Glyma16g04940 - SoyBase

SoyBase SoyBase transitions to NEW site on 10/1/2024
Integrating Genetics and Genomics to Advance Soybean Research

Report for Sequence Feature Glyma16g04940

Feature Type:	gene_model
Chromosome:	Gm16
Start:	4238983
stop:	4242140
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma16g04940

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT3G26650	AT	Annotation by Michelle Graham. TAIR10: glyceraldehyde 3-phosphate dehydrogenase A subunit \| chr3:9795226-9796848 FORWARD LENGTH=396	SoyBase	E_val: 0	ISS
GO:0006006	GO-bp	Annotation by Michelle Graham. GO Biological Process: glucose metabolic process	SoyBase	N/A	ISS
GO:0006096	GO-bp	Annotation by Michelle Graham. GO Biological Process: glycolysis	SoyBase	N/A	ISS
GO:0006364	GO-bp	Annotation by Michelle Graham. GO Biological Process: rRNA processing	SoyBase	N/A	ISS
GO:0009409	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to cold	SoyBase	N/A	ISS
GO:0009416	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to light stimulus	SoyBase	N/A	ISS
GO:0009637	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to blue light	SoyBase	N/A	ISS
GO:0009644	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to high light intensity	SoyBase	N/A	ISS
GO:0009657	GO-bp	Annotation by Michelle Graham. GO Biological Process: plastid organization	SoyBase	N/A	ISS
GO:0009744	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to sucrose stimulus	SoyBase	N/A	ISS
GO:0009749	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to glucose stimulus	SoyBase	N/A	ISS
GO:0010114	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to red light	SoyBase	N/A	ISS
GO:0010155	GO-bp	Annotation by Michelle Graham. GO Biological Process: regulation of proton transport	SoyBase	N/A	ISS
GO:0010207	GO-bp	Annotation by Michelle Graham. GO Biological Process: photosystem II assembly	SoyBase	N/A	ISS
GO:0010218	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to far red light	SoyBase	N/A	ISS
GO:0018119	GO-bp	Annotation by Michelle Graham. GO Biological Process: peptidyl-cysteine S-nitrosylation	SoyBase	N/A	ISS
GO:0019253	GO-bp	Annotation by Michelle Graham. GO Biological Process: reductive pentose-phosphate cycle	SoyBase	N/A	ISS
GO:0042742	GO-bp	Annotation by Michelle Graham. GO Biological Process: defense response to bacterium	SoyBase	N/A	ISS
GO:0055114	GO-bp	Annotation by Michelle Graham. GO Biological Process: oxidation-reduction process	SoyBase	N/A	ISS
GO:0009507	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: chloroplast	SoyBase	N/A	ISS
GO:0009535	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: chloroplast thylakoid membrane	SoyBase	N/A	ISS
GO:0009570	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: chloroplast stroma	SoyBase	N/A	ISS
GO:0009941	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: chloroplast envelope	SoyBase	N/A	ISS
GO:0010319	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: stromule	SoyBase	N/A	ISS
GO:0016020	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: membrane	SoyBase	N/A	ISS
GO:0048046	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: apoplast	SoyBase	N/A	ISS
GO:0000166	GO-mf	Annotation by Michelle Graham. GO Molecular Function: nucleotide binding	SoyBase	N/A	ISS
GO:0005515	GO-mf	Annotation by Michelle Graham. GO Molecular Function: protein binding	SoyBase	N/A	ISS
GO:0016620	GO-mf	Annotation by Michelle Graham. GO Molecular Function: oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor	SoyBase	N/A	ISS
GO:0050661	GO-mf	Annotation by Michelle Graham. GO Molecular Function: NADP binding	SoyBase	N/A	ISS
GO:0051287	GO-mf	Annotation by Michelle Graham. GO Molecular Function: NAD binding	SoyBase	N/A	ISS
KOG0657	KOG	Glyceraldehyde 3-phosphate dehydrogenase	JGI		ISS
PTHR10836	Panther	GLYCERALDEHYDE 3-PHOSPHATE DEHYDROGENASE	JGI		ISS
PF00044	PFAM	Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain	JGI		ISS
PF02800	PFAM	Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain	JGI		ISS
UniRef100_I1ML66	UniRef	Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=I1ML66_SOYBN	SoyBase	E_val: 0	ISS
UniRef100_Q38IX1	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: Glyceraldehyde-3-phosphate dehydrogenase A subunit n=1 Tax=Glycine max RepID=Q38IX1_SOYBN	SoyBase	E_val: 0	ISS

Expression Patterns of Glyma16g04940

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


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 Glyma16g04940

Paralog	Evidence	Comments
Glyma19g28240	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 Glyma16g04940 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.16g044900	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma16g04940

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

Coding sequences of Glyma16g04940

Limit To All Plant Sequences

>Glyma16g04940.1   sequence type=CDS   gene model=Glyma16g04940   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGCTTCGGCTACTCTCTCTGTAGCCAAACCAGCCCTTCAGGCAAATGGGAAAGGCTTCTCTGAATTCTCTGGCCTCCGCAGCTCATCAGGCTTCCTTCCCTTTTCTAGAAAATCTTCAGAGGATTTCCATTCTGTCATTGCCTTCCAGACCTATGCAGTTGGAAGCAGTGGAGGATACAAGAAGGGTGTGACAGAAGCAAAACTGAAGGTTGCCATAAACGGATTTGGAAGGATTGGAAGGAACTTCTTGAGGTGCTGGCACGGTCGCAAAGACTCCCCTCTTGATGTCATTGCCATCAACGACACCGGTGGCGTGAAACAAGCCTCTCACCTTCTCAAGTACGATTCGATCCTCGGAACCTTCGATGCTGATGTCAAGCCTGTTGGCAGCGACATCATCTCTGTCGATGGAAAGGAAATCAAAGTTGTCTCTGACCGCAACCCTGCCAACCTTCCTTGGAAGGATTTGGGGATAGACTTGGTGATTGAAGGAACTGGGGTGTTTGTAGACAGAGAAGGTGCAGGGAAACACATTCAAGCAGGAGCTAAGAAGGTGCTCATTACTGCTCCTGGTAAAGGAGACATCCCCACATATGTGGTTGGTGTCAATGAGTATGATTACAGCCCTGATGAACCCATCATCAGCAATGCATCTTGCACCACTAACTGCCTTGCACCCTTTGTCAAGGTCCTTGATCAGAAATTCGGTATCATCAAGGGCACCATGACCACCACTCACTCCTACACCGGCGACCAAAGGCTTCTCGACGCGAGCCACCGTGACCTGAGGCGCGCCAGGGCGGCAGCTCTCAACATTGTCCCCACTTCAACAGGAGCAGCAAAGGCAGTGGCCCTTGTCCTCCCAACCCTCAAGGGCAAACTCAATGGCATTGCACTCCGTGTGCCAACACCAAACGTCTCAGTGGTGGACCTCGTTGTTCAGGTCTCAAAGAAGACCTTTGCAGAAGAAGTGAATGCAGCATTCAGAGAGAGTGCAGACAATGAGCTCCAGGGAATCCTCTCTGTGTGTGATGAGCCACTTGTGTCTGTTGACTTCAGGTGCACTGATGTGTCCTCAACCGTTGACTCATCGTTGACCATGGTCATGGGAGATGACATGGTTAAGGTGATTGCTTGGTATGACAATGAGTGGGGCTACTCCCAAAGGGTTGTGGATTTGGCTGACATTGTTGCCAACAAGTGGAAGTGA

Predicted protein sequences of Glyma16g04940

Limit To All Plant Sequences

>Glyma16g04940.1   sequence type=predicted peptide   gene model=Glyma16g04940   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MASATLSVAKPALQANGKGFSEFSGLRSSSGFLPFSRKSSEDFHSVIAFQTYAVGSSGGYKKGVTEAKLKVAINGFGRIGRNFLRCWHGRKDSPLDVIAINDTGGVKQASHLLKYDSILGTFDADVKPVGSDIISVDGKEIKVVSDRNPANLPWKDLGIDLVIEGTGVFVDREGAGKHIQAGAKKVLITAPGKGDIPTYVVGVNEYDYSPDEPIISNASCTTNCLAPFVKVLDQKFGIIKGTMTTTHSYTGDQRLLDASHRDLRRARAAALNIVPTSTGAAKAVALVLPTLKGKLNGIALRVPTPNVSVVDLVVQVSKKTFAEEVNAAFRESADNELQGILSVCDEPLVSVDFRCTDVSSTVDSSLTMVMGDDMVKVIAWYDNEWGYSQRVVDLADIVANKWK*

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