Glyma08g13630 - 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/Glyma08g13630): 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/Glyma08g13630): 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 Glyma08g13630

Feature Type:	gene_model
Chromosome:	Gm08
Start:	9969731
stop:	9974613
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma08g13630

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT4G20380	AT	Annotation by Michelle Graham. TAIR10: LSD1 zinc finger family protein \| chr4:11005012-11006438 FORWARD LENGTH=189	SoyBase	E_val: 1.00E-73	ISS
GO:0000303	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to superoxide	SoyBase	N/A	ISS
GO:0001666	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to hypoxia	SoyBase	N/A	ISS
GO:0002240	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to molecule of oomycetes origin	SoyBase	N/A	ISS
GO:0006914	GO-bp	Annotation by Michelle Graham. GO Biological Process: autophagy	SoyBase	N/A	ISS
GO:0008219	GO-bp	Annotation by Michelle Graham. GO Biological Process: cell death	SoyBase	N/A	ISS
GO:0009626	GO-bp	Annotation by Michelle Graham. GO Biological Process: plant-type hypersensitive response	SoyBase	N/A	ISS
GO:0009651	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to salt stress	SoyBase	N/A	ISS
GO:0009733	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to auxin stimulus	SoyBase	N/A	ISS
GO:0009737	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to abscisic acid stimulus	SoyBase	N/A	ISS
GO:0009743	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to carbohydrate stimulus	SoyBase	N/A	ISS
GO:0009751	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to salicylic acid stimulus	SoyBase	N/A	ISS
GO:0009862	GO-bp	Annotation by Michelle Graham. GO Biological Process: systemic acquired resistance, salicylic acid mediated signaling pathway	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:0009873	GO-bp	Annotation by Michelle Graham. GO Biological Process: ethylene mediated signaling pathway	SoyBase	N/A	ISS
GO:0010104	GO-bp	Annotation by Michelle Graham. GO Biological Process: regulation of ethylene mediated signaling pathway	SoyBase	N/A	ISS
GO:0010310	GO-bp	Annotation by Michelle Graham. GO Biological Process: regulation of hydrogen peroxide metabolic process	SoyBase	N/A	ISS
GO:0010602	GO-bp	Annotation by Michelle Graham. GO Biological Process: regulation of 1-aminocyclopropane-1-carboxylate metabolic process	SoyBase	N/A	ISS
GO:0010618	GO-bp	Annotation by Michelle Graham. GO Biological Process: aerenchyma formation	SoyBase	N/A	ISS
GO:0043067	GO-bp	Annotation by Michelle Graham. GO Biological Process: regulation of programmed cell death	SoyBase	N/A	ISS
GO:0043069	GO-bp	Annotation by Michelle Graham. GO Biological Process: negative regulation of programmed cell death	SoyBase	N/A	ISS
GO:0005576	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: extracellular region	SoyBase	N/A	ISS
GO:0003700	GO-mf	Annotation by Michelle Graham. GO Molecular Function: sequence-specific DNA binding transcription factor activity	SoyBase	N/A	ISS
GO:0005515	GO-mf	Annotation by Michelle Graham. GO Molecular Function: protein binding	SoyBase	N/A	ISS
PF06943	PFAM	LSD1 zinc finger	JGI		ISS
UniRef100_C6TGF7	UniRef	Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=C6TGF7_SOYBN	SoyBase	E_val: 1.00E-121	ISS
UniRef100_G7L9L5	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: Lsd1-like protein n=2 Tax=Medicago truncatula RepID=G7L9L5_MEDTR	SoyBase	E_val: 6.00E-107	ISS

Expression Patterns of Glyma08g13630

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

Glyma08g13630 not represented in the dataset	Glyma08g13630 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 Glyma08g13630

Paralog	Evidence	Comments
Glyma05g30490	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 Glyma08g13630 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.08g129400	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma08g13630

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

Transcripts of Glyma08g13630

Limit To All Plant Sequences

>Glyma08g13630.2   sequence type=transcript   gene model=Glyma08g13630   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
AAGAAACGTAGATTAATAGTCGCTGAAGAAATTTCCGAAAGTGTGTGTGGGATGAGAAGATGATGAGGAAACATTGGTAGAAGAAATTGGAGAGAGAGAGAGAGAGAGAGGGTTGGATTGGTTTTCTTCTTCCTCTTCCTAAAGAGAATCTAATCTCAATCCTCATTACACACATATCTACAGATTTCTTCATTCCTCTCTCAATCTTTTCTGTTTTCTTTTCCCCTCTTTGACATCCTCGTTTTCGCCGAAACAAAAACAACTAAGATTTTGTTTTTTGTTGTATTTTTCTTCCTGTTGTTATTTGACTCGGTTGTCTGAATCAGTTGTTGCAGCAGGGTCGGGAGCCACAGCTATGCAGAGCCAAGTTGTGTGCAATGGTTGTAGGAGCCTTCTGCTTTACCCAAGAGGAGCAACCAATGTCTGTTGTGCATTGTGCAACACAATTACCTCTGTTCCTCCACCTGGGATGGAAATGTCTCAACTTTATTGTGGAGGTTGTAGGACATTGCTAATGTACACACGTGGAGCTACAAGTGTGAGATGTTCCTGCTGTCACACTGTAAACCTTGTTCCACCAGCATCTAATCAAGTGGCTCATGTCCATTGTGGGAACTGCCGGACAACACTCATGTATCCTTATGGAGCTCCCTCAGTCAAATGTGCTCTTTGTCACTTTATTACTAATACAAACAATGGAAGGCTTCCAATCCCTGTCCATAGACCCAATGGGACAAACAATGCTGGAACATTACCTTCTACATCAACATCAATGCCCCAATCTCAAAGTCAAACGGTAGTGGTAGAAAATCCAATGTCTGTTGATTCAAGTGGGAAATTGGTGAGCAATGTTGTTGTTGGCGTTACAACGGATAAGAAATAACATCATCACATATAAAAGGTACAGTTCACGTCATGACGCATCACCACAGTTGCTGTCACAGGAAGATATTGTTTGTGTATATGAATATATATATGATATTGCAGCCTGCAATGGTTTAATTGAAATCAATATTTTTCCAATATAAGAGTTGGACGAATATCATGTATGTATGAATGTATATGAGGCGGACAAGTCGTGAAAAGGCCATAAAACCTGTTTTGTGTGATTGCCAGAGCCTACTTTGTTTTTTGCTTGGTACCCATACCCAAGTCAATTGGTTCATTCGGATAAAATATGTTGACTTCCAAGTCCTAGACTAGTAAATGCTACTATTTCTTTCATGGCTTGTGAAGCTTGTGCTTTTCTTGGTGATCTGTTAGTTACATCTGTTGTAATATTTGATCTTGTGCAAGCATTGCTTCATAAAATGACTGATATGATAAATTTTTACCAGTCATTTGAAAATTTTGGATAAGACACAGGCTGCTTTAGAAGTTTGATATATACCAATTATCTCATGTTACTTTTAAGTAAAAAAATAAAATAAGCTGTTGAAAAACATTTCCAGGAAAATGTTGGACATTTGCCATTATT

Coding sequences of Glyma08g13630

Limit To All Plant Sequences

>Glyma08g13630.1   sequence type=CDS   gene model=Glyma08g13630   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGCAGAGCCAAGTTGTGTGCAATGGTTGTAGGAGCCTTCTGCTTTACCCAAGAGGAGCAACCAATGTCTGTTGTGCATTGTGCAACACAATTACCTCTGTTCCTCCACCTGGGATGGAAATGTCTCAACTTTATTGTGGAGGTTGTAGGACATTGCTAATGTACACACGTGGAGCTACAAGTGTGAGATGTTCCTGCTGTCACACTGTAAACCTTGTTCCACCAGCATCTAATCAAGTGGCTCATGTCCATTGTGGGAACTGCCGGACAACACTCATGTATCCTTATGGAGCTCCCTCAGTCAAATGTGCTCTTTGTCACTTTATTACTAATGTCAGTACAAACAATGGAAGGCTTCCAATCCCTGTCCATAGACCCAATGGGACAAACAATGCTGGAACATTACCTTCTACATCAACATCAATGCCCCAATCTCAAAGTCAAACGGTAGTGGTAGAAAATCCAATGTCTGTTGATTCAAGTGGGAAATTGGTGAGCAATGTTGTTGTTGGCGTTACAACGGATAAGAAATAA

>Glyma08g13630.2   sequence type=CDS   gene model=Glyma08g13630   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGCAGAGCCAAGTTGTGTGCAATGGTTGTAGGAGCCTTCTGCTTTACCCAAGAGGAGCAACCAATGTCTGTTGTGCATTGTGCAACACAATTACCTCTGTTCCTCCACCTGGGATGGAAATGTCTCAACTTTATTGTGGAGGTTGTAGGACATTGCTAATGTACACACGTGGAGCTACAAGTGTGAGATGTTCCTGCTGTCACACTGTAAACCTTGTTCCACCAGCATCTAATCAAGTGGCTCATGTCCATTGTGGGAACTGCCGGACAACACTCATGTATCCTTATGGAGCTCCCTCAGTCAAATGTGCTCTTTGTCACTTTATTACTAATACAAACAATGGAAGGCTTCCAATCCCTGTCCATAGACCCAATGGGACAAACAATGCTGGAACATTACCTTCTACATCAACATCAATGCCCCAATCTCAAAGTCAAACGGTAGTGGTAGAAAATCCAATGTCTGTTGATTCAAGTGGGAAATTGGTGAGCAATGTTGTTGTTGGCGTTACAACGGATAAGAAATAA

Predicted protein sequences of Glyma08g13630

Limit To All Plant Sequences

>Glyma08g13630.1   sequence type=predicted peptide   gene model=Glyma08g13630   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MQSQVVCNGCRSLLLYPRGATNVCCALCNTITSVPPPGMEMSQLYCGGCRTLLMYTRGATSVRCSCCHTVNLVPPASNQVAHVHCGNCRTTLMYPYGAPSVKCALCHFITNVSTNNGRLPIPVHRPNGTNNAGTLPSTSTSMPQSQSQTVVVENPMSVDSSGKLVSNVVVGVTTDKK*

>Glyma08g13630.2   sequence type=predicted peptide   gene model=Glyma08g13630   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MQSQVVCNGCRSLLLYPRGATNVCCALCNTITSVPPPGMEMSQLYCGGCRTLLMYTRGATSVRCSCCHTVNLVPPASNQVAHVHCGNCRTTLMYPYGAPSVKCALCHFITNTNNGRLPIPVHRPNGTNNAGTLPSTSTSMPQSQSQTVVVENPMSVDSSGKLVSNVVVGVTTDKK*

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