Glyma04g12890 - SoyBase

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Report for Sequence Feature Glyma04g12890

Feature Type:	gene_model
Chromosome:	Gm04
Start:	12284190
stop:	12294921
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma04g12890

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT5G56280	AT	Annotation by Michelle Graham. TAIR10: COP9 signalosome subunit 6A \| chr5:22783617-22785530 REVERSE LENGTH=317	SoyBase	E_val: 0	ISS
GO:0000085	GO-bp	Annotation by Michelle Graham. GO Biological Process: G2 phase of mitotic cell cycle	SoyBase	N/A	ISS
GO:0006511	GO-bp	Annotation by Michelle Graham. GO Biological Process: ubiquitin-dependent protein catabolic process	SoyBase	N/A	ISS
GO:0007275	GO-bp	Annotation by Michelle Graham. GO Biological Process: multicellular organismal development	SoyBase	N/A	ISS
GO:0009165	GO-bp	Annotation by Michelle Graham. GO Biological Process: nucleotide biosynthetic process	SoyBase	N/A	ISS
GO:0009640	GO-bp	Annotation by Michelle Graham. GO Biological Process: photomorphogenesis	SoyBase	N/A	ISS
GO:0010387	GO-bp	Annotation by Michelle Graham. GO Biological Process: signalosome assembly	SoyBase	N/A	ISS
GO:0030163	GO-bp	Annotation by Michelle Graham. GO Biological Process: protein catabolic process	SoyBase	N/A	ISS
GO:0043161	GO-bp	Annotation by Michelle Graham. GO Biological Process: proteasomal ubiquitin-dependent protein catabolic process	SoyBase	N/A	ISS
GO:0043248	GO-bp	Annotation by Michelle Graham. GO Biological Process: proteasome assembly	SoyBase	N/A	ISS
GO:0051788	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to misfolded protein	SoyBase	N/A	ISS
GO:0005634	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: nucleus	SoyBase	N/A	ISS
GO:0008180	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: signalosome	SoyBase	N/A	ISS
GO:0005515	GO-mf	Annotation by Michelle Graham. GO Molecular Function: protein binding	SoyBase	N/A	ISS
KOG3050	KOG	COP9 signalosome, subunit CSN6	JGI		ISS
PTHR10540	Panther	EIF3F-RELATED	JGI		ISS
PF01398	PFAM	Mov34/MPN/PAD-1 family	JGI		ISS
UniRef100_B9ST91	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: Signalosome subunit, putative n=1 Tax=Ricinus communis RepID=B9ST91_RICCO	SoyBase	E_val: 0	ISS
UniRef100_I1JVP4	UniRef	Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=I1JVP4_SOYBN	SoyBase	E_val: 0	ISS

Expression Patterns of Glyma04g12890

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 Glyma04g12890

Paralog	Evidence	Comments
Glyma06g47850	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 Glyma04g12890 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.04g115900	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma04g12890

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

Coding sequences of Glyma04g12890

Limit To All Plant Sequences

>Glyma04g12890.1   sequence type=CDS   gene model=Glyma04g12890   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGCTTCTTCATCGAGTAGCGGATTGACGTTCAAGCTGCACCCTCTGGTGATCGTAAACATCTCGGACCACTACACCAGGGTCAAGTCTCAGATGAACCCAACCCACGCGCCACCGCACAACAACAACAACGCCAACGGCGGCGACGGCGTCGTTTCGCCGCTCTCCCCGCGGGTCTATGGCTGCGTCATAGGGGTCCAGAAGGGCCGCACCGTGGAGATCTTCAACAGCTTCGAACTCCTCTACGATCCTTCCTCCCACTCCCTCGATCGCACCTTCCTCGAGAAGAAGCAAGAACTCTATAAGAAGGTGTTCCCGCACTTCTATATACTGGGGTGGTATTCGACTGGGAGTGATGCAGAGGAATCAGACATGCATATTCACAAAGCTTTGATGGATATCAATGAAAGTCCAGTTTATGTTCTTCTCAATCCTTCTATCAATCATTCTCAGAAGGATCTACCTGTCAGTATTTTTGAAAGTGAACTGCATGTCATAGATGGGATTCCACAACTTATCTTTGTTCGCTCAAGCTATACTATTGAGACTGTTGAAGCAGAACGAATATCAGTTGATCATGTTGCTCATCTTAAGCCATCTGATGGTGGTTCAGCTGCTACACAATTGGCTGCTCACCTTACTGGAATACACAGTGCCATCAAAATGCTTCATAGCAGAATAAAGGTGCTACATCACTATCTTCTTGCAATGCAAAAAGGTGATGTTCCTTGCGAGAATTCACTATTAAGACAAGTGTCAAGTCTCCTGAGAAGATTGCCTGCTATTGAATCTGGCAAATTTCAAGATGATTTCTTGATGGAGTACAATGACACCTTATTGATTAGTTACCTGGCAATGCTGACCAACTGCTCAAGTGCTATGAATGAACTGGTGGACAAATTTAATATTGCGTATGATAGGCATAGCAGAAGGGGTGGACGAACTGCTTTTATGTGA

Predicted protein sequences of Glyma04g12890

Limit To All Plant Sequences

>Glyma04g12890.1   sequence type=predicted peptide   gene model=Glyma04g12890   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MASSSSSGLTFKLHPLVIVNISDHYTRVKSQMNPTHAPPHNNNNANGGDGVVSPLSPRVYGCVIGVQKGRTVEIFNSFELLYDPSSHSLDRTFLEKKQELYKKVFPHFYILGWYSTGSDAEESDMHIHKALMDINESPVYVLLNPSINHSQKDLPVSIFESELHVIDGIPQLIFVRSSYTIETVEAERISVDHVAHLKPSDGGSAATQLAAHLTGIHSAIKMLHSRIKVLHHYLLAMQKGDVPCENSLLRQVSSLLRRLPAIESGKFQDDFLMEYNDTLLISYLAMLTNCSSAMNELVDKFNIAYDRHSRRGGRTAFM*

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