Glyma08g09000 - SoyBase

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

Report for Sequence Feature Glyma08g09000

Feature Type:	gene_model
Chromosome:	Gm08
Start:	6399058
stop:	6403560
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma08g09000

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT5G59180	AT	Annotation by Michelle Graham. TAIR10: DNA-directed RNA polymerase II \| chr5:23883499-23884976 FORWARD LENGTH=176	SoyBase	E_val: 5.00E-119	ISS
GO:0000394	GO-bp	Annotation by Michelle Graham. GO Biological Process: RNA splicing, via endonucleolytic cleavage and ligation	SoyBase	N/A	ISS
GO:0006351	GO-bp	Annotation by Michelle Graham. GO Biological Process: transcription, DNA-dependent	SoyBase	N/A	ISS
GO:0006366	GO-bp	Annotation by Michelle Graham. GO Biological Process: transcription from RNA polymerase II promoter	SoyBase	N/A	ISS
GO:0005634	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: nucleus	SoyBase	N/A	ISS
GO:0005665	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: DNA-directed RNA polymerase II, core complex	SoyBase	N/A	ISS
GO:0003723	GO-mf	Annotation by Michelle Graham. GO Molecular Function: RNA binding	SoyBase	N/A	ISS
GO:0003899	GO-mf	Annotation by Michelle Graham. GO Molecular Function: DNA-directed RNA polymerase activity	SoyBase	N/A	ISS
KOG3298	KOG	DNA-directed RNA polymerase subunit E'	JGI		ISS
PTHR12709	Panther	DNA-DIRECTED RNA POLYMERASE II, III	JGI		ISS
PF00575	PFAM	S1 RNA binding domain	JGI		ISS
PF03876	PFAM	RNA polymerase Rpb7-like, N-terminal domain	JGI		ISS
UniRef100_P46279	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: DNA-directed RNA polymerase II subunit RPB7 n=2 Tax=Glycine max RepID=RPB7_SOYBN	SoyBase	E_val: 5.00E-125	ISS
UniRef100_P46279	UniRef	Annotation by Michelle Graham. Best UniRef hit: DNA-directed RNA polymerase II subunit RPB7 n=2 Tax=Glycine max RepID=RPB7_SOYBN	SoyBase	E_val: 5.00E-125	ISS

Expression Patterns of Glyma08g09000

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 Glyma08g09000

Paralog	Evidence	Comments
Glyma05g26040	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 Glyma08g09000 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.08g085100	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma08g09000

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

Coding sequences of Glyma08g09000

Limit To All Plant Sequences

>Glyma08g09000.1   sequence type=CDS   gene model=Glyma08g09000   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGTTTTTCCACATAGTACTGGAGCGAAATATGCAGCTTCATCCACGCTACTTTGGTCGTAACCTTCGCGATAATCTCGTTTCCAAGCTTATGAAAGACGTGGAAGGCACTTGCAGTGGCCGACATGGATTTGTGGTGGCAGTTACAGGGATAGAGAACATAGGGAAAGGGCTAATTCGTGATGGAACAGGGTTTGTGACATTTCCAGTTAAGTACCAATGTGTTGTCTTCAGACCGTTTAAGGGAGAGATCTTGGAAGCAGTTGTTACTATGGTGAACAAGATGGGATTTTTTGCTGAAGCTGGACCTGTCCAAATCTTTGTTTCAAACCATTTGATTCCGGATGATATGGAGTTCCAGTCTGGAGACATGCCAAATTACACTACATCAGATGGATCAGTTAAGATTCAAAAAGATAGTGAAGTGAGACTAAAGATAATTGGGACTCGAGTGGATGCTACAGAAATTTTCTGCATAGGTACCATAAAAGATGATTTCTTGGGTGTGATCAACGACCCTGCAACAGTTTAA

Predicted protein sequences of Glyma08g09000

Limit To All Plant Sequences

>Glyma08g09000.1   sequence type=predicted peptide   gene model=Glyma08g09000   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MFFHIVLERNMQLHPRYFGRNLRDNLVSKLMKDVEGTCSGRHGFVVAVTGIENIGKGLIRDGTGFVTFPVKYQCVVFRPFKGEILEAVVTMVNKMGFFAEAGPVQIFVSNHLIPDDMEFQSGDMPNYTTSDGSVKIQKDSEVRLKIIGTRVDATEIFCIGTIKDDFLGVINDPATV*

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