Glyma18g47960 - SoyBase

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

Report for Sequence Feature Glyma18g47960

Feature Type:	gene_model
Chromosome:	Gm18
Start:	57481364
stop:	57486120
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma18g47960

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT3G03330	AT	Annotation by Michelle Graham. TAIR10: NAD(P)-binding Rossmann-fold superfamily protein \| chr3:783572-786148 REVERSE LENGTH=328	SoyBase	E_val: 1.00E-164	ISS
GO:0006635	GO-bp	Annotation by Michelle Graham. GO Biological Process: fatty acid beta-oxidation	SoyBase	N/A	ISS
GO:0008152	GO-bp	Annotation by Michelle Graham. GO Biological Process: metabolic process	SoyBase	N/A	ISS
GO:0016558	GO-bp	Annotation by Michelle Graham. GO Biological Process: protein import into peroxisome matrix	SoyBase	N/A	ISS
GO:0005576	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: extracellular region	SoyBase	N/A	ISS
GO:0005783	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: endoplasmic reticulum	SoyBase	N/A	ISS
GO:0005886	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: plasma membrane	SoyBase	N/A	ISS
GO:0000166	GO-mf	Annotation by Michelle Graham. GO Molecular Function: nucleotide binding	SoyBase	N/A	ISS
GO:0016491	GO-mf	Annotation by Michelle Graham. GO Molecular Function: oxidoreductase activity	SoyBase	N/A	ISS
KOG1205	KOG	Predicted dehydrogenase	JGI		ISS
PTHR24322	Panther	FAMILY NOT NAMED	JGI		ISS
PTHR24322:SF44	Panther	SUBFAMILY NOT NAMED	JGI		ISS
PF00106	PFAM	short chain dehydrogenase	JGI		ISS
UniRef100_G7KSD6	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: Dehydrogenase/reductase SDR family member n=1 Tax=Medicago truncatula RepID=G7KSD6_MEDTR	SoyBase	E_val: 0	ISS
UniRef100_UPI0001AE6184	UniRef	Annotation by Michelle Graham. Best UniRef hit: UPI0001AE6184 related cluster n=1 Tax=unknown RepID=UPI0001AE6184	SoyBase	E_val: 0	ISS

Expression Patterns of Glyma18g47960

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 Glyma18g47960

Paralog	Evidence	Comments
Glyma09g38390	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 Glyma18g47960 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.18g244400	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma18g47960

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

Transcripts of Glyma18g47960

Limit To All Plant Sequences

>Glyma18g47960.2   sequence type=transcript   gene model=Glyma18g47960   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
GAAAAAAGTTTACTAATGTAGTTTGAAATAATCAGCTTTGTTGTAAGTAGCTTATAGGCTTTCCGTTCCGGTTCAAAAATCGCGAAGGCATTTGACGCCGCAGCAACGAAAACACGAAAATAACTGCACAGCATAAGCTTGTAGAATTGTACTGCATCGCAAAGCCCCATGTTGATCGTGTTCATTTGCATCTTCCTTTTCTTCATCTTTCTTTACAAGTTCCTCATCGCTTATGGCGATTTCACTTTGATGTCTAAGAAGCAACCTAAGCGCCAAGAGATTGAAGATAAGGTTGTTTGGATTACTGGTGCTAGCCGTGGAATTGGGGAGATTCTGGCTAAACAGTTTGCAAGTTTAGGGGCCAAGCTTATTATCTCTGCAAGGAATGAAGCTGAGCTAAACCGAGTAAGGACACAGCTGAAAGGTAAGCATGCACCTGATGACGTCAAGATCTTACCATTGGATTTATCATCTGGAGAGGATTCTCTTAGGATAGCTGTTGAGAAAGCAGAATCCTTTTTTCCGGATTCTGGTGTTGATTACATGGTCCATAATGCAGCTTTTGAGCGTCCTAAAACATCAATTTTAGATGTAACTGAGGAAGGTCTTAAGGCTACCTTTGATGTCAATGTTCTGGGGACAATAACTCTCACAAAGCTCTTGGCACCTTTCATGTTGAAGAGGGGGCATGGTCATTTTGTGGTGATGAGTAGTGCAGCAGGAAAGACACCTGCCCCAGGTCAGGCTGTATACTCTGCTTCTAAATATGCGCTCAATGGTTACTTCCATACCTTGCGTTCAGAGCTTTGTCAGAAAGGAATCCAGGTAACTGTGGTCTGTCCTGGTCCAATAGAAACATCAAATAATGCTGGATCAAGGGTTCCATCTGAGAAGCGTGTGCCATCTGAAAGGTGTGCAGAGCTGACTATTATTGCTGCAACTCATGGCTTAAAGGAAGCTTGGATATCATATCAGATAGGCTAATTGTCTTGCATGCATATTGTGCATTCTTTATGCCTGTGCTTGCTGTCATGTATCTCGTTCAGTACATGCCAACTATTGGTTATTGGGTCATGGACAAGATTGGCAAAAGTCGAGTAGAAGCTGCTGAACAGAAGGGAAACACATATTCTTTGAGCTTACTGCTCGGAAAAAAGAAGGCCACTTGATGCCCATCTGTTCATGTTCTCCAAAAATTTGTATCAAATATTTTTAGTCGGAGGTTCTCTATCAAATTGAATAACACCCTTTCTGACAATTGACAGAAAAGTTATATGGATTTCCTAATTGAACAATTAAGGTTTACAAATATCCAATGGGCGCTGCCATGTGACAAAAACTCCACATTACTAGTAAATACAGAACAATCAATCTGCTAATAAACTATTGTCTGTTAAAGGAAGTAGTGAAACCTACAGCATATGACTATAGGTCCGCCAGAGCAGGTGATACTCTCAATTTTCAAGTATG

Coding sequences of Glyma18g47960

Limit To All Plant Sequences

>Glyma18g47960.1   sequence type=CDS   gene model=Glyma18g47960   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGTTGATCGTGTTCATTTGCATCTTCCTTTTCTTCATCTTTCTTTACAAGTTCCTCATCGCTTATGGCGATTTCACTTTGATGTCTAAGAAGCAACCTAAGCGCCAAGAGATTGAAGATAAGGTTGTTTGGATTACTGGTGCTAGCCGTGGAATTGGGGAGATTCTGGCTAAACAGTTTGCAAGTTTAGGGGCCAAGCTTATTATCTCTGCAAGGAATGAAGCTGAGCTAAACCGAGTAAGGACACAGCTGAAAGGTAAGCATGCACCTGATGACGTCAAGATCTTACCATTGGATTTATCATCTGGAGAGGATTCTCTTAGGATAGCTGTTGAGAAAGCAGAATCCTTTTTTCCGGATTCTGGTGTTGATTACATGGTCCATAATGCAGCTTTTGAGCGTCCTAAAACATCAATTTTAGATGTAACTGAGGAAGGTCTTAAGGCTACCTTTGATGTCAATGTTCTGGGGACAATAACTCTCACAAAGCTCTTGGCACCTTTCATGTTGAAGAGGGGGCATGGTCATTTTGTGGTGATGAGTAGTGCAGCAGGAAAGACACCTGCCCCAGGTCAGGCTGTATACTCTGCTTCTAAATATGCGCTCAATGGTTACTTCCATACCTTGCGTTCAGAGCTTTGTCAGAAAGGAATCCAGGTAACTGTGGTCTGTCCTGGTCCAATAGAAACATCAAATAATGCTGGATCAAGGGTTCCATCTGAGAAGCGTGTGCCATCTGAAAGGTGTGCAGAGCTGACTATTATTGCTGCAACTCATGGCTTAAAGGAAGCTTGGATATCATATCAGCCTGTGCTTGCTGTCATGTATCTCGTTCAGTACATGCCAACTATTGGTTATTGGGTCATGGACAAGATTGGCAAAAGTCGAGTAGAAGCTGCTGAACAGAAGGGAAACACATATTCTTTGAGCTTACTGCTCGGAAAAAAGAAGGCCACTTGA

>Glyma18g47960.2   sequence type=CDS   gene model=Glyma18g47960   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGTTGATCGTGTTCATTTGCATCTTCCTTTTCTTCATCTTTCTTTACAAGTTCCTCATCGCTTATGGCGATTTCACTTTGATGTCTAAGAAGCAACCTAAGCGCCAAGAGATTGAAGATAAGGTTGTTTGGATTACTGGTGCTAGCCGTGGAATTGGGGAGATTCTGGCTAAACAGTTTGCAAGTTTAGGGGCCAAGCTTATTATCTCTGCAAGGAATGAAGCTGAGCTAAACCGAGTAAGGACACAGCTGAAAGGTAAGCATGCACCTGATGACGTCAAGATCTTACCATTGGATTTATCATCTGGAGAGGATTCTCTTAGGATAGCTGTTGAGAAAGCAGAATCCTTTTTTCCGGATTCTGGTGTTGATTACATGGTCCATAATGCAGCTTTTGAGCGTCCTAAAACATCAATTTTAGATGTAACTGAGGAAGGTCTTAAGGCTACCTTTGATGTCAATGTTCTGGGGACAATAACTCTCACAAAGCTCTTGGCACCTTTCATGTTGAAGAGGGGGCATGGTCATTTTGTGGTGATGAGTAGTGCAGCAGGAAAGACACCTGCCCCAGGTCAGGCTGTATACTCTGCTTCTAAATATGCGCTCAATGGTTACTTCCATACCTTGCGTTCAGAGCTTTGTCAGAAAGGAATCCAGGTAACTGTGGTCTGTCCTGGTCCAATAGAAACATCAAATAATGCTGGATCAAGGGTTCCATCTGAGAAGCGTGTGCCATCTGAAAGGTGTGCAGAGCTGACTATTATTGCTGCAACTCATGGCTTAAAGGAAGCTTGGATATCATATCAGATAGGCTAA

Predicted protein sequences of Glyma18g47960

Limit To All Plant Sequences

>Glyma18g47960.1   sequence type=predicted peptide   gene model=Glyma18g47960   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MLIVFICIFLFFIFLYKFLIAYGDFTLMSKKQPKRQEIEDKVVWITGASRGIGEILAKQFASLGAKLIISARNEAELNRVRTQLKGKHAPDDVKILPLDLSSGEDSLRIAVEKAESFFPDSGVDYMVHNAAFERPKTSILDVTEEGLKATFDVNVLGTITLTKLLAPFMLKRGHGHFVVMSSAAGKTPAPGQAVYSASKYALNGYFHTLRSELCQKGIQVTVVCPGPIETSNNAGSRVPSEKRVPSERCAELTIIAATHGLKEAWISYQPVLAVMYLVQYMPTIGYWVMDKIGKSRVEAAEQKGNTYSLSLLLGKKKAT*

>Glyma18g47960.2   sequence type=predicted peptide   gene model=Glyma18g47960   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MLIVFICIFLFFIFLYKFLIAYGDFTLMSKKQPKRQEIEDKVVWITGASRGIGEILAKQFASLGAKLIISARNEAELNRVRTQLKGKHAPDDVKILPLDLSSGEDSLRIAVEKAESFFPDSGVDYMVHNAAFERPKTSILDVTEEGLKATFDVNVLGTITLTKLLAPFMLKRGHGHFVVMSSAAGKTPAPGQAVYSASKYALNGYFHTLRSELCQKGIQVTVVCPGPIETSNNAGSRVPSEKRVPSERCAELTIIAATHGLKEAWISYQIG*

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