Glyma13g25860 - SoyBase

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Report for Sequence Feature Glyma13g25860

Feature Type:	gene_model
Chromosome:	Gm13
Start:	29086850
stop:	29095860
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma13g25860

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT3G12480	AT	Annotation by Michelle Graham. TAIR10: nuclear factor Y, subunit C11 \| chr3:3958065-3960278 FORWARD LENGTH=293	SoyBase	E_val: 1.00E-75	ISS
GO:0006355	GO-bp	Annotation by Michelle Graham. GO Biological Process: regulation of transcription, DNA-dependent	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:0005829	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: cytosol	SoyBase	N/A	ISS
GO:0003677	GO-mf	Annotation by Michelle Graham. GO Molecular Function: DNA binding	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:0043565	GO-mf	Annotation by Michelle Graham. GO Molecular Function: sequence-specific DNA binding	SoyBase	N/A	ISS
KOG1659	KOG	Class 2 transcription repressor NC2, alpha subunit (DRAP1)	JGI		ISS
PTHR10252	Panther	HISTONE-LIKE TRANSCRIPTION FACTOR CCAAT-RELATED	JGI		ISS
PTHR10252:SF5	Panther	NEGATIVE COFACTOR 2 TRANSCRIPTIONAL CO-REPRESSOR (NC2)	JGI		ISS
PF00808	PFAM	Histone-like transcription factor (CBF/NF-Y) and archaeal histone	JGI		ISS
UniRef100_I1M0K0	UniRef	Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=I1M0K0_SOYBN	SoyBase	E_val: 0	ISS
UniRef100_I3TAY5	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: Nuclear transcription factor Y subunit C8 n=1 Tax=Medicago truncatula RepID=I3TAY5_MEDTR	SoyBase	E_val: 4.00E-128	ISS

Expression Patterns of Glyma13g25860

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 Glyma13g25860

Paralog	Evidence	Comments
Glyma15g36170	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 Glyma13g25860 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.13g189400	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma13g25860

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

Coding sequences of Glyma13g25860

Limit To All Plant Sequences

>Glyma13g25860.1   sequence type=CDS   gene model=Glyma13g25860   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGAGGAAGAAGCTCGATACCCGTTTCCCTGCTGCTCGGATAAAGAAGATAATGCAAGCTGATGAGGATGTTGGAAAGATAGCACTCGCTGTGCCTGTTTTAGTTTCTAAAGCTCTAGAACTATTTTTGCAAGATCTTTGTGACCGCACTTATGAAATAACTCTTCAAAGAGGAGCAAAGACCATGAATTCATTGCATTTAAAACATTGTGTACAAAGCTATAATGTCTTTGACTTTCTGAGGGACGTTGTTAGCAGGGTTCCTGACTACAGCCATGGCCATGGCCATGCTGAGGCTGGTCCTGATGATCGGGCCATTGCAAAAAGAAGGAAAGCTGTTGGTGATGATGGTAATGACAGTGATGAAGAGGCTAAGAGGAGCAAGATGCATGAGTTGGGCCACACTGGCAGTACTGGTAGGGGAAGAGGCCGAGGTAGAGGAAGAGGCCGTGGCCGAGGGCGACCACCTTTAAATAGAGAGATATATCATCAGGATGCTGAATCTGAGCCTTGCACTTCTGTTCAGCCAAGCAACCCACAAAATACAAACACAAGTGTTGCAATGGATAGTGGTTCTGAGTCAAAGGAAATACCAAAGGAGCAGAACATTGCAGTTCCTGTTGAAAGCACTGATTCGCTCCGGAACATCGATCTGAATGCCATTACGAATGAAAACGATGACAAAAAGGCTAGCGCAGCAGCGGATGCCTCTGTGCCTGAACCTCCAACAGAGAGCAAGCATGAAGAAATTCCAGGGTGGTCTCTTTCTGATGTGGACAAGATGGCCATTGATTCGCTGCAGCTTGCACAACTTGGTAGGCCACTAGAAGAGGATGAAGAAGACTATGATGAAGAGGAGGGGTAA

Predicted protein sequences of Glyma13g25860

Limit To All Plant Sequences

>Glyma13g25860.1   sequence type=predicted peptide   gene model=Glyma13g25860   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MRKKLDTRFPAARIKKIMQADEDVGKIALAVPVLVSKALELFLQDLCDRTYEITLQRGAKTMNSLHLKHCVQSYNVFDFLRDVVSRVPDYSHGHGHAEAGPDDRAIAKRRKAVGDDGNDSDEEAKRSKMHELGHTGSTGRGRGRGRGRGRGRGRPPLNREIYHQDAESEPCTSVQPSNPQNTNTSVAMDSGSESKEIPKEQNIAVPVESTDSLRNIDLNAITNENDDKKASAAADASVPEPPTESKHEEIPGWSLSDVDKMAIDSLQLAQLGRPLEEDEEDYDEEEG*

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