Glyma03g39890 - SoyBase

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

Report for Sequence Feature Glyma03g39890

Feature Type:	gene_model
Chromosome:	Gm03
Start:	45810466
stop:	45813584
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma03g39890

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT5G27450	AT	Annotation by Michelle Graham. TAIR10: mevalonate kinase \| chr5:9691051-9692975 FORWARD LENGTH=378	SoyBase	E_val: 0	ISS
GO:0000280	GO-bp	Annotation by Michelle Graham. GO Biological Process: nuclear division	SoyBase	N/A	ISS
GO:0006012	GO-bp	Annotation by Michelle Graham. GO Biological Process: galactose metabolic process	SoyBase	N/A	ISS
GO:0007000	GO-bp	Annotation by Michelle Graham. GO Biological Process: nucleolus organization	SoyBase	N/A	ISS
GO:0008152	GO-bp	Annotation by Michelle Graham. GO Biological Process: metabolic process	SoyBase	N/A	ISS
GO:0008299	GO-bp	Annotation by Michelle Graham. GO Biological Process: isoprenoid biosynthetic process	SoyBase	N/A	ISS
GO:0046835	GO-bp	Annotation by Michelle Graham. GO Biological Process: carbohydrate phosphorylation	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:0004335	GO-mf	Annotation by Michelle Graham. GO Molecular Function: galactokinase activity	SoyBase	N/A	ISS
GO:0004496	GO-mf	Annotation by Michelle Graham. GO Molecular Function: mevalonate kinase activity	SoyBase	N/A	ISS
GO:0005524	GO-mf	Annotation by Michelle Graham. GO Molecular Function: ATP binding	SoyBase	N/A	ISS
GO:0016301	GO-mf	Annotation by Michelle Graham. GO Molecular Function: kinase activity	SoyBase	N/A	ISS
GO:0016773	GO-mf	Annotation by Michelle Graham. GO Molecular Function: phosphotransferase activity, alcohol group as acceptor	SoyBase	N/A	ISS
KOG1511	KOG	Mevalonate kinase MVK/ERG12	JGI		ISS
PTHR10457	Panther	MEVALONATE KINASE/GALACTOKINASE	JGI		ISS
PTHR10457:SF4	Panther	MEVALONATE KINASE	JGI		ISS
PF00288	PFAM	GHMP kinases N terminal domain	JGI		ISS
PF08544	PFAM	GHMP kinases C terminal	JGI		ISS
UniRef100_I1JRE0	UniRef	Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=I1JRE0_SOYBN	SoyBase	E_val: 0	ISS
UniRef100_Q2HTL9	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: Mevalonate and galactokinase n=1 Tax=Medicago truncatula RepID=Q2HTL9_MEDTR	SoyBase	E_val: 0	ISS

Expression Patterns of Glyma03g39890

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 Glyma03g39890

Paralog	Evidence	Comments
Glyma19g42440	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 Glyma03g39890 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.03g239000	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma03g39890

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

Transcripts of Glyma03g39890

Limit To All Plant Sequences

>Glyma03g39890.2   sequence type=transcript   gene model=Glyma03g39890   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
GGCCGAATGCTGAAAAACGTACAAAAGGTTAGTTGTTAATTAAATGGCGCACGCATTCCACATGGATCTCCTCCACGCTGGACTTTTGGACACAAATACAAGATTTGAATGCAGCAACGGGGAAAGCCTATGAATTAAGATTCAGAGATCATAAGAGTAATAGAAATTAGAATGGAGGTTAAATCCAGAGCTCCCGGGAAAATTATCCTAACCGGCGAACATGCTGTGGTTCATGGATCCACCGCTGTTGCTTCTTCTATTGACTTGTATACCTACGTTTCTCTCCACTTCTCCACTCCTTCCGACAACGAGGATTCGTTGAAACTGAAGCTGCAGGAGACGGCGTTGGAGTTCTCGTGGCCAATCACGAGAATAAGAGCAGCGTTTCCTGAATCCACGGCTCAGCTATCTTCCACGCCGAACTCATGCTCTGTGGAGAATGCCAAGGCAATTGCCGCACTCGTTGAAGAGCTTAACATTCCAGAGGCCAAACTCGGACTCGCCTCTGGAGTTTCCGCCTTTCTCTGGTTATACTCTTCCATTCAAGGATTTAAGCCTGCTACTGTTGTTGTCACTTCTGAACTTCCTCTGGGCTCAGGATTGGGTTCATCCGCCTCGTTTTGTGTTGCGCTGGCGGCCGCCTTGTTGGCTTATACTGATTCTGTCTCTCTGGATTTGAAACATCAAGGATGGCTCTCCTTTGGGGAGAAGGATCTTGAGTTGGTAAATAAATGGGCTTTTGAAGGGGAGAAGATCATTCATGGAAAGCCCTCTGGAATTGACAACACAGTAAGCGCATATGGTAACATTATCAGCTTCAAGTCGGGTAACTTGACACATATGAAGTCAAGTGTGCCGCTTAAAATGCTCATTACTAACACCAAAGTAGGGAGGAACACAAAAGCATTGGTGGCTGGTGTTGGAGAGAGGATGCTAAGGCATCCAGATATAATGGCTTTTGTGTTTAGTGCTGTTGATTCTATTAGCAATGAATTGACTTCCATTCTCAAGTCACCTACACCAGATGAGCTCTCGGTAACTGAGAAAGAAGAGAAGATAGAAGAACTAATGGAAATGAATCAAGGCACCGTTGTTGACAAAGTAGTTGCTGAACTGGAGTCATGCGGGTTCCAATGTTTCATTGCTGGAATTGGCGGGGGAGGTGTTGAAATTAGCTTTGGGGTGTCATCTTGATTTTCTGTTATTATTTTTCCAAGGACTGACATCAATGATCACAGCATCGGATCCTCAAATAATCAGCATAAAAATATATGCTACCCTTTTTACAGCTTGTGCATCAATCTGTTACTTTTTCTTTTCTACTTTTGAATCAATTTAAGCATTTTCTTATTCAATCCTGAACGGAAAATGGAGAATATAAACTCATATTTGGTTAATAAGTACCATTCGAGTTTGATCCTTGACGAAAATAATTATTAGTCAAATTTTATTTATCTTCTGGT

>Glyma03g39890.3   sequence type=transcript   gene model=Glyma03g39890   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
GGCCGAATGCTGAAAAACGTACAAAAGGTTAGTTGTTAATTAAATGGCGCACGCATTCCACATGGATCTCCTCCACGCTGGACTTTTGGACACAAATACAAGATTTGAATGCAGCAACGGGGAAAGCCTATGAATTAAGATTCAGAGATCATAAGAGTAATAGAAATTAGAATGGAGGTTAAATCCAGAGCTCCCGGGAAAATTATCCTAACCGGCGAACATGCTGTGGTTCATGGATCCACCGCTGTTGCTTCTTCTATTGACTTGTATACCTACGTTTCTCTCCACTTCTCCACTCCTTCCGACAACGAGGATTCGTTGAAACTGAAGCTGCAGGAGACGGCGTTGGAGTTCTCGTGGCCAATCACGAGAATAAGAGCAGCGTTTCCTGAATCCACGGCTCAGCTATCTTCCACGCCGAACTCATGCTCTGTGGAGAATGCCAAGGCAATTGCCGCACTCGTTGAAGAGCTTAACATTCCAGAGGCCAAACTCGGACTCGCCTCTGGAGTTTCCGCCTTTCTCTGGTTATACTCTTCCATTCAAGGATTTAAGCCTGCTACTGTTGTTGTCACTTCTGAACTTCCTCTGGGCTCAGGATTGGGTTCATCCGCCTCGTTTTGTGTTGCGCTGGCGGCCGCCTTGTTGGCTTATACTGATTCTGTCTCTCTGGATTTGAAACATCAAGGATGGCTCTCCTTTGGGGAGAAGGATCTTGAGTTGGTAAATAAATGGGCTTTTGAAGGGGAGAAGATCATTCATGGAAAGCCCTCTGGAATTGACAACACAGTAAGCGCATATGGTAACATTATCAGCTTCAAGTCGGGTAACTTGACACATATGAAGTCAAGTGTGCCGCTTAAAATGCTCATTACTAACACCAAAGTAGGGAGGAACACAAAAGCATTGGTGGCTGGTGTTGGAGAGAGGATGCTAAGGCATCCAGATATAATGGCTTTTGTGTTTAGTGCTGTTGATTCTATTAGCAATGAATTGACTTCCATTCTCAAGTCACCTACACCAGATGAGCTCTCGGTAACTGAGAAAGAAGAGAAGATAGAAGAACTAATGGAAATGAATCAAGTGCTATCAGGCACCGTTGTTGACAAAGTAGTTGCTGAACTGGAGTCATGCGGGTTCCAATGTTTCATTGCTGGAATTGGCGGGGGAGGTGTTGAAATTAGCTTTGGGGTGTCATCTTGATTTTCTGTTATTATTTTTCCAAGGACTGACATCAATGATCACAGCATCGGATCCTCAAATAATCAGCATAAAAATATATGCTACCCTTTTTACAGCTTGTGCATCAATCTGTTACTTTTTCTTTTCTACTTTTGAATCAATTTAAGCATTTTCTTATTCAATCCTGAACGGAAAATGGAGAATATAAACTCATATTTGGTTAATAAGTACCATTCGAGTTTGATCCTTGACGAAAATAATTATTAGTCAAATTTTATTTATCTTCTGGT

Coding sequences of Glyma03g39890

Limit To All Plant Sequences

>Glyma03g39890.1   sequence type=CDS   gene model=Glyma03g39890   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGAGGTTAAATCCAGAGCTCCCGGGAAAATTATCCTAACCGGCGAACATGCTGTGGTTCATGGATCCACCGCTGTTGCTTCTTCTATTGACTTGTATACCTACGTTTCTCTCCACTTCTCCACTCCTTCCGACAACGAGGATTCGTTGAAACTGAAGCTGCAGGAGACGGCGTTGGAGTTCTCGTGGCCAATCACGAGAATAAGAGCAGCGTTTCCTGAATCCACGGCTCAGCTATCTTCCACGCCGAACTCATGCTCTGTGGAGAATGCCAAGGCAATTGCCGCACTCGTTGAAGAGCTTAACATTCCAGAGGCCAAACTCGGACTCGCCTCTGGAGTTTCCGCCTTTCTCTGGTTATACTCTTCCATTCAAGGATTTAAGCCTGCTACTGTTGTTGTCACTTCTGAACTTCCTCTGGGCTCAGGATTGGGTTCATCCGCCTCGTTTTGTGTTGCGCTGGCGGCCGCCTTGTTGGCTTATACTGATTCTGTCTCTCTGGATTTGAAACATCAAGGATGGCTCTCCTTTGGGGAGAAGGATCTTGAGTTGGTAAATAAATGGGCTTTTGAAGGGGAGAAGATCATTCATGGAAAGCCCTCTGGAATTGACAACACAGTAAGCGCATATGGTAACATTATCAGCTTCAAGTCGGGTAACTTGACACATATGAAGTCAAGTGTGCCGCTTAAAATGCTCATTACTAACACCAAAGTAGGGAGGAACACAAAAGCATTGGTGGCTGGTGTTGGAGAGAGGATGCTAAGGCATCCAGATATAATGGCTTTTGTGTTTAGTGCTGTTGATTCTATTAGCAATGAATTGACTTCCATTCTCAAGTCACCTACACCAGATGAGCTCTCGGTAACTGAGAAAGAAGAGAAGATAGAAGAACTAATGGAAATGAATCAAGGTATGCTCCAGTCTATGGGGGTCAGTCATGCCACAATAGAAACTGTTCTTCGAACAACATTGAAGTATAAGTTAGCCTCCAAATTGACAGGAGCTGGTGGTGGGGGCTGTGTTCTGACACTGCTTCCAACATTGCTATCAGGCACCGTTGTTGACAAAGTAGTTGCTGAACTGGAGTCATGCGGGTTCCAATGTTTCATTGCTGGAATTGGCGGGGGAGGTGTTGAAATTAGCTTTGGGGTGTCATCTTGA

>Glyma03g39890.2   sequence type=CDS   gene model=Glyma03g39890   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGAGGTTAAATCCAGAGCTCCCGGGAAAATTATCCTAACCGGCGAACATGCTGTGGTTCATGGATCCACCGCTGTTGCTTCTTCTATTGACTTGTATACCTACGTTTCTCTCCACTTCTCCACTCCTTCCGACAACGAGGATTCGTTGAAACTGAAGCTGCAGGAGACGGCGTTGGAGTTCTCGTGGCCAATCACGAGAATAAGAGCAGCGTTTCCTGAATCCACGGCTCAGCTATCTTCCACGCCGAACTCATGCTCTGTGGAGAATGCCAAGGCAATTGCCGCACTCGTTGAAGAGCTTAACATTCCAGAGGCCAAACTCGGACTCGCCTCTGGAGTTTCCGCCTTTCTCTGGTTATACTCTTCCATTCAAGGATTTAAGCCTGCTACTGTTGTTGTCACTTCTGAACTTCCTCTGGGCTCAGGATTGGGTTCATCCGCCTCGTTTTGTGTTGCGCTGGCGGCCGCCTTGTTGGCTTATACTGATTCTGTCTCTCTGGATTTGAAACATCAAGGATGGCTCTCCTTTGGGGAGAAGGATCTTGAGTTGGTAAATAAATGGGCTTTTGAAGGGGAGAAGATCATTCATGGAAAGCCCTCTGGAATTGACAACACAGTAAGCGCATATGGTAACATTATCAGCTTCAAGTCGGGTAACTTGACACATATGAAGTCAAGTGTGCCGCTTAAAATGCTCATTACTAACACCAAAGTAGGGAGGAACACAAAAGCATTGGTGGCTGGTGTTGGAGAGAGGATGCTAAGGCATCCAGATATAATGGCTTTTGTGTTTAGTGCTGTTGATTCTATTAGCAATGAATTGACTTCCATTCTCAAGTCACCTACACCAGATGAGCTCTCGGTAACTGAGAAAGAAGAGAAGATAGAAGAACTAATGGAAATGAATCAAGGCACCGTTGTTGACAAAGTAGTTGCTGAACTGGAGTCATGCGGGTTCCAATGTTTCATTGCTGGAATTGGCGGGGGAGGTGTTGAAATTAGCTTTGGGGTGTCATCTTGA

>Glyma03g39890.3   sequence type=CDS   gene model=Glyma03g39890   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGAGGTTAAATCCAGAGCTCCCGGGAAAATTATCCTAACCGGCGAACATGCTGTGGTTCATGGATCCACCGCTGTTGCTTCTTCTATTGACTTGTATACCTACGTTTCTCTCCACTTCTCCACTCCTTCCGACAACGAGGATTCGTTGAAACTGAAGCTGCAGGAGACGGCGTTGGAGTTCTCGTGGCCAATCACGAGAATAAGAGCAGCGTTTCCTGAATCCACGGCTCAGCTATCTTCCACGCCGAACTCATGCTCTGTGGAGAATGCCAAGGCAATTGCCGCACTCGTTGAAGAGCTTAACATTCCAGAGGCCAAACTCGGACTCGCCTCTGGAGTTTCCGCCTTTCTCTGGTTATACTCTTCCATTCAAGGATTTAAGCCTGCTACTGTTGTTGTCACTTCTGAACTTCCTCTGGGCTCAGGATTGGGTTCATCCGCCTCGTTTTGTGTTGCGCTGGCGGCCGCCTTGTTGGCTTATACTGATTCTGTCTCTCTGGATTTGAAACATCAAGGATGGCTCTCCTTTGGGGAGAAGGATCTTGAGTTGGTAAATAAATGGGCTTTTGAAGGGGAGAAGATCATTCATGGAAAGCCCTCTGGAATTGACAACACAGTAAGCGCATATGGTAACATTATCAGCTTCAAGTCGGGTAACTTGACACATATGAAGTCAAGTGTGCCGCTTAAAATGCTCATTACTAACACCAAAGTAGGGAGGAACACAAAAGCATTGGTGGCTGGTGTTGGAGAGAGGATGCTAAGGCATCCAGATATAATGGCTTTTGTGTTTAGTGCTGTTGATTCTATTAGCAATGAATTGACTTCCATTCTCAAGTCACCTACACCAGATGAGCTCTCGGTAACTGAGAAAGAAGAGAAGATAGAAGAACTAATGGAAATGAATCAAGTGCTATCAGGCACCGTTGTTGACAAAGTAGTTGCTGAACTGGAGTCATGCGGGTTCCAATGTTTCATTGCTGGAATTGGCGGGGGAGGTGTTGAAATTAGCTTTGGGGTGTCATCTTGA

Predicted protein sequences of Glyma03g39890

Limit To All Plant Sequences

>Glyma03g39890.1   sequence type=predicted peptide   gene model=Glyma03g39890   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MEVKSRAPGKIILTGEHAVVHGSTAVASSIDLYTYVSLHFSTPSDNEDSLKLKLQETALEFSWPITRIRAAFPESTAQLSSTPNSCSVENAKAIAALVEELNIPEAKLGLASGVSAFLWLYSSIQGFKPATVVVTSELPLGSGLGSSASFCVALAAALLAYTDSVSLDLKHQGWLSFGEKDLELVNKWAFEGEKIIHGKPSGIDNTVSAYGNIISFKSGNLTHMKSSVPLKMLITNTKVGRNTKALVAGVGERMLRHPDIMAFVFSAVDSISNELTSILKSPTPDELSVTEKEEKIEELMEMNQGMLQSMGVSHATIETVLRTTLKYKLASKLTGAGGGGCVLTLLPTLLSGTVVDKVVAELESCGFQCFIAGIGGGGVEISFGVSS*

>Glyma03g39890.2   sequence type=predicted peptide   gene model=Glyma03g39890   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MEVKSRAPGKIILTGEHAVVHGSTAVASSIDLYTYVSLHFSTPSDNEDSLKLKLQETALEFSWPITRIRAAFPESTAQLSSTPNSCSVENAKAIAALVEELNIPEAKLGLASGVSAFLWLYSSIQGFKPATVVVTSELPLGSGLGSSASFCVALAAALLAYTDSVSLDLKHQGWLSFGEKDLELVNKWAFEGEKIIHGKPSGIDNTVSAYGNIISFKSGNLTHMKSSVPLKMLITNTKVGRNTKALVAGVGERMLRHPDIMAFVFSAVDSISNELTSILKSPTPDELSVTEKEEKIEELMEMNQGTVVDKVVAELESCGFQCFIAGIGGGGVEISFGVSS*

>Glyma03g39890.3   sequence type=predicted peptide   gene model=Glyma03g39890   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MEVKSRAPGKIILTGEHAVVHGSTAVASSIDLYTYVSLHFSTPSDNEDSLKLKLQETALEFSWPITRIRAAFPESTAQLSSTPNSCSVENAKAIAALVEELNIPEAKLGLASGVSAFLWLYSSIQGFKPATVVVTSELPLGSGLGSSASFCVALAAALLAYTDSVSLDLKHQGWLSFGEKDLELVNKWAFEGEKIIHGKPSGIDNTVSAYGNIISFKSGNLTHMKSSVPLKMLITNTKVGRNTKALVAGVGERMLRHPDIMAFVFSAVDSISNELTSILKSPTPDELSVTEKEEKIEELMEMNQVLSGTVVDKVVAELESCGFQCFIAGIGGGGVEISFGVSS*

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