Glyma20g28900 - 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/Glyma20g28900): 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/Glyma20g28900): 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 Glyma20g28900

Feature Type:	gene_model
Chromosome:	Gm20
Start:	37843335
stop:	37846483
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma20g28900

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT3G22845	AT	Annotation by Michelle Graham. TAIR10: emp24/gp25L/p24 family/GOLD family protein \| chr3:8087373-8088550 FORWARD LENGTH=214	SoyBase	E_val: 1.00E-124	ISS
GO:0006810	GO-bp	Annotation by Michelle Graham. GO Biological Process: transport	SoyBase	N/A	ISS
GO:0016126	GO-bp	Annotation by Michelle Graham. GO Biological Process: sterol biosynthetic process	SoyBase	N/A	ISS
GO:0046520	GO-bp	Annotation by Michelle Graham. GO Biological Process: sphingoid biosynthetic process	SoyBase	N/A	ISS
GO:0005773	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: vacuole	SoyBase	N/A	ISS
GO:0005783	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: endoplasmic reticulum	SoyBase	N/A	ISS
GO:0005794	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: Golgi apparatus	SoyBase	N/A	ISS
GO:0016021	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: integral to membrane	SoyBase	N/A	ISS
KOG1692	KOG	Putative cargo transport protein EMP24 (p24 protein family)	JGI		ISS
PTHR22811	Panther	COPII-COATED VESICLE MEMBRANE PROTEIN	JGI		ISS
PTHR22811:SF32	Panther		JGI		ISS
PF01105	PFAM	emp24/gp25L/p24 family/GOLD	JGI		ISS
UniRef100_B9RTJ5	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: Coated vesicle membrane protein, putative n=1 Tax=Ricinus communis RepID=B9RTJ5_RICCO	SoyBase	E_val: 8.00E-126	ISS
UniRef100_C6SVC0	UniRef	Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=C6SVC0_SOYBN	SoyBase	E_val: 3.00E-154	ISS

Expression Patterns of Glyma20g28900

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

Glyma20g28900 not represented in the dataset	Glyma20g28900 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 Glyma20g28900

Paralog	Evidence	Comments
Glyma10g38880	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 Glyma20g28900 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.20g150700	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma20g28900

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

Transcripts of Glyma20g28900

Limit To All Plant Sequences

>Glyma20g28900.2   sequence type=transcript   gene model=Glyma20g28900   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
CCCAAAGGGTGCCGTTTTGTTGCGTTGCACTCGCGGAAGCGGAGAAAACCAAAGAATCAAGCTTCGTCAAAGTGTCTGTCACACACAGTCTTTAAGATCTGGAAGCGCTTCTCACTTGCCCACAATAAGAATTCCTCTCAAATTTCAATTTTTCATTTGAAAATAATAAAACCCTAAAAGAGGGGTTGCAAGCAAAATGAGAAGCTCGAAGATGTGGATGGTTTTCATGTGTCTGACGGTGAGCTTCTTCGCTCGCATTGAATCGCTATCCGTGACGGTGAACGACGTCGAGTGCGTCTACGAGTACGTACTTTACGAGGGCGACACCGTTTCGGGGAACTTTGTTGTCGTCGACCATGACATTTTCTGGAGCTCTGATCACCCCGGCATTGATTTCACGGTGACAACTGCTGCAGGGAATACTGTCCACAGTATCAAGGGAACCTCTGGTGACAAGTTCAGTTTTAAAGCCCCATCACATGGAATGTATAAATTTTGTTTTCATAACCCTTACTCAACACCTGAGACTGTTTCTTTCTACATTCATGTTGGTCACATCCCCTCTGAGCATGATCTTGCCAAAGATGGTAAGTTCTGTAGCATTTGGACCCAATTAATGTTAAGATCGCTGAGCTCAGAGAGGCACTAGAATCTGTTACAGCTGAACAGAAGTACTTGAAAGCCCGTGATGCAAGGCATCGTCATACTAATGAGAGCACACGGAAGCGTGTTGTATTCTACACTGTGGGAGAGTACCTTCTCTTGGCTGCTGTTAGTGCACTGCAAGTCATATACATTAGGCGCCTTTTCAGCAAGTCAGTGGCCTACAATCGTGTTTGAGTCGCCTTCATGATTAACGTTAATGGCTTCCTTCATTAGCAACAGGGTTAGGTTTACATATGCGTTCTCTATTCATTCAACAGTACGATTACGATCCCTTGGTGAACACTTTTTTTTTTTCTTTTCAACAGAGACTCCACTTGTATGTTGATACCCAACAAGATATTTAAATTCCTTAGCTTGAATTTCAATGGATTCACAGAAATCAAACCGTGTGGGAATCAATACCAAGTTTGTAAAATGGTAGTCTGAGTTCCTAAAATGGTTGAAAAACTGAAAGTAAAATTAGACTTTTTTGGTAACTCTAAGCCCATACTGCTTATTTTTTACCTGTTCTTTTAGGACTTGGCTCTTTATGTTGTTCACTTCTACTGGCAAAAGGTGAAACATCTCCACAAATTAAAAATTTGATGTTATATATGATTGTAATTTGTAATATGCTTTTAGTCCTTCTATTACAATGAAAGTGTGATCTTGGTCTTTG

>Glyma20g28900.4   sequence type=transcript   gene model=Glyma20g28900   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
TGAGTTTGAACGTCCCCGTTCTCTGATTGGGCGGTTGCACGTTGTAGGCTCTTTGTACGTTTTACACGTCAGCTCTTCAAAACGACGCCTCCATCAGATCTCTGCAGCCCCAAAGGGTGCCGTTTTGTTGCGTTGCACTCGCGGAAGCGGAGAAAACCAAAGAATCAAGCTTCGTCAAAGTGTCTGTCACACACAGTCTTTAAGATCTGGAAGCGCTTCTCACTTGCCCACAATAAGAATTCCTCTCAAATTTCAATTTTTCATTTGAAAATAATAAAACCCTAAAAGAGGGGTTGCAAGCAAAATGAGAAGCTCGAAGATGTGGATGGTTTTCATGTGTCTGACGGTGAGCTTCTTCGCTCGCATTGAATCGCTATCCGTGACGGTGAACGACGTCGAGTGCGTCTACGAGTACGTACTTTACGAGGGCGACACCGTTTCGGGGAACTTTGTTGTCGTCGACCATGACATTTTCTGGAGCTCTGATCACCCCGGCATTGATTTCACGGTGACAACTGCTGCAGGGAATACTGTCCACAGTATCAAGGGAACCTCTGGTGACAAGTTCAGTTTTAAAGCCCCATCACATGGAATGTATAAATTTTGTTTTCATAACCCTTACTCAACACCTGAGACTGTTTCTTTCTACATTCATGTTGGTCACATCCCCTCTGAGCATGATCTTGCCAAAGATGAGCATTTGGACCCAATTAATGTTAAGATCGCTGAGCTCAGAGAGGCACTAGAATCTGTTACAGCTGAACAGAAGTACTTGAAAGCCCGTGATGCAAGGCATCGTCATACTAATGAGAGCACACGGAAGCGTGTTGTATTCTACACTGTGGGAGAGTACCTTCTCTTGGCTGCTGTTAGTGCACTGCAAGTCATATACATTAGGCGCCTTTTCAGCAAGTCAGTGGCCTACAATCGTGTTTGAGTCGCCTTCATGATTAACGTTAATGGCTTCCTTCATTAGCAACAGGGTTAGGTTTACATATGCGTTCTCTATTCATTCAACAGTACGATTACGATCCCTTGGTGAACACTTTTTTTTTTTCTTTTCAACAGAGACTCCACTTGTATGTTGATACCCAACAAGATATTTAAATTCCTTAGCTTGAATTTCAATGGATTCACAGAAATCAAACCGTGTGGGAATCAATACCAAGTTTGTAAAATGGTAGTCTGAGTTCCTAAAATGGTTGAAAAACTGAAAGTAAAATTAGACTTTTTTGGTAACTCTAAGCCCATACTGCTTATTTTTTACCTGTTCTTTTAGGACTTGGCTCTTTATGTTGTTCACTTCTACTGGCAAAAGGTGAAACATCTCCACAAATTAAAAATTTGATGTTATATATGATTGTAATTTGTAATATGCTTTTAGTCCTTCTATTACAATGAAAGTGTGATCTTGGTCTTTGAATAATTTATTAAGCAAATTCAATCTTTCCATTTCAGTTCTTCCATTTCTTTTTTTCAACAT

Coding sequences of Glyma20g28900

Limit To All Plant Sequences

>Glyma20g28900.1   sequence type=CDS   gene model=Glyma20g28900   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGAGAAGCTCGAAGATGTGGATGGTTTTCATGTGTCTGACGGTGAGCTTCTTCGCTCGCATTGAATCGCTATCCGTGACGGTGAACGACGTCGAGTGCGTCTACGAGTACGTACTTTACGAGGGCGACACCGTTTCGGGGAACTTTGTTGTCGTCGACCATGACATTTTCTGGAGCTCTGATCACCCCGGCATTGATTTCACGGTGACAACTGCTGCAGGGAATACTGTCCACAGTATCAAGGGAACCTCTGGTGACAAGTTCAGTTTTAAAGCCCCATCACATGGAATGTATAAATTTTGTTTTCATAACCCTTACTCAACACCTGAGACTGTTTCTTTCTACATTCATGTTGGTCACATCCCCTCTGAGCATGATCTTGCCAAAGATGAGCATTTGGACCCAATTAATGTTAAGATCGCTGAGCTCAGAGAGGCACTAGAATCTGTTACAGCTGAACAGAAGTACTTGAAAGCCCGTGATGCAAGGCATCGTCATACTAATGAGAGCACACGGAAGCGTGTTGTATTCTACACTGTGGGAGAGTACCTTCTCTTGGCTGCTGTTAGTGCACTGCAAGTCATATACATTAGGCGCCTTTTCAGCAAGTCAGTGGCCTACAATCGTGTTTGA

>Glyma20g28900.2   sequence type=CDS   gene model=Glyma20g28900   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGAGAAGCTCGAAGATGTGGATGGTTTTCATGTGTCTGACGGTGAGCTTCTTCGCTCGCATTGAATCGCTATCCGTGACGGTGAACGACGTCGAGTGCGTCTACGAGTACGTACTTTACGAGGGCGACACCGTTTCGGGGAACTTTGTTGTCGTCGACCATGACATTTTCTGGAGCTCTGATCACCCCGGCATTGATTTCACGGTGACAACTGCTGCAGGGAATACTGTCCACAGTATCAAGGGAACCTCTGGTGACAAGTTCAGTTTTAAAGCCCCATCACATGGAATGTATAAATTTTGTTTTCATAACCCTTACTCAACACCTGAGACTGTTTCTTTCTACATTCATGTTGGTCACATCCCCTCTGAGCATGATCTTGCCAAAGATGGTAAGTTCTGTAGCATTTGGACCCAATTAATGTTAAGATCGCTGAGCTCAGAGAGGCACTAG

>Glyma20g28900.4   sequence type=CDS   gene model=Glyma20g28900   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGAGAAGCTCGAAGATGTGGATGGTTTTCATGTGTCTGACGGTGAGCTTCTTCGCTCGCATTGAATCGCTATCCGTGACGGTGAACGACGTCGAGTGCGTCTACGAGTACGTACTTTACGAGGGCGACACCGTTTCGGGGAACTTTGTTGTCGTCGACCATGACATTTTCTGGAGCTCTGATCACCCCGGCATTGATTTCACGGTGACAACTGCTGCAGGGAATACTGTCCACAGTATCAAGGGAACCTCTGGTGACAAGTTCAGTTTTAAAGCCCCATCACATGGAATGTATAAATTTTGTTTTCATAACCCTTACTCAACACCTGAGACTGTTTCTTTCTACATTCATGTTGGTCACATCCCCTCTGAGCATGATCTTGCCAAAGATGAGCATTTGGACCCAATTAATGTTAAGATCGCTGAGCTCAGAGAGGCACTAGAATCTGTTACAGCTGAACAGAAGTACTTGAAAGCCCGTGATGCAAGGCATCGTCATACTAATGAGAGCACACGGAAGCGTGTTGTATTCTACACTGTGGGAGAGTACCTTCTCTTGGCTGCTGTTAGTGCACTGCAAGTCATATACATTAGGCGCCTTTTCAGCAAGTCAGTGGCCTACAATCGTGTTTGA

Predicted protein sequences of Glyma20g28900

Limit To All Plant Sequences

>Glyma20g28900.1   sequence type=predicted peptide   gene model=Glyma20g28900   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MRSSKMWMVFMCLTVSFFARIESLSVTVNDVECVYEYVLYEGDTVSGNFVVVDHDIFWSSDHPGIDFTVTTAAGNTVHSIKGTSGDKFSFKAPSHGMYKFCFHNPYSTPETVSFYIHVGHIPSEHDLAKDEHLDPINVKIAELREALESVTAEQKYLKARDARHRHTNESTRKRVVFYTVGEYLLLAAVSALQVIYIRRLFSKSVAYNRV*

>Glyma20g28900.2   sequence type=predicted peptide   gene model=Glyma20g28900   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MRSSKMWMVFMCLTVSFFARIESLSVTVNDVECVYEYVLYEGDTVSGNFVVVDHDIFWSSDHPGIDFTVTTAAGNTVHSIKGTSGDKFSFKAPSHGMYKFCFHNPYSTPETVSFYIHVGHIPSEHDLAKDGKFCSIWTQLMLRSLSSERH*

>Glyma20g28900.4   sequence type=predicted peptide   gene model=Glyma20g28900   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MRSSKMWMVFMCLTVSFFARIESLSVTVNDVECVYEYVLYEGDTVSGNFVVVDHDIFWSSDHPGIDFTVTTAAGNTVHSIKGTSGDKFSFKAPSHGMYKFCFHNPYSTPETVSFYIHVGHIPSEHDLAKDEHLDPINVKIAELREALESVTAEQKYLKARDARHRHTNESTRKRVVFYTVGEYLLLAAVSALQVIYIRRLFSKSVAYNRV*

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