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/Glyma01g40930): 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/Glyma01g40930): 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 Glyma01g40930

Feature Type:gene_model
Chromosome:Gm01
Start:52587536
stop:52590299
Source:JGI
Version:Wm82.a1.v1.1
High confidence:yes



A newer version of this gene model can be found here:

Annotations for Glyma01g40930
Database IDAnnotation TypeAnnotation DescriptionAnnotation SourceMatch ScoreEvidence Code
AT1G32410AT Annotation by Michelle Graham. TAIR10: Vacuolar protein sorting 55 (VPS55) family protein | chr1:11694398-11695297 FORWARD LENGTH=140 SoyBaseE_val: 6.00E-63ISS
GO:0006810GO-bp Annotation by Michelle Graham. GO Biological Process: transport SoyBaseN/AISS
GO:0005773GO-cc Annotation by Michelle Graham. GO Cellular Compartment: vacuole SoyBaseN/AISS
GO:0005215GO-mf Annotation by Michelle Graham. GO Molecular Function: transporter activity SoyBaseN/AISS
KOG2174 KOG Leptin receptor gene-related protein JGI ISS
PTHR12050Panther LEPTIN RECEPTOR-RELATED JGI ISS
PF04133PFAM Vacuolar protein sorting 55 JGI ISS
UniRef100_C6SZK6UniRef Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=C6SZK6_SOYBN SoyBaseE_val: 5.00E-92ISS
UniRef100_G7JZT8UniRef Annotation by Michelle Graham. Most informative UniRef hit: Vacuolar protein sorting-associated protein-like protein n=1 Tax=Medicago truncatula RepID=G7JZT8_MEDTR SoyBaseE_val: 4.00E-72ISS

Expression Patterns of Glyma01g40930
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

Glyma01g40930 not represented in the dataset
Glyma01g40930 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 Glyma01g40930
ParalogEvidenceComments
Glyma11g04420 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 Glyma01g40930 Gene Call Version Wm82.a1.v1.1
Corresponding NameAnnotation VersionEvidenceComments
Glyma.01g201100 Wm82.a2.v1IGC As supplied by JGI

References for Glyma01g40930
Schmutz et al. 2010
  Genome sequence of the palaeopolyploid soybean
  Nature 2010, 463:178-183

Coding sequences of Glyma01g40930
>Glyma01g40930.1   sequence type=CDS   gene model=Glyma01g40930   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGCAGACTTACCAGGGTATCTTCGTGCCTGTTTGAACACAGGGAAGCTTGCCTCCTTGGCAATTTTGGTGTCTGGAGGAATTGTCTTGCAAATTTTGGCATGTGCCTTGTATAATAACTGGTGGCCGATGCTGAGTGTGTTAACGTATGTGCTTCTGCCAATGCCTTTGCTGTTCTTTGCGGGGTCTGATGATTCTATATTTTCTGAATCTGATAATAGCTGGGTGAATTTTACTAAGTTCTTGACTGGAGCCTCAACTGTGGGAGGTATTGCCATTCCAAGCATATTAAAGCATGCTGGGGTTATCGGTTGGGGAGCCTTTGCAATGGAACTCTCTTCCTACTTTGTGTTTGGAATGGCCATAATATGTTACCTTTGGATGAGTGGTGATGATGATTACAGTATCCTATGA
Predicted protein sequences of Glyma01g40930
>Glyma01g40930.1   sequence type=predicted peptide   gene model=Glyma01g40930   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MADLPGYLRACLNTGKLASLAILVSGGIVLQILACALYNNWWPMLSVLTYVLLPMPLLFFAGSDDSIFSESDNSWVNFTKFLTGASTVGGIAIPSILKHAGVIGWGAFAMELSSYFVFGMAIICYLWMSGDDDYSIL*






Funded by the USDA-ARS. Developed by the USDA-ARS SoyBase and Legume Clade Database group at the Iowa State University, Ames, IA
 
USDA Logo
Iowa State University Logo