Glyma04g02960 - SoyBase

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Report for Sequence Feature Glyma04g02960

Feature Type:	gene_model
Chromosome:	Gm04
Start:	2136689
stop:	2138338
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma04g02960

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT1G75540	AT	Annotation by Michelle Graham. TAIR10: salt tolerance homolog2 \| chr1:28366059-28367398 FORWARD LENGTH=331	SoyBase	E_val: 7.00E-65	ISS
GO:0006355	GO-bp	Annotation by Michelle Graham. GO Biological Process: regulation of transcription, DNA-dependent	SoyBase	N/A	ISS
GO:0009641	GO-bp	Annotation by Michelle Graham. GO Biological Process: shade avoidance	SoyBase	N/A	ISS
GO:0005622	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: intracellular	SoyBase	N/A	ISS
GO:0005634	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: nucleus	SoyBase	N/A	ISS
GO:0003700	GO-mf	Annotation by Michelle Graham. GO Molecular Function: sequence-specific DNA binding transcription factor activity	SoyBase	N/A	ISS
GO:0005515	GO-mf	Annotation by Michelle Graham. GO Molecular Function: protein binding	SoyBase	N/A	ISS
GO:0008270	GO-mf	Annotation by Michelle Graham. GO Molecular Function: zinc ion binding	SoyBase	N/A	ISS
PF00643	PFAM	B-box zinc finger	JGI		ISS
UniRef100_D9ZIW4	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: COL domain class transcription factor n=1 Tax=Malus x domestica RepID=D9ZIW4_MALDO	SoyBase	E_val: 5.00E-82	ISS
UniRef100_I1JT58	UniRef	Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=I1JT58_SOYBN	SoyBase	E_val: 0	ISS

Expression Patterns of Glyma04g02960

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 Glyma04g02960

Paralog	Evidence	Comments
Glyma06g02970	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 Glyma04g02960 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.04g027000	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma04g02960

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

Transcripts of Glyma04g02960

Limit To All Plant Sequences

>Glyma04g02960.2   sequence type=transcript   gene model=Glyma04g02960   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATAGTTGTGTGTCTAAATTAAATTAAAAAATGAGAATAAGAAGGTATTGTATTTGGGTCAATAGAGCACCCCCCACTTGATATTTAATCTTTTTGTAAGAACGTGAAACATGACACCCTAACTCGCGTTGCTTGCTTGAGTGATTTGACTCGTGTCGAGTGTATTGTATTTAGTTTAAGCGTGGCTGATCGAGTGAGTATCAGAATCAATTCAATTTTGAGCTAGTCATGAAGATCCACTGCGACGTGTGTAACAAGCACCAGGCCTCTTTCTTCTGCACCGCCGACGAAGCTGCCCTATGCGACGGCTGCGACCACCGCGTCCACCACGCCAACAAGCTCGCCTCCAAACACCAACGCTTCTCCCTCACCCACCCCTCTGCGAAACATTTTCCCCTCTGCGATGTTTGCCAGGAGAGAAGAGCCTTCGTGTTTTGTCAGCAAGATAGAGCGATTCTGTGCAAAGAGTGTGACGTGCCCATTCATTCTGCCAACGACCTCACCAAGAACCATAGCAGGTTTCTTCTCACTGGGATTAAGTTCTCTGCTTCTGCCACGCCTTATGATTATTCATCACCACCACCACCACCACCACCACCACCACCCAAGAGAAACCCTGTTCTCGATTCTCCTTCAACACCGTCACCGCCTAAGCCTGGGGGAAACTCGCTAACAAACGAAGAAGAACCTGGTTTCACAGGTAGCAGCATTTCAGAGTACTTGATAAACTCTATCCCAGGCATGAAGTTCGAAGATTTCCTCGATTCACATTCTCTTCCCTTTGCTTGCTCCAAGCAATTGATCATAGTTTAATTGGATCTGAGAATTGAGATTAATACGTTGACGATGAATTACAGAATAGTGATGACATGTTGTCGCTGTTTGGTGAGGGAAACATGGTTTCTTTCTCACCCGGTGGGTTCTGGGTTCCTCAAGCACCACCATCTTCAGTACAAATGGATCGGCAGAGTGGGTACAGAGAGACAAGGGAAGGTAGCATTAGATCAAGTTTTGGAGATGATAATTTCATAGTTCCACAGATGAGTCCTCCCAGCAATGTGTCTAATAAGAGATCCAGGCTTCTCTGGTAAAACAGATATAGCTAGTTACAACTAGCTAACCACCTTATGTGGCTTTGTGTGACTTAAATTTCACTCTCCCCTCTTATTTTGTATTTTTTATGTGGTATTGTTTTAATTTTTGTTTGTTCGTTTGTTTTTGGTCCCTCTCCCTTCCTGAACTACACTACTCTTCTAGCTACTTTCTCTCTTGATAAGTTGGTGTATCTCTTCCAAATTGTAAATATGAACGTTTTAAGAGCTCTCTGGGTTGAGATTTTTTGTGTTTTTGCTACATGTTAAAAGATAACTAAAGTTTTACTTAACAACCAG

Coding sequences of Glyma04g02960

Limit To All Plant Sequences

>Glyma04g02960.1   sequence type=CDS   gene model=Glyma04g02960   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGAAGATCCACTGCGACGTGTGTAACAAGCACCAGGCCTCTTTCTTCTGCACCGCCGACGAAGCTGCCCTATGCGACGGCTGCGACCACCGCGTCCACCACGCCAACAAGCTCGCCTCCAAACACCAACGCTTCTCCCTCACCCACCCCTCTGCGAAACATTTTCCCCTCTGCGATGTTTGCCAGGAGAGAAGAGCCTTCGTGTTTTGTCAGCAAGATAGAGCGATTCTGTGCAAAGAGTGTGACGTGCCCATTCATTCTGCCAACGACCTCACCAAGAACCATAGCAGGTTTCTTCTCACTGGGATTAAGTTCTCTGCTTCTGCCACGCCTTATGATTATTCATCACCACCACCACCACCACCACCACCACCACCCAAGAGAAACCCTGTTCTCGATTCTCCTTCAACACCGTCACCGCCTAAGCCTGGGGGAAACTCGCTAACAAACGAAGAAGAACCTGGTTTCACAGGTAGCAGCATTTCAGAGTACTTGATAAACTCTATCCCAGGCATGAAGTTCGAAGATTTCCTCGATTCACATTCTCTTCCCTTTGCTTGCTCCAAGAATAGTGATGACATGTTGTCGCTGTTTGGTGAGGGAAACATGGTTTCTTTCTCACCCGGTGGGTTCTGGGTTCCTCAAGCACCACCATCTTCAGTACAAATGGATCGGCAGAGTGGGTACAGAGAGACAAGGGAAGGTAGCATTAGATCAAGTTTTGGAGATGATAATTTCATAGTTCCACAGATGAGTCCTCCCAGCAATGTGTCTAATAAGAGATCCAGGCTTCTCTGGTAA

>Glyma04g02960.2   sequence type=CDS   gene model=Glyma04g02960   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGAAGATCCACTGCGACGTGTGTAACAAGCACCAGGCCTCTTTCTTCTGCACCGCCGACGAAGCTGCCCTATGCGACGGCTGCGACCACCGCGTCCACCACGCCAACAAGCTCGCCTCCAAACACCAACGCTTCTCCCTCACCCACCCCTCTGCGAAACATTTTCCCCTCTGCGATGTTTGCCAGGAGAGAAGAGCCTTCGTGTTTTGTCAGCAAGATAGAGCGATTCTGTGCAAAGAGTGTGACGTGCCCATTCATTCTGCCAACGACCTCACCAAGAACCATAGCAGGTTTCTTCTCACTGGGATTAAGTTCTCTGCTTCTGCCACGCCTTATGATTATTCATCACCACCACCACCACCACCACCACCACCACCCAAGAGAAACCCTGTTCTCGATTCTCCTTCAACACCGTCACCGCCTAAGCCTGGGGGAAACTCGCTAACAAACGAAGAAGAACCTGGTTTCACAGGTAGCAGCATTTCAGAGTACTTGATAAACTCTATCCCAGGCATGAAGTTCGAAGATTTCCTCGATTCACATTCTCTTCCCTTTGCTTGCTCCAAGCAATTGATCATAGTTTAA

Predicted protein sequences of Glyma04g02960

Limit To All Plant Sequences

>Glyma04g02960.1   sequence type=predicted peptide   gene model=Glyma04g02960   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MKIHCDVCNKHQASFFCTADEAALCDGCDHRVHHANKLASKHQRFSLTHPSAKHFPLCDVCQERRAFVFCQQDRAILCKECDVPIHSANDLTKNHSRFLLTGIKFSASATPYDYSSPPPPPPPPPPKRNPVLDSPSTPSPPKPGGNSLTNEEEPGFTGSSISEYLINSIPGMKFEDFLDSHSLPFACSKNSDDMLSLFGEGNMVSFSPGGFWVPQAPPSSVQMDRQSGYRETREGSIRSSFGDDNFIVPQMSPPSNVSNKRSRLLW*

>Glyma04g02960.2   sequence type=predicted peptide   gene model=Glyma04g02960   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MKIHCDVCNKHQASFFCTADEAALCDGCDHRVHHANKLASKHQRFSLTHPSAKHFPLCDVCQERRAFVFCQQDRAILCKECDVPIHSANDLTKNHSRFLLTGIKFSASATPYDYSSPPPPPPPPPPKRNPVLDSPSTPSPPKPGGNSLTNEEEPGFTGSSISEYLINSIPGMKFEDFLDSHSLPFACSKQLIIV*

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