Glyma09g28350 - 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/Glyma09g28350): 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/Glyma09g28350): 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 Glyma09g28350

Feature Type:	gene_model
Chromosome:	Gm09
Start:	35339737
stop:	35344206
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma09g28350

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT2G44065	AT	Annotation by Michelle Graham. TAIR10: Ribosomal protein L2 family \| chr2:18228860-18230368 FORWARD LENGTH=214	SoyBase	E_val: 1.00E-78	ISS
GO:0006354	GO-bp	Annotation by Michelle Graham. GO Biological Process: DNA-dependent transcription, elongation	SoyBase	N/A	ISS
GO:0006412	GO-bp	Annotation by Michelle Graham. GO Biological Process: translation	SoyBase	N/A	ISS
GO:0006511	GO-bp	Annotation by Michelle Graham. GO Biological Process: ubiquitin-dependent protein catabolic process	SoyBase	N/A	ISS
GO:0009853	GO-bp	Annotation by Michelle Graham. GO Biological Process: photorespiration	SoyBase	N/A	ISS
GO:0051788	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to misfolded protein	SoyBase	N/A	ISS
GO:0080129	GO-bp	Annotation by Michelle Graham. GO Biological Process: proteasome core complex assembly	SoyBase	N/A	ISS
GO:0005622	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: intracellular	SoyBase	N/A	ISS
GO:0005840	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: ribosome	SoyBase	N/A	ISS
GO:0009507	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: chloroplast	SoyBase	N/A	ISS
GO:0015934	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: large ribosomal subunit	SoyBase	N/A	ISS
GO:0003723	GO-mf	Annotation by Michelle Graham. GO Molecular Function: RNA binding	SoyBase	N/A	ISS
GO:0003735	GO-mf	Annotation by Michelle Graham. GO Molecular Function: structural constituent of ribosome	SoyBase	N/A	ISS
GO:0016740	GO-mf	Annotation by Michelle Graham. GO Molecular Function: transferase activity	SoyBase	N/A	ISS
PTHR13691	Panther	RIBOSOMAL PROTEIN L2	JGI		ISS
PTHR13691:SF2	Panther	50S RIBOSOMAL PROTEIN L2P	JGI		ISS
PF03947	PFAM	Ribosomal Proteins L2, C-terminal domain	JGI		ISS
UniRef100_G7IK82	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: 60S ribosomal protein L2 n=1 Tax=Medicago truncatula RepID=G7IK82_MEDTR	SoyBase	E_val: 6.00E-99	ISS
UniRef100_I1L3M3	UniRef	Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=I1L3M3_SOYBN	SoyBase	E_val: 1.00E-138	ISS

Expression Patterns of Glyma09g28350

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

Glyma09g28350 not represented in the dataset	Glyma09g28350 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 Glyma09g28350

Paralog	Evidence	Comments
Glyma16g33160	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 Glyma09g28350 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.09g155900	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma09g28350

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

Transcripts of Glyma09g28350

Limit To All Plant Sequences

>Glyma09g28350.2   sequence type=transcript   gene model=Glyma09g28350   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
GGTAAAACTAACCCCTGCGTTGCTCCCTTCCTCATCGTTGCCAATTGTGGAGTTTCGACACAGCATCGTCATCTTCCGCGAACACTACCGACAATAACCATGTCCCCACTGCAAACCCAACATCAACAACAATGCAACATCATTTTACCGTAACGTAACGTAACCACGAGATGCCTCTATTCTAGCACTTGGAACCCCAAATCCGTGCCAATTCCTCCGCTCCTTTTCGCAGACGAAGGCACATTCTGACGTTCACAAGATTGGAAGGCAAGACTAAAGATTCCACCACCTGATACAAGCTAGAAAACAGAGGTTTGAAATGGCTGTGTCACTGTGGAGAAGTCGCACTGCTTCATCAGCACTGAACTTGTTCAACAATACTCTTCGCTGTTTCTCTTCCGAGGCAACAAACTCCAGTCCTCATAGTACACGAGAGAGTATGATGTATTCTGACATAAACTCACGAATTGGGAGTTGCATGCCACTGTCTGCAATGCGCATTGGAACAATCATTCACAACATTGAGTTGAACCCAGGGCAAGGTGGCAAGCTCGTCCGAGCTGCTGGAACTAGTGCAAAGATCTTGAAAGAGCCCACATCGGCATACTGTTTAATCCAACTGCCCTCGGGTGTTAAAAAGTTGATTGATTCTCGATGTAGGGCCACTGTTGGTGTTGTATCTAATCCTAGCCATGGGGATCGCAAACTTAGGAAGGCCGGACACAGCCGATGGCTTGGTCGAAGACCAGTTGTCCGAGGAGTGGCAATGAATCCAGTAGATCATCCTCATGGTGGAGGAGAGGGTAAGAGCAAGAGTGGTGGACGATTTGGGCGAGGATCTCTCACTCCTTGGGGCAAGCCAACTAAGAGTGGCTACAAGACTGGACCCCTGAAGCGCAAAAGGTAGTAGGATACCATATTCATTATAGCTGTTTCTGATGTTTCCTTATGAGATGCTTGTAAGTTGTAATAATTGTGGAAACTGTCATTCCTATTTAGGAAATTCATTGAACTGATTAGGTTCACAGCCAATTTGTGGATTTTATGGGTTCAAATTTTATTGTTGTTAAAGTAAAATGTTTTTGAAATGATCACATTTTCCTCTGAACTGGACTTGCATTCAGCTTATTATACACCTCCATTGTTCACACTTCACACTAGATGAAGTTTGCTAGACTGGCTATTATGCGTTTATGAATTGGTTTGGATTAATTTCGTTGACTTGCTTAAATG

Coding sequences of Glyma09g28350

Limit To All Plant Sequences

>Glyma09g28350.1   sequence type=CDS   gene model=Glyma09g28350   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGCTGTGTCACTGTGGAGAAGTCGCACTGCTTCATCAGCACTGAACTTGTTCAACAATACTCTTCGCTGTTTCTCTTCCGAGGCAACAAACTCCAGTCCTCATAGTACACGAGAGAGTATGATGTATTCTGACATAAACTCACGAATTGGGAGTTGCATGCCACTGTCTGCAATGCGCATTGGAACAATCATTCACAACATTGAGTTGAACCCAGGGCAAGGTGGCAAGCTCGTCCGAGCTGCTGGAACTAGTGCAAAGATCTTGAAAGAGCCCACATCGGCATACTGTTTAATCCAACTGCCCTCGGGTGTTAAAAAGTTGATTGATTCTCGATGTAGGGCCACTGTTGGTGTTGTATCTAATCCTAGCCATGGGGATCGCAAACTTAGGAAGGCCGGACACAGCCGATGGCTTGGTCGAAGACCAGTTGTCCGAGGAGTGGCAATGAATCCAGTAGATCATCCTCATGGTGGAGGAGAGGGTAAGAGCAAGAGTGGTGGACGATTTGGGCGAGGATCTCTCACTCCTTGGGGCAAGCCAACTAAGAGTGGCTACAAGACTGGACCCCTGAAGCGCAAAAGGTAG

>Glyma09g28350.2   sequence type=CDS   gene model=Glyma09g28350   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGCTGTGTCACTGTGGAGAAGTCGCACTGCTTCATCAGCACTGAACTTGTTCAACAATACTCTTCGCTGTTTCTCTTCCGAGGCAACAAACTCCAGTCCTCATAGTACACGAGAGAGTATGATGTATTCTGACATAAACTCACGAATTGGGAGTTGCATGCCACTGTCTGCAATGCGCATTGGAACAATCATTCACAACATTGAGTTGAACCCAGGGCAAGGTGGCAAGCTCGTCCGAGCTGCTGGAACTAGTGCAAAGATCTTGAAAGAGCCCACATCGGCATACTGTTTAATCCAACTGCCCTCGGGTGTTAAAAAGTTGATTGATTCTCGATGTAGGGCCACTGTTGGTGTTGTATCTAATCCTAGCCATGGGGATCGCAAACTTAGGAAGGCCGGACACAGCCGATGGCTTGGTCGAAGACCAGTTGTCCGAGGAGTGGCAATGAATCCAGTAGATCATCCTCATGGTGGAGGAGAGGGTAAGAGCAAGAGTGGTGGACGATTTGGGCGAGGATCTCTCACTCCTTGGGGCAAGCCAACTAAGAGTGGCTACAAGACTGGACCCCTGAAGCGCAAAAGGTAG

Predicted protein sequences of Glyma09g28350

Limit To All Plant Sequences

>Glyma09g28350.1   sequence type=predicted peptide   gene model=Glyma09g28350   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MAVSLWRSRTASSALNLFNNTLRCFSSEATNSSPHSTRESMMYSDINSRIGSCMPLSAMRIGTIIHNIELNPGQGGKLVRAAGTSAKILKEPTSAYCLIQLPSGVKKLIDSRCRATVGVVSNPSHGDRKLRKAGHSRWLGRRPVVRGVAMNPVDHPHGGGEGKSKSGGRFGRGSLTPWGKPTKSGYKTGPLKRKR*

>Glyma09g28350.2   sequence type=predicted peptide   gene model=Glyma09g28350   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MAVSLWRSRTASSALNLFNNTLRCFSSEATNSSPHSTRESMMYSDINSRIGSCMPLSAMRIGTIIHNIELNPGQGGKLVRAAGTSAKILKEPTSAYCLIQLPSGVKKLIDSRCRATVGVVSNPSHGDRKLRKAGHSRWLGRRPVVRGVAMNPVDHPHGGGEGKSKSGGRFGRGSLTPWGKPTKSGYKTGPLKRKR*

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