Glyma10g38830 - 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/Glyma10g38830): 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/Glyma10g38830): 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 Glyma10g38830

Feature Type:	gene_model
Chromosome:	Gm10
Start:	46603904
stop:	46608000
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma10g38830

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT3G22880	AT	Annotation by Michelle Graham. TAIR10: DNA repair (Rad51) family protein \| chr3:8097948-8100740 REVERSE LENGTH=344	SoyBase	E_val: 0	ISS
GO:0006259	GO-bp	Annotation by Michelle Graham. GO Biological Process: DNA metabolic process	SoyBase	N/A	ISS
GO:0006281	GO-bp	Annotation by Michelle Graham. GO Biological Process: DNA repair	SoyBase	N/A	ISS
GO:0006302	GO-bp	Annotation by Michelle Graham. GO Biological Process: double-strand break repair	SoyBase	N/A	ISS
GO:0007131	GO-bp	Annotation by Michelle Graham. GO Biological Process: reciprocal meiotic recombination	SoyBase	N/A	ISS
GO:0010212	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to ionizing radiation	SoyBase	N/A	ISS
GO:0051026	GO-bp	Annotation by Michelle Graham. GO Biological Process: chiasma assembly	SoyBase	N/A	ISS
GO:0005634	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: nucleus	SoyBase	N/A	ISS
GO:0000166	GO-mf	Annotation by Michelle Graham. GO Molecular Function: nucleotide binding	SoyBase	N/A	ISS
GO:0003677	GO-mf	Annotation by Michelle Graham. GO Molecular Function: DNA binding	SoyBase	N/A	ISS
GO:0003684	GO-mf	Annotation by Michelle Graham. GO Molecular Function: damaged DNA binding	SoyBase	N/A	ISS
GO:0005515	GO-mf	Annotation by Michelle Graham. GO Molecular Function: protein binding	SoyBase	N/A	ISS
GO:0005524	GO-mf	Annotation by Michelle Graham. GO Molecular Function: ATP binding	SoyBase	N/A	ISS
GO:0008094	GO-mf	Annotation by Michelle Graham. GO Molecular Function: DNA-dependent ATPase activity	SoyBase	N/A	ISS
GO:0017111	GO-mf	Annotation by Michelle Graham. GO Molecular Function: nucleoside-triphosphatase activity	SoyBase	N/A	ISS
KOG1434	KOG	Meiotic recombination protein Dmc1	JGI		ISS
PTHR22942	Panther	RECA/RAD51/RADA DNA STRAND-PAIRING FAMILY MEMBER	JGI		ISS
PTHR22942:SF13	Panther	MEIOTIC RECOMBINATION PROTEIN DMC1	JGI		ISS
PF08423	PFAM	Rad51	JGI		ISS
UniRef100_Q96449	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: Meiotic recombination protein DMC1 homolog n=1 Tax=Glycine max RepID=DMC1_SOYBN	SoyBase	E_val: 0	ISS
UniRef100_Q96449	UniRef	Annotation by Michelle Graham. Best UniRef hit: Meiotic recombination protein DMC1 homolog n=1 Tax=Glycine max RepID=DMC1_SOYBN	SoyBase	E_val: 0	ISS

Expression Patterns of Glyma10g38830

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

Glyma10g38830 not represented in the dataset	Glyma10g38830 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 Glyma10g38830

Paralog	Evidence	Comments
Glyma20g28941	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 Glyma10g38830 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.10g243200	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma10g38830

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

Transcripts of Glyma10g38830

Limit To All Plant Sequences

>Glyma10g38830.2   sequence type=transcript   gene model=Glyma10g38830   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
TCTCTCTCTCTCTCTCTCTCTCTCAATTCTTCAGGCACCTTCAAAATTTCTCTCTAGAGTCACGATGCTTGCGACGCTCAAATCCGAAGAGTCCAGTGGTCAGTTACAGCTCGTCGAACGAGAAGACATAGACGACGATGAAGATCTCTTCGAAGCCATCGACAAACTGATTGCTCAAGGCATCAATGCCGGAGATGTGAAGAAGCTTCAGGACGCAGGGATATATACTTGCAATGGCTTGATGATGCACACGAAGAAGAATTTGACTGGAATCAAAGGTCTATCCGAGGCTAAGGTTGATAAGATCTGCGAGGCTGCTGAGAAGCTTGTGAGAAAGTCAGTGATCCGAATTACTACTGGAAGTCAAGCGCTTGATGAATTGCTAGGAGGCGGGGTCGAGACATCGGCAATTACAGAGGCGTTTGGAGAATTCCGATCTGGGAAAACACAGCTAGCTCACACTCTCTGTGTTTCCACTCAGCTGCCAACTAATATGCGTGGAGGCAACGGAAAAGTTGCTTACATTGACACAGAAGGAACTTTCCGACCAGACCGAATTGTTCCCATAGCTGAGAGATTTGGCATGGATCCTGGGGCTGTACTGGACAATATTATATATGCTCGTGCCTACACTTATGAGCATCAGTACAACCTCCTCCTTGGTTTGGCTGCAAAAATGTCCGAAGAACCATTCAGACTTCTGATTGTGGATTCGGTGATTGCTCTGTTTCGAGTGGACTTCTCAGGAAGAGGAGAGCTTGCAGATCGCCAGCAAAAATTGGCACAGATGCTTTCTCGATTAATAAAGATAGCTGAGGAATTTAATGTTGCCGTCTATATGACAAATCAGGTCATATCTGATCCAGGAGGTGGCGTGTTTGTAACTGATCCAAAGAAACCAGCAGGAGGGCATGTGCTAGCCCATGCAGCCACGGTAAGGTTGATGTTCAGAAAAGGGAAAGGGGAACAGCGCATTTGCAAAGTGTTTGACGCCCCCAACCTGCCAGAGGCTGAAGCAGTGTTCCAGATAACAGCAGGGGGAATTGCAGACGCTAAGGACTAAAGAGTCGCTTCTGAGTTGTGACTTCTGGGCCGAATCCACAAAAGAAACAGTAGTGGCTGAATATTTCTGGTAACCTTAATCTTCCAGATATTTGCTACAGTTTGTATGAAAAGTGTTGTTCCTTGAACACTTTTACTATTTTCCAGTGATATGATATGAGTTCCCCTTAGTTATACTTATACACGTTTCCTTTATTGTAAGTTGCGATACATTTTGCAATTTGAACGTTTCACAAACATTGAAAATCTTGCTGCAAGTTTCTACTTTCTAGAGAGAGTCTATTTTTGACATTATATTCATCACCTTGATAGTTTAGGTAAGGCACAGATAAGGCTAAATAAAACGAGATAAAACAAAGGCGGTAAATAATCATTTGGATGAACCTGTCCGCAAGTTTATATTATTACAAGATAAGTGCGAAGAGAGTATGAGCTTAACCATTTGCTTCAAAGCAACTTTGTATAACTTCATGAAATCATGTCAGATTCAGTAAATAAATTAATATGATAAGCAAAGCCTCAAAGTTATCATAATATAGGAACAGGTCCAGAACTTGCAGCCGAGTGCAGCTATGATAAAATAAAAGCCCATAATTCAAACAGAATAGAGTCGCAATCAGATATTATTTGACCAGTTAGCAGCACTCCCAACCCTTGGCATGCCAGTTGCTTCCTTCTTAGCCTCAGCATCCACCTTGAAAGTTGCACCACACACCTGTCCGGAACTGTCAACCCTTGGTACAGGCTTCACCTCATTCAGTGGATGCTCAAAACTGCTCAAACCTCC

Coding sequences of Glyma10g38830

Limit To All Plant Sequences

>Glyma10g38830.1   sequence type=CDS   gene model=Glyma10g38830   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGCTTGCGACGCTCAAATCCGAAGAGTCCAGTGGTCAGTTACAGCTCGTCGAACGAGAAGACATAGACGACGATGAAGATCTCTTCGAAGCCATCGACAAACTGATTGCTCAAGGCATCAATGCCGGAGATGTGAAGAAGCTTCAGGACGCAGGGATATATACTTGCAATGGCTTGATGATGCACACGAAGAAGAATTTGACTGGAATCAAAGGTCTATCCGAGGCTAAGGTTGATAAGATCTGCGAGGCTGCTGAGAAGCTTGTGAATTTCGGTTATATTACCGGAAGTGATGCTCTGCTCAAAAGAAAGTCAGTGATCCGAATTACTACTGGAAGTCAAGCGCTTGATGAATTGCTAGGAGGCGGGGTCGAGACATCGGCAATTACAGAGGCGTTTGGAGAATTCCGATCTGGGAAAACACAGCTAGCTCACACTCTCTGTGTTTCCACTCAGCTGCCAACTAATATGCGTGGAGGCAACGGAAAAGTTGCTTACATTGACACAGAAGGAACTTTCCGACCAGACCGAATTGTTCCCATAGCTGAGAGATTTGGCATGGATCCTGGGGCTGTACTGGACAATATTATATATGCTCGTGCCTACACTTATGAGCATCAGTACAACCTCCTCCTTGGTTTGGCTGCAAAAATGTCCGAAGAACCATTCAGACTTCTGATTGTGGATTCGGTGATTGCTCTGTTTCGAGTGGACTTCTCAGGAAGAGGAGAGCTTGCAGATCGCCAGCAAAAATTGGCACAGATGCTTTCTCGATTAATAAAGATAGCTGAGGAATTTAATGTTGCCGTCTATATGACAAATCAGGTCATATCTGATCCAGGAGGTGGCGTGTTTGTAACTGATCCAAAGAAACCAGCAGGAGGGCATGTGCTAGCCCATGCAGCCACGGTAAGGTTGATGTTCAGAAAAGGGAAAGGGGAACAGCGCATTTGCAAAGTGTTTGACGCCCCCAACCTGCCAGAGGCTGAAGCAGTGTTCCAGATAACAGCAGGGGGAATTGCAGACGCTAAGGACTAA

>Glyma10g38830.2   sequence type=CDS   gene model=Glyma10g38830   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGCTTGCGACGCTCAAATCCGAAGAGTCCAGTGGTCAGTTACAGCTCGTCGAACGAGAAGACATAGACGACGATGAAGATCTCTTCGAAGCCATCGACAAACTGATTGCTCAAGGCATCAATGCCGGAGATGTGAAGAAGCTTCAGGACGCAGGGATATATACTTGCAATGGCTTGATGATGCACACGAAGAAGAATTTGACTGGAATCAAAGGTCTATCCGAGGCTAAGGTTGATAAGATCTGCGAGGCTGCTGAGAAGCTTGTGAGAAAGTCAGTGATCCGAATTACTACTGGAAGTCAAGCGCTTGATGAATTGCTAGGAGGCGGGGTCGAGACATCGGCAATTACAGAGGCGTTTGGAGAATTCCGATCTGGGAAAACACAGCTAGCTCACACTCTCTGTGTTTCCACTCAGCTGCCAACTAATATGCGTGGAGGCAACGGAAAAGTTGCTTACATTGACACAGAAGGAACTTTCCGACCAGACCGAATTGTTCCCATAGCTGAGAGATTTGGCATGGATCCTGGGGCTGTACTGGACAATATTATATATGCTCGTGCCTACACTTATGAGCATCAGTACAACCTCCTCCTTGGTTTGGCTGCAAAAATGTCCGAAGAACCATTCAGACTTCTGATTGTGGATTCGGTGATTGCTCTGTTTCGAGTGGACTTCTCAGGAAGAGGAGAGCTTGCAGATCGCCAGCAAAAATTGGCACAGATGCTTTCTCGATTAATAAAGATAGCTGAGGAATTTAATGTTGCCGTCTATATGACAAATCAGGTCATATCTGATCCAGGAGGTGGCGTGTTTGTAACTGATCCAAAGAAACCAGCAGGAGGGCATGTGCTAGCCCATGCAGCCACGGTAAGGTTGATGTTCAGAAAAGGGAAAGGGGAACAGCGCATTTGCAAAGTGTTTGACGCCCCCAACCTGCCAGAGGCTGAAGCAGTGTTCCAGATAACAGCAGGGGGAATTGCAGACGCTAAGGACTAA

Predicted protein sequences of Glyma10g38830

Limit To All Plant Sequences

>Glyma10g38830.1   sequence type=predicted peptide   gene model=Glyma10g38830   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MLATLKSEESSGQLQLVEREDIDDDEDLFEAIDKLIAQGINAGDVKKLQDAGIYTCNGLMMHTKKNLTGIKGLSEAKVDKICEAAEKLVNFGYITGSDALLKRKSVIRITTGSQALDELLGGGVETSAITEAFGEFRSGKTQLAHTLCVSTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFSGRGELADRQQKLAQMLSRLIKIAEEFNVAVYMTNQVISDPGGGVFVTDPKKPAGGHVLAHAATVRLMFRKGKGEQRICKVFDAPNLPEAEAVFQITAGGIADAKD*

>Glyma10g38830.2   sequence type=predicted peptide   gene model=Glyma10g38830   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MLATLKSEESSGQLQLVEREDIDDDEDLFEAIDKLIAQGINAGDVKKLQDAGIYTCNGLMMHTKKNLTGIKGLSEAKVDKICEAAEKLVRKSVIRITTGSQALDELLGGGVETSAITEAFGEFRSGKTQLAHTLCVSTQLPTNMRGGNGKVAYIDTEGTFRPDRIVPIAERFGMDPGAVLDNIIYARAYTYEHQYNLLLGLAAKMSEEPFRLLIVDSVIALFRVDFSGRGELADRQQKLAQMLSRLIKIAEEFNVAVYMTNQVISDPGGGVFVTDPKKPAGGHVLAHAATVRLMFRKGKGEQRICKVFDAPNLPEAEAVFQITAGGIADAKD*

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