Glyma04g12530 - SoyBase

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Report for Sequence Feature Glyma04g12530

Feature Type:	gene_model
Chromosome:	Gm04
Start:	11648525
stop:	11653622
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma04g12530

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT3G13350	AT	Annotation by Michelle Graham. TAIR10: HMG (high mobility group) box protein with ARID/BRIGHT DNA-binding domain \| chr3:4335721-4337804 REVERSE LENGTH=319	SoyBase	E_val: 2.00E-94	ISS
GO:0006333	GO-bp	Annotation by Michelle Graham. GO Biological Process: chromatin assembly or disassembly	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: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
KOG0381	KOG	HMG box-containing protein	JGI		ISS
PTHR13711	Panther	SWI/SNF-RELATED CHROMATIN BINDING PROTEIN	JGI		ISS
PTHR13711:SF39	Panther	HIGH MOBILITY GROUP PROTEIN HMG-2A,4	JGI		ISS
PF00505	PFAM	HMG (high mobility group) box	JGI		ISS
PF01388	PFAM	ARID/BRIGHT DNA binding domain	JGI		ISS
UniRef100_B9T0J7	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: Transcription factor, putative n=1 Tax=Ricinus communis RepID=B9T0J7_RICCO	SoyBase	E_val: 4.00E-108	ISS
UniRef100_I1KFV6	UniRef	Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=I1KFV6_SOYBN	SoyBase	E_val: 0	ISS

Expression Patterns of Glyma04g12530

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 Glyma04g12530

Paralog	Evidence	Comments
Glyma06g48010	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 Glyma04g12530 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.04g113000	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma04g12530

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

Transcripts of Glyma04g12530

Limit To All Plant Sequences

>Glyma04g12530.2   sequence type=transcript   gene model=Glyma04g12530   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATTTTATTCTTTGTTTCACCTACATTGATTACATCTAATTTTATTCATATTATACCAAATCAAACATACCACCACCCTAAAATACCATAAGTGCAGAGCAGATGCAGTATATAAAGGCTGTTTTATATAAGTATATAACCTATGGTTTTGCAATAATCCAAAGGAATTGAAATTGTCATAAGGTAAGGTGTGTGAATTTATACATACATAGATTAAGGATTTAGGACCAAAGAGGGAGATATGAATGTGACAAATAAGCCAAACCCAGATGGTTCCACCAATGGGTTTCAGTCTCAGCTTCAAGTTCAACAACAAAATGGGTGGGAGCAGGGATCATCTAGACTCAGACCCACTAAACCTTACCCTGCACCAACGGCTCGGTACCAGGACATTGTTCGTGATGCAAACCTCTTCTGGGGAACGCTTCAAGCTTTTCACAAAATACTTGGCACCAAATACAAGGTTGCTACTGTGGGAGGAACGTCACTTGATCTACATCGCCTTTTTGTCGAAGTTACATCTCGTGGTGGGATTGAAAAGGTGATTGTTGATCGTAAGTGGAAGGAAGTGATTCTGACCTTCAATTTCAAAGATACCATAACGAGTGCATCATTTGTGGTGCGCAAATCCTATCTATCGATGCTTTATCACTATGAGCAAGTGTATTATTTTGGGAGGCAAGGCATTCCTCCCCCAACACCTGATCTTATGATTAGAGGCCAATCAGGCCAACCCTATAGCTCCACAACCATTCCAGAAGTTGCTGCTGTGAATGATTCACCTGTTCAGAGTACTCCAGTACAGGCACATGATGATATGGTTTCTGGAACAATTGATGCGAAATTTGATGGTGGATATGTAGTTACAGTGATTCTAGGTTCTGAGCAGCTGAAAGGTGTCCTGTTTCATGTTCCTGATAATGTGTCCCAGAGTTCTCATGCCGAAGGCACATCTAGTTCACAGAATCTTGGTGATGGCACATCTAATTCACAGAGTCGAAAGAGAGCAAAATATGCTCCACGTGATCCATTTCGGCCAAAGTCGAACAGGAGCGGTTACAACTTTTTCTTTGCTGAGAATTATGCCAGGCTGAAGCCCTCATATCATGGGCAGGAGAGAGCAATTAGTAAGAGGATTGGGTTTCTATGGAACAATCTGTCAGAAGCTGAAAGACAGGTTTATCAAGAGAAAGGGATGAGAGATAAGGAAAGATACAGGACTGAACTGATGGAGTACAAATCCAATAATTCAACTCCAAATGCTCAATAGGCTGTTTTATGTAATCCTTAGATTGCCATTTCATATGTTTTTTCTTTTGTTCTTTTCCATTTTATATGTTTGTTATAGTTCATTTTCTTATCATTCTGCATAGAAGCTTAGAAAGAGTAGCTTTGTGACAATTCTGGTGTAAATTAGGCTAAATGGTTTTAATAAACATCTTGTAGCAGTTCATTTATTGTTGTTGCTCTAAAACCAATGGTTCTTCATTCAATTTAAACATGTTATTTGTATGTTTACATTCCATTTGTGATATGGTAATCTTGTCACCCCGAGATGCTCATTAGTTTTAGAGGTAT

Coding sequences of Glyma04g12530

Limit To All Plant Sequences

>Glyma04g12530.1   sequence type=CDS   gene model=Glyma04g12530   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGAATGTGACAAATAAGCCAAACCCAGATGGTTCCACCAATGGGTTTCAGTCTCAGCTTCAAGTTCAACAACAAAATGGGTGGGAGCAGGGATCATCTAGACTCAGACCCACTAAACCTTACCCTGCACCAACGGCTCGGTACCAGGACATTGTTCGTGATGCAAACCTCTTCTGGGGAACGCTTCAAGCTTTTCACAAAATACTTGGCACCAAATACAAGGTTGCTACTGTGGGAGGAACGTCACTTGATCTACATCGCCTTTTTGTCGAAGTTACATCTCGTGGTGGGATTGAAAAGGTGATTGTTGATCGTAAGTGGAAGGAAGTGATTCTGACCTTCAATTTCAAAGATACCATAACGAGTGCATCATTTGTGGTGCGCAAATCCTATCTATCGATGCTTTATCACTATGAGCAAGTGTATTATTTTGGGAGGCAAGGCATTCCTCCCCCAACACCTGGTACTCCAGTACAGGCACATGATGATATGGTTTCTGGAACAATTGATGCGAAATTTGATGGTGGATATGTAGTTACAGTGATTCTAGGTTCTGAGCAGCTGAAAGGTGTCCTGTTTCATGTTCCTGATAATGTGTCCCAGAGTTCTCATGCCGAAGGCACATCTAGTTCACAGAATCTTGGTGATGGCACATCTAATTCACAGAGTCGAAAGAGAGCAAAATATGCTCCACGTGATCCATTTCGGCCAAAGTCGAACAGGAGCGGTTACAACTTTTTCTTTGCTGAGAATTATGCCAGGCTGAAGCCCTCATATCATGGGCAGGAGAGAGCAATTAGTAAGAGGATTGGGTTTCTATGGAACAATCTGTCAGAAGCTGAAAGACAGGTTTATCAAGAGAAAGGGATGAGAGATAAGGAAAGATACAGGACTGAACTGATGGAGTACAAATCCAATAATTCAACTCCAAATGCTCAATAG

>Glyma04g12530.2   sequence type=CDS   gene model=Glyma04g12530   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGAATGTGACAAATAAGCCAAACCCAGATGGTTCCACCAATGGGTTTCAGTCTCAGCTTCAAGTTCAACAACAAAATGGGTGGGAGCAGGGATCATCTAGACTCAGACCCACTAAACCTTACCCTGCACCAACGGCTCGGTACCAGGACATTGTTCGTGATGCAAACCTCTTCTGGGGAACGCTTCAAGCTTTTCACAAAATACTTGGCACCAAATACAAGGTTGCTACTGTGGGAGGAACGTCACTTGATCTACATCGCCTTTTTGTCGAAGTTACATCTCGTGGTGGGATTGAAAAGGTGATTGTTGATCGTAAGTGGAAGGAAGTGATTCTGACCTTCAATTTCAAAGATACCATAACGAGTGCATCATTTGTGGTGCGCAAATCCTATCTATCGATGCTTTATCACTATGAGCAAGTGTATTATTTTGGGAGGCAAGGCATTCCTCCCCCAACACCTGATCTTATGATTAGAGGCCAATCAGGCCAACCCTATAGCTCCACAACCATTCCAGAAGTTGCTGCTGTGAATGATTCACCTGTTCAGAGTACTCCAGTACAGGCACATGATGATATGGTTTCTGGAACAATTGATGCGAAATTTGATGGTGGATATGTAGTTACAGTGATTCTAGGTTCTGAGCAGCTGAAAGGTGTCCTGTTTCATGTTCCTGATAATGTGTCCCAGAGTTCTCATGCCGAAGGCACATCTAGTTCACAGAATCTTGGTGATGGCACATCTAATTCACAGAGTCGAAAGAGAGCAAAATATGCTCCACGTGATCCATTTCGGCCAAAGTCGAACAGGAGCGGTTACAACTTTTTCTTTGCTGAGAATTATGCCAGGCTGAAGCCCTCATATCATGGGCAGGAGAGAGCAATTAGTAAGAGGATTGGGTTTCTATGGAACAATCTGTCAGAAGCTGAAAGACAGGTTTATCAAGAGAAAGGGATGAGAGATAAGGAAAGATACAGGACTGAACTGATGGAGTACAAATCCAATAATTCAACTCCAAATGCTCAATAG

Predicted protein sequences of Glyma04g12530

Limit To All Plant Sequences

>Glyma04g12530.1   sequence type=predicted peptide   gene model=Glyma04g12530   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MNVTNKPNPDGSTNGFQSQLQVQQQNGWEQGSSRLRPTKPYPAPTARYQDIVRDANLFWGTLQAFHKILGTKYKVATVGGTSLDLHRLFVEVTSRGGIEKVIVDRKWKEVILTFNFKDTITSASFVVRKSYLSMLYHYEQVYYFGRQGIPPPTPGTPVQAHDDMVSGTIDAKFDGGYVVTVILGSEQLKGVLFHVPDNVSQSSHAEGTSSSQNLGDGTSNSQSRKRAKYAPRDPFRPKSNRSGYNFFFAENYARLKPSYHGQERAISKRIGFLWNNLSEAERQVYQEKGMRDKERYRTELMEYKSNNSTPNAQ*

>Glyma04g12530.2   sequence type=predicted peptide   gene model=Glyma04g12530   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MNVTNKPNPDGSTNGFQSQLQVQQQNGWEQGSSRLRPTKPYPAPTARYQDIVRDANLFWGTLQAFHKILGTKYKVATVGGTSLDLHRLFVEVTSRGGIEKVIVDRKWKEVILTFNFKDTITSASFVVRKSYLSMLYHYEQVYYFGRQGIPPPTPDLMIRGQSGQPYSSTTIPEVAAVNDSPVQSTPVQAHDDMVSGTIDAKFDGGYVVTVILGSEQLKGVLFHVPDNVSQSSHAEGTSSSQNLGDGTSNSQSRKRAKYAPRDPFRPKSNRSGYNFFFAENYARLKPSYHGQERAISKRIGFLWNNLSEAERQVYQEKGMRDKERYRTELMEYKSNNSTPNAQ*

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