Glyma19g42090 - 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/Glyma19g42090): 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/Glyma19g42090): 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 Glyma19g42090

Feature Type:	gene_model
Chromosome:	Gm19
Start:	48163836
stop:	48165327
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma19g42090

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT3G05560	AT	Annotation by Michelle Graham. TAIR10: Ribosomal L22e protein family \| chr3:1614641-1615204 FORWARD LENGTH=124	SoyBase	E_val: 7.00E-65	ISS
GO:0001510	GO-bp	Annotation by Michelle Graham. GO Biological Process: RNA methylation	SoyBase	N/A	ISS
GO:0006412	GO-bp	Annotation by Michelle Graham. GO Biological Process: translation	SoyBase	N/A	ISS
GO:0005622	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: intracellular	SoyBase	N/A	ISS
GO:0005730	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: nucleolus	SoyBase	N/A	ISS
GO:0005737	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: cytoplasm	SoyBase	N/A	ISS
GO:0005829	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: cytosol	SoyBase	N/A	ISS
GO:0005840	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: ribosome	SoyBase	N/A	ISS
GO:0005886	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: plasma membrane	SoyBase	N/A	ISS
GO:0009506	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: plasmodesma	SoyBase	N/A	ISS
GO:0022625	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: cytosolic large ribosomal subunit	SoyBase	N/A	ISS
GO:0022626	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: cytosolic ribosome	SoyBase	N/A	ISS
GO:0003735	GO-mf	Annotation by Michelle Graham. GO Molecular Function: structural constituent of ribosome	SoyBase	N/A	ISS
KOG3434	KOG	60S ribosomal protein L22	JGI		ISS
PTHR10064	Panther	60S RIBOSOMAL PROTEIN L22	JGI		ISS
PF01776	PFAM	Ribosomal L22e protein family	JGI		ISS
UniRef100_B9RFC4	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: 60S ribosomal protein L22, putative n=1 Tax=Ricinus communis RepID=B9RFC4_RICCO	SoyBase	E_val: 1.00E-66	ISS
UniRef100_I1NBW8	UniRef	Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=I1NBW8_SOYBN	SoyBase	E_val: 2.00E-84	ISS

Expression Patterns of Glyma19g42090

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

Glyma19g42090 not represented in the dataset	Glyma19g42090 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 Glyma19g42090

Paralog	Evidence	Comments
Glyma03g39480	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 Glyma19g42090 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.19g232700	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma19g42090

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

Transcripts of Glyma19g42090

Limit To All Plant Sequences

>Glyma19g42090.3   sequence type=transcript   gene model=Glyma19g42090   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
TTTTAATTTCTGATTTTTAATATTCACACCGAGGACTACAAAACGGAGCGTTTCATGTTATAAGAAAACCTGAGCATGCTTACGGTTCTGGAATCCATCGTATAAAAGCTCAAATCCAAACCCTAAAATACCACCGCCGTTCTCATCTCTCTTCCCAGCCCTCACCTCAACGCTGCATCTTCACGTCGTCTCACGAGGTGCATATAGTAGAGAGGGAAAATGAGTCGAGGAGGCGCAGTAGCAGCAGCGAAGGGAAAGAAGAAGGGTGCTACATTCACCATTGACTGTGCAAAGCCAGTGGAAGATAAGATCATGGACATTGCTTCTCTCGAAAAGTTTCTTCAAGAGAGGATCAAGGTTGGTGGCAAAGCTGGTGCTCTTGGTGACAGTATCACTGTTACCCGCGAGAAGACCAAGATCATTGTCACCTCTGACAGTAACTTTTCCAAACGGTATTTGAAGTACTTGACGAAGAAGTACTTGAAGAAACACAATGTGCGAGACTGGCTCAGAGTGATTGCTTCAAACAAGGATAGAAGTGTTTACGAACTGAGGTACTTCAACATTGCCGAGAATGAGGGAGAGGAAGAAGATTAGTTGTCTGATAATCTTATTTGCTTGTGTTTTGTTTACCCTTTTCCTATACCTAGCTTTCTTTTTGGCAAATATTGCTTGAGATACGATGCTTTGTTTTTATCAGTTGCAATTTAACGGTTTTGATCATTTAAGAATTGCGGTACTATCGGTGTTGAATTGGGAACAGAGTTTACATATTATTCATTGCTGTTTCAGTCTTTAAAATTGTATTATGTTTCTTTCAACAATCTCGAATAATTTACCTTTGCCTACCTCCTTCCGTTCCCTATTTTTCATTCCTAAATTGTATGCTCTT

>Glyma19g42090.4   sequence type=transcript   gene model=Glyma19g42090   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
CTCTCTTCCCAGCCCTCACCTCAACGCTGCATCTTCACGTCGTCTCACGGTTTCAGTACTTATTCACTCGATCCCCTTTAAAGTTCAATTAACGTCGTGTTAAATCGCATAAGCATCTTGGTGTTGATGCAGAGGTGCATATAGTAGAGAGGGAAAATGAGTCGAGGAGGCGCAGTAGCAGCAGCGAAGGGAAAGAAGAAGGGTGCTACATTCACCATTGACTGTGCAAAGCCAGTGGAAGATAAGATCATGGACATTGCTTCTCTCGAAAAGTTTCTTCAAGAGAGGATCAAGGTTGGTGGCAAAGCTGGTGCTCTTGGTGACAGTATCACTGTTACCCGCGAGAAGACCAAGATCATTGTCACCTCTGACAGTAACTTTTCCAAACGGTATTTGAAGTACTTGACGAAGAAGTACTTGAAGAAACACAATGTGCGAGACTGGCTCAGAGTGATTGCTTCAAACAAGGATAGAAGTGTTTACGAACTGAGGTACTTCAACATTGCCGAGAATGAGGGAGAGGAAGAAGATTAGTTGTCTGATAATCTTATTTGCTTGTGTTTTGTTTACCCTTTTCCTATACCTAGCTTTCTTTTTGGCAAATATTGCTTGAGATACGATGCTTTGTTTTTATCAGTTGCAATTTAACGGTTTTGATCATTTAAGAATTGCGGTACTATCGGTGTTGAATTGGGAACAGAGTTTACATATTATTCATTGCTGTTTCAGTCTTTAAAATTGTATTATGTTTCTTTCAACAATCTCGAATAATTTACCTTTGCCTACCTCC

Coding sequences of Glyma19g42090

Limit To All Plant Sequences

>Glyma19g42090.2   sequence type=CDS   gene model=Glyma19g42090   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGAGTCGAGGAGGCGCAGTAGCAGCAGCGAAGGGAAAGAAGAAGGGTGCTACATTCACCATTGACTGTGCAAAGCCAGTGGAAGATAAGATCATGGACATTGCTTCTCTCGAAAAGTTTCTTCAAGAGAGGATCAAGGTTGGTGGCAAAGCTGGTGCTCTTGGTGACAGTATCACTGTTACCCGCGAGAAGACCAAGATCATTGTCACCTCTGACAGTAACTTTTCCAAACGGTATTTGAAGTACTTGACGAAGAAGTACTTGAAGAAACACAATGTGCGAGACTGGCTCAGAGTGATTGCTTCAAACAAGGATAGAAGTGTTTACGAACTGAGGTACTTCAACATTGCCGAGAATGAGGGAGAGGAAGAAGATTAG

>Glyma19g42090.3   sequence type=CDS   gene model=Glyma19g42090   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGAGTCGAGGAGGCGCAGTAGCAGCAGCGAAGGGAAAGAAGAAGGGTGCTACATTCACCATTGACTGTGCAAAGCCAGTGGAAGATAAGATCATGGACATTGCTTCTCTCGAAAAGTTTCTTCAAGAGAGGATCAAGGTTGGTGGCAAAGCTGGTGCTCTTGGTGACAGTATCACTGTTACCCGCGAGAAGACCAAGATCATTGTCACCTCTGACAGTAACTTTTCCAAACGGTATTTGAAGTACTTGACGAAGAAGTACTTGAAGAAACACAATGTGCGAGACTGGCTCAGAGTGATTGCTTCAAACAAGGATAGAAGTGTTTACGAACTGAGGTACTTCAACATTGCCGAGAATGAGGGAGAGGAAGAAGATTAG

>Glyma19g42090.4   sequence type=CDS   gene model=Glyma19g42090   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGAGTCGAGGAGGCGCAGTAGCAGCAGCGAAGGGAAAGAAGAAGGGTGCTACATTCACCATTGACTGTGCAAAGCCAGTGGAAGATAAGATCATGGACATTGCTTCTCTCGAAAAGTTTCTTCAAGAGAGGATCAAGGTTGGTGGCAAAGCTGGTGCTCTTGGTGACAGTATCACTGTTACCCGCGAGAAGACCAAGATCATTGTCACCTCTGACAGTAACTTTTCCAAACGGTATTTGAAGTACTTGACGAAGAAGTACTTGAAGAAACACAATGTGCGAGACTGGCTCAGAGTGATTGCTTCAAACAAGGATAGAAGTGTTTACGAACTGAGGTACTTCAACATTGCCGAGAATGAGGGAGAGGAAGAAGATTAG

Predicted protein sequences of Glyma19g42090

Limit To All Plant Sequences

>Glyma19g42090.2   sequence type=predicted peptide   gene model=Glyma19g42090   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MSRGGAVAAAKGKKKGATFTIDCAKPVEDKIMDIASLEKFLQERIKVGGKAGALGDSITVTREKTKIIVTSDSNFSKRYLKYLTKKYLKKHNVRDWLRVIASNKDRSVYELRYFNIAENEGEEED*

>Glyma19g42090.3   sequence type=predicted peptide   gene model=Glyma19g42090   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MSRGGAVAAAKGKKKGATFTIDCAKPVEDKIMDIASLEKFLQERIKVGGKAGALGDSITVTREKTKIIVTSDSNFSKRYLKYLTKKYLKKHNVRDWLRVIASNKDRSVYELRYFNIAENEGEEED*

>Glyma19g42090.4   sequence type=predicted peptide   gene model=Glyma19g42090   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MSRGGAVAAAKGKKKGATFTIDCAKPVEDKIMDIASLEKFLQERIKVGGKAGALGDSITVTREKTKIIVTSDSNFSKRYLKYLTKKYLKKHNVRDWLRVIASNKDRSVYELRYFNIAENEGEEED*

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