFP at the University of Toronto.
Waese et al. 2017, Plant Cell 29(8):1806-1821 ePlant: Visualizing and Exploring Multiple Levels of Data for Hypothesis Generation in Plant Biology

Glyma11g02480 not represented in the dataset	Glyma11g02480 not represented in the dataset
Libault et al. 2010, Plant Phys 152(2):541-552. Complete Transcriptome of the Soybean Root Hair Cell, a Single-Cell Model, and Its Alteration in Response to Bradyrhizobium japonicum Infection	Severin et al. 2010, BMC Plant Biology 10:160 RNA-Seq Atlas of Glycine max: A guide to the soybean transcriptome

To see more experiments click HERE

Paralogs of Glyma11g02480

Paralog	Evidence	Comments
Glyma01g43010	IGC	Paralogs in soybean determined by Steven Cannon using BLAST, DAGChainer, PAML, and selection of gene pairs from synteny blocks with median Ks values of less than 0.3.

Gene model name correspondences to Glyma11g02480 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.11g022500	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma11g02480

Schmutz et al. 2010
Genome sequence of the palaeopolyploid soybean
Nature 2010, 463:178-183

Transcripts of Glyma11g02480

Limit To All Plant Sequences

>Glyma11g02480.3   sequence type=transcript   gene model=Glyma11g02480   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
AGTTTACTCGTTATGATCCAACAATAGGCCAATTGGAGATCACTTGAAAAGTTCAAAGTCATCCTAGTTGTGAACGTCGAAATTAAACGCACATACCAGACTTTTGTCACTTGTATTTCCTTATATTAAATCATTGTGGTTGTAACACTTGTTGTTGTTAGGATTGTGATAATTCCTGATTCCTGAAACAGTGGAAGGAAATGGCCTCACAGCAGCACATCGAGAAGATGCAACTCCGCCAGAACTTCCGCAATCTCTGGCACTCTGATCTCTTTAGTACCATTCAAGCTGACACCCCTTATTGTTGCTTTTCTCTGTGGTGTGCACCGTGTGTATCATATCTGCTCCGCAAACGAGCCCTTTACGATGATCTGTCAAGATACACTTGTTGTGCTGGTTACATGCCCTGCAGTGGTCGGTGTGGAGAAAGTAAATGTCCTGAACTCTGCCTTGGTGTGGAGGTTGTCTGCTGTTTTGGAAATTCAGTCGCCTCAACTCGATTTCTGTTACAAGATGAATTTAATATTCAAACTACGCAATGTGATAATTGCATTATTGCTTTCATGTTTGTCCTTCAACGACTTGCCTGCATATTTTCTATTATTGCTTTAATTGTGGGAAATAGTGAAATTCGACAGGCTTCTCAATTGCTATCTTGTTTGGCTGACTTCGTCTACTGCACGGTGTGTGCTTGCATGCAGACATAAGATTGAAATGGACAAACGTGATGGGAAATTTGGACCCCAATCAGTAATGGGTGTTCCCCGTGTTCAACAAATGTCACGCTTTGATCAGCAAGTCCCCCCTTTTGTTGGGTATGCACCACAACCAGCATACGGGCAGGGCTATGGTTATTCACATTCCTAGAACCTTCTCATCATCCACCAGGATATATATATATAGAGAGAGAGATTATAGATATATATCCCGTTTCTGGCTAGCTACTTTTGGTGATTTTTTTCACAAGAATGCTTTAGGTTGGTCTGTAGCATGGATTGGTTGGGTTGCATTTCCTTCAAGTCATACATGTGTGGTAAAATTAGTCACATTGATTATCAGGTTGCGTTTCCCTTATACAAGACCAGCATATTATACTTTGCCTTCTATGCATAAATTGAGGTCATATTGTCATTAGACTCATTACTGTTCACCCATGGTTGTATTAAATTTATTCTTGTGCGCAATGGGTGCCATGTATCAAATATAATATGTGGTGTGATCATTCAGGTTTTTTTTTTTCTTTTATTAATGTGATCACTTGGTCTGTTAATGCGTTAGTATCTAACAATACCTATTGGGGCTGACCGGTGACCTCCCTCGTGGAATTGTATAAATATTTTATATGTTATGGTTCCTAATAAATAATTGAATTTTA

Coding sequences of Glyma11g02480

Limit To All Plant Sequences

>Glyma11g02480.2   sequence type=CDS   gene model=Glyma11g02480   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGCCTCACAGCAGCACATCGAGAAGATGCAACTCCGCCAGAACTTCCGCAATCTCTGGCACTCTGATCTCTTTAGTACCATTCAAGCTGACACCCCTTATTGTTGCTTTTCTCTGTGGTGTGCACCGTGTGTATCATATCTGCTCCGCAAACGAGCCCTTTACGATGATCTGTCAAGATACACTTGTTGTGCTGGTTACATGCCCTGCAGTGGTCGGTGTGGAGAAAGTAAATGTCCTGAACTCTGCCTTGGTGTGGAGGTTGTCTGCTGTTTTGGAAATTCAGTCGCCTCAACTCGATTTCTGTTACAAGATGAATTTAATATTCAAACTACGCAATGTGATAATTGCATTATTGCTTTCATGTTTGTCCTTCAACGACTTGCCTGCATATTTTCTATTATTGCTTTAATTGTGGGAAATAGTGAAATTCGACAGGCTTCTCAATTGCTATCTTGTTTGGCTGACTTCGTCTACTGCACGGTGTGTGCTTGCATGCAGGTAAAATTACATAAGATTGAAATGGACAAACGTGATGGGAAATTTGGACCCCAATCAGTAATGGGTGTTCCCCGTGTTCAACAAATGTCACGCTTTGATCAGCAAGTCCCCCCTTTTGTTGGGTATGCACCACAACCAGCATACGGGCAGGGCTATGGTTATTCACATTCCTAG

>Glyma11g02480.3   sequence type=CDS   gene model=Glyma11g02480   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGCCTCACAGCAGCACATCGAGAAGATGCAACTCCGCCAGAACTTCCGCAATCTCTGGCACTCTGATCTCTTTAGTACCATTCAAGCTGACACCCCTTATTGTTGCTTTTCTCTGTGGTGTGCACCGTGTGTATCATATCTGCTCCGCAAACGAGCCCTTTACGATGATCTGTCAAGATACACTTGTTGTGCTGGTTACATGCCCTGCAGTGGTCGGTGTGGAGAAAGTAAATGTCCTGAACTCTGCCTTGGTGTGGAGGTTGTCTGCTGTTTTGGAAATTCAGTCGCCTCAACTCGATTTCTGTTACAAGATGAATTTAATATTCAAACTACGCAATGTGATAATTGCATTATTGCTTTCATGTTTGTCCTTCAACGACTTGCCTGCATATTTTCTATTATTGCTTTAATTGTGGGAAATAGTGAAATTCGACAGGCTTCTCAATTGCTATCTTGTTTGGCTGACTTCGTCTACTGCACGGTGTGTGCTTGCATGCAGACATAA

Predicted protein sequences of Glyma11g02480

Limit To All Plant Sequences

>Glyma11g02480.2   sequence type=predicted peptide   gene model=Glyma11g02480   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MASQQHIEKMQLRQNFRNLWHSDLFSTIQADTPYCCFSLWCAPCVSYLLRKRALYDDLSRYTCCAGYMPCSGRCGESKCPELCLGVEVVCCFGNSVASTRFLLQDEFNIQTTQCDNCIIAFMFVLQRLACIFSIIALIVGNSEIRQASQLLSCLADFVYCTVCACMQVKLHKIEMDKRDGKFGPQSVMGVPRVQQMSRFDQQVPPFVGYAPQPAYGQGYGYSHS*

>Glyma11g02480.3   sequence type=predicted peptide   gene model=Glyma11g02480   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MASQQHIEKMQLRQNFRNLWHSDLFSTIQADTPYCCFSLWCAPCVSYLLRKRALYDDLSRYTCCAGYMPCSGRCGESKCPELCLGVEVVCCFGNSVASTRFLLQDEFNIQTTQCDNCIIAFMFVLQRLACIFSIIALIVGNSEIRQASQLLSCLADFVYCTVCACMQT*

Funded by the USDA-ARS. Developed by the USDA-ARS SoyBase and Legume Clade Database group at the Iowa State University, Ames, IA

U.S. Public Domain