Glyma02g16390 - SoyBase

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

Report for Sequence Feature Glyma02g16390

Feature Type:	gene_model
Chromosome:	Gm02
Start:	14806167
stop:	14811022
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma02g16390

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT1G03090	AT	Annotation by Michelle Graham. TAIR10: methylcrotonyl-CoA carboxylase alpha chain, mitochondrial / 3-methylcrotonyl-CoA carboxylase 1 (MCCA) \| chr1:739715-743819 FORWARD LENGTH=734	SoyBase	E_val: 0	ISS
GO:0006552	GO-bp	Annotation by Michelle Graham. GO Biological Process: leucine catabolic process	SoyBase	N/A	ISS
GO:0008152	GO-bp	Annotation by Michelle Graham. GO Biological Process: metabolic process	SoyBase	N/A	ISS
GO:0009744	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to sucrose stimulus	SoyBase	N/A	ISS
GO:0009750	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to fructose stimulus	SoyBase	N/A	ISS
GO:0005739	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: mitochondrion	SoyBase	N/A	ISS
GO:0022626	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: cytosolic ribosome	SoyBase	N/A	ISS
GO:0003824	GO-mf	Annotation by Michelle Graham. GO Molecular Function: catalytic activity	SoyBase	N/A	ISS
GO:0004075	GO-mf	Annotation by Michelle Graham. GO Molecular Function: biotin carboxylase activity	SoyBase	N/A	ISS
GO:0004485	GO-mf	Annotation by Michelle Graham. GO Molecular Function: methylcrotonoyl-CoA carboxylase activity	SoyBase	N/A	ISS
GO:0005524	GO-mf	Annotation by Michelle Graham. GO Molecular Function: ATP binding	SoyBase	N/A	ISS
GO:0016874	GO-mf	Annotation by Michelle Graham. GO Molecular Function: ligase activity	SoyBase	N/A	ISS
GO:0046872	GO-mf	Annotation by Michelle Graham. GO Molecular Function: metal ion binding	SoyBase	N/A	ISS
GO:0050897	GO-mf	Annotation by Michelle Graham. GO Molecular Function: cobalt ion binding	SoyBase	N/A	ISS
KOG0238	KOG	3-Methylcrotonyl-CoA carboxylase, biotin-containing subunit/Propionyl-CoA carboxylase, alpha chain/Acetyl-CoA carboxylase, biotin carboxylase subunit	JGI		ISS
PTHR18866	Panther	CARBOXYLASE:PYRUVATE/ACETYL-COA/PROPIONYL-COA	JGI		ISS
PTHR18866:SF18	Panther	ACETYL-/PROPIONYL-COENZYME A CARBOXYLASE ALPHA CHAIN	JGI		ISS
PF00289	PFAM	Carbamoyl-phosphate synthase L chain, N-terminal domain	JGI		ISS
PF00364	PFAM	Biotin-requiring enzyme	JGI		ISS
PF02785	PFAM	Biotin carboxylase C-terminal domain	JGI		ISS
PF02786	PFAM	Carbamoyl-phosphate synthase L chain, ATP binding domain	JGI		ISS
UniRef100_I1JF82	UniRef	Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=I1JF82_SOYBN	SoyBase	E_val: 0	ISS
UniRef100_Q42777	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: Methylcrotonoyl-CoA carboxylase subunit alpha, mitochondrial n=1 Tax=Glycine max RepID=MCCA_SOYBN	SoyBase	E_val: 0	ISS

Expression Patterns of Glyma02g16390

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 Glyma02g16390

Paralog	Evidence	Comments
Glyma10g03440	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 Glyma02g16390 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.02g145300	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma02g16390

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

Coding sequences of Glyma02g16390

Limit To All Plant Sequences

>Glyma02g16390.1   sequence type=CDS   gene model=Glyma02g16390   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGCTTCTCTGGCGTTGCTCCGCAGAAAGCTTATCATCACCAGAACCACACTCTCCTACTCGCACGTGCGCGCACGAGCCTTCTCCGCGGGAAACAACAAACACCGCATCGAGAAGATTCTAGTAGCCAACCGCGGCGAAATCGCTTGCAGGATCACGCGGACCGCGCGGAGGCTCGGCATTCAAACCGTCGCCGTTTACAGCGACGCCGACAGGGATTCGCTCCACGTGGCAACCGCCGACGAGGCCATTCGAATCGGACCGCCGCCGGCGCGGCTCAGTTACTTGAACGGAGCCTCCATCGTCGACGCCGCAATTCGCTCCGGCGCGCAGGCTATTCACCCTGGGTATGGATTCTTGTCGGAGAGTGCTGACTTCGCCAAGCTCTGTGAGGAGAGTGGTCTCACTTTTATAGGGCCTCCTGCGTCTGCTATTCGAGATATGGGTGACAAGAGTGCATCGAAGAGAATAATGGGAGCTGCAGGTGTGCCTCTTGTACCTGGATATCACGGATATGATCAAGATATTGAAAAAATGAAGTTGGAAGCTGATAGAATTGGATATCCAGTCCTAATTAAGCCAACTCATGGTGGAGGTGGAAAGGGTATGAGGATTGTACACACTCCAGATGAGTTTGTTGAATCCTTCTTAGCTGCACAACGGGAAGCAGCTGCTTCTTTTGGCGTCAACACAATATTGTTGGAGAAGTATATTACACGGCCAAGACACATAGAAGTCCAGATATTTGGGGATAAGCATGGGAATGTTCTGCATTTGTATGAGCGAGATTGCAGTGTTCAGAGAAGACACCAAAAAATAATTGAAGAAGCTCCAGCTCCAAACATTTCTGCTGACTTTCGTGCACAATTGGGTGTAGCCGCTGTTTCAGCTGCAAAGGCAGTTAATTATTACAATGCTGGGACTGTGGAGTTTATAGTTGATACAGTCTCTGATGAATTTTACTTTATGGAGATGAATACACGTCTTCAGGTTGAGCATCCTGTTACAGAAATGATTGTTGGTCAGGATCTTGTTGAATGGCAAATCCTTGTTGCCAATGGAGAAGCTCTTCCATTGAGTCAATCACAAGTACCCTTATCAGGTCATGCTTTTGAAGCTCGAATCTATGCTGAAAATGTTCAAAAAGGGTTTCTTCCAGCAACTGGAGTTCTACACCATTATCATGTTCCAGTCTCATCTGCAGTCCGAGTGGAGACTGGAGTTAAAGAAGGAGACAAAGTTAGCATGCACTATGATCCTATGATTGCTAAGCTTGTGGTGTGGGGAGAAAATCGTGCTGCTGCCTTGGTCAAACTCAAGGATAGTCTGTCAAAGTTTCAGGTTGCAGGTCTGCCAACCAATGTCAACTTTCTTCAAAAGCTTGCTAATCACAGGGCATTTGCAAATGGCAATGTGGAGACTCATTTTATTGATAACTACAAAGAAGACCTCTTTGTTGATGCTAACAATTCAGTGTCTGTGAAAGAAGCATATGAAGCTGCTAGACTTAATGCATCCCTGGTGGCCGCATGCCTCATTGAAAAAGAGCATTTCATATTGGCTAGAAATCCACCTGGGGGCAGCAGCTTGCTCCCTATATGGTATTCTTCTCCACCTTTCAGAATCCATCATCAAGCTAAGCGTAGAATGGAACTTGAGTGGGATAATGAATATGGTAGTGGTAGCTCAAAGATCATGAAGCTTACCATCACTTATCAGCCTGATGGGAGATACCTAATTGAGACAGAACAAAATGGATCTCCTGTTTTAGAAGTGAAATCAACATATGTAAAAGATAACTATTTTAGAGTTGAAGCTGCTGGTGTAATCAATGATGTTAATGTAGCTGTTTATTCAAAGGATCAAATAAGGCATATTCATATTTGGCAAGGGTCCTGTCATCATTATTTCAGAGAGAAACTAGGCCTGGAGCTGTCTGAGGATGAAGAATCCCAACATAAACCCAAAGTTGAAACATCAGCCAACCCTCAAGGGACAGTTGTAGCACCCATGGCAGGCTTGGTAGTTAAGGTTCTAGTGGAGAACAAGACAAGAGTGGAGGAAGGACAACCTGTGTTAGTATTGGAAGCAATGAAGATGGAGCATGTTGTAAAGGCACCTTCTTCTGGCTATGTGCATGGGCTTCAACTTATGGTGGGTGAACAGGTTTCAGATGGCAGTGTTCTTTTCAGTGTAAAGGTTCGTTAA

Predicted protein sequences of Glyma02g16390

Limit To All Plant Sequences

>Glyma02g16390.1   sequence type=predicted peptide   gene model=Glyma02g16390   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MASLALLRRKLIITRTTLSYSHVRARAFSAGNNKHRIEKILVANRGEIACRITRTARRLGIQTVAVYSDADRDSLHVATADEAIRIGPPPARLSYLNGASIVDAAIRSGAQAIHPGYGFLSESADFAKLCEESGLTFIGPPASAIRDMGDKSASKRIMGAAGVPLVPGYHGYDQDIEKMKLEADRIGYPVLIKPTHGGGGKGMRIVHTPDEFVESFLAAQREAAASFGVNTILLEKYITRPRHIEVQIFGDKHGNVLHLYERDCSVQRRHQKIIEEAPAPNISADFRAQLGVAAVSAAKAVNYYNAGTVEFIVDTVSDEFYFMEMNTRLQVEHPVTEMIVGQDLVEWQILVANGEALPLSQSQVPLSGHAFEARIYAENVQKGFLPATGVLHHYHVPVSSAVRVETGVKEGDKVSMHYDPMIAKLVVWGENRAAALVKLKDSLSKFQVAGLPTNVNFLQKLANHRAFANGNVETHFIDNYKEDLFVDANNSVSVKEAYEAARLNASLVAACLIEKEHFILARNPPGGSSLLPIWYSSPPFRIHHQAKRRMELEWDNEYGSGSSKIMKLTITYQPDGRYLIETEQNGSPVLEVKSTYVKDNYFRVEAAGVINDVNVAVYSKDQIRHIHIWQGSCHHYFREKLGLELSEDEESQHKPKVETSANPQGTVVAPMAGLVVKVLVENKTRVEEGQPVLVLEAMKMEHVVKAPSSGYVHGLQLMVGEQVSDGSVLFSVKVR*

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