Glyma04g39890 - SoyBase

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Report for Sequence Feature Glyma04g39890

Feature Type:	gene_model
Chromosome:	Gm04
Start:	46052442
stop:	46055930
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma04g39890

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT3G10940	AT	Annotation by Michelle Graham. TAIR10: dual specificity protein phosphatase (DsPTP1) family protein \| chr3:3422259-3423394 REVERSE LENGTH=282	SoyBase	E_val: 5.00E-139	ISS
GO:0000023	GO-bp	Annotation by Michelle Graham. GO Biological Process: maltose metabolic process	SoyBase	N/A	ISS
GO:0005983	GO-bp	Annotation by Michelle Graham. GO Biological Process: starch catabolic process	SoyBase	N/A	ISS
GO:0006470	GO-bp	Annotation by Michelle Graham. GO Biological Process: protein dephosphorylation	SoyBase	N/A	ISS
GO:0019252	GO-bp	Annotation by Michelle Graham. GO Biological Process: starch biosynthetic process	SoyBase	N/A	ISS
GO:0043085	GO-bp	Annotation by Michelle Graham. GO Biological Process: positive regulation of catalytic activity	SoyBase	N/A	ISS
GO:0005737	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: cytoplasm	SoyBase	N/A	ISS
GO:0009507	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: chloroplast	SoyBase	N/A	ISS
GO:0008138	GO-mf	Annotation by Michelle Graham. GO Molecular Function: protein tyrosine/serine/threonine phosphatase activity	SoyBase	N/A	ISS
GO:0019203	GO-mf	Annotation by Michelle Graham. GO Molecular Function: carbohydrate phosphatase activity	SoyBase	N/A	ISS
GO:0050308	GO-mf	Annotation by Michelle Graham. GO Molecular Function: sugar-phosphatase activity	SoyBase	N/A	ISS
GO:2001070	GO-mf	Annotation by Michelle Graham. GO Molecular Function: starch binding	SoyBase	N/A	ISS
KOG1716	KOG	Dual specificity phosphatase	JGI		ISS
PTHR10343	Panther	5'-AMP-ACTIVATED PROTEIN KINASE , BETA SUBUNIT	JGI		ISS
PTHR10343:SF15	Panther	ATPTPKIS1/DSP4/SEX4 (STARCH-EXCESS 4), POLYSACCHAR	JGI		ISS
PF00782	PFAM	Dual specificity phosphatase, catalytic domain	JGI		ISS
UniRef100_B9S4C7	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: Dual specificity protein phosphatase, putative n=1 Tax=Ricinus communis RepID=B9S4C7_RICCO	SoyBase	E_val: 2.00E-146	ISS
UniRef100_I1JYA3	UniRef	Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=I1JYA3_SOYBN	SoyBase	E_val: 0	ISS

Expression Patterns of Glyma04g39890

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 Glyma04g39890

Paralog	Evidence	Comments
Glyma06g15000	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 Glyma04g39890 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.04g220900	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma04g39890

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

Transcripts of Glyma04g39890

Limit To All Plant Sequences

>Glyma04g39890.4   sequence type=transcript   gene model=Glyma04g39890   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
GAACGAGTGATTGATAGACAGTGTAGGACTTCCTTGCTCCAATATCCAAGGTTGTTTTGGTCATTATAGTTCAACATCATGTTACATAAGAACAGCCTAGAACCAACCCGACACGAGCAAAGAGAGATGGGAACCGTTAGTAACATTGGCTTCCCTTCACTATTCAGAGTTCATCTAGATTCACAAGTACTATCAAAGCATATGAAGAATAAATCATCGTGCGATTTTATGGTTCCTTCTAATCATAACTACTCTGTTAGGCTGAGTCCAATATGTTGTAAGCTATCAGAAAGTGGGATTGAGGAGAACCACACGAGCACGAGCACGGGCGAGAGGCCCTCTAAGATCAAGGACAGGATGGAGGAGTACAATATAGCTATGAAGAAAATGATGAGGAACCCTTATGAGTATCACCATGATCTGGGTATGAATTATACTCTTATAACGGACAATTTGATTGTTGGCTCCCAACCACAGAAACCTGAAGACATAGATCACCTCAAAAAGGAAGAGGGTGTGGCATACATTTTAAACTTGCAACAAGATAACGATGTTGAGTATTGGGGAGTAGACTTGCAGTCAATAATAAGAAGGTCTCGTGAACTTGAAATTAGCCACACAAGGAGACCGGCAAAAGACTTTGATCCAGATTCCTTGCAAAATGAACTACCTAAAGCAGTCTCATCCTTAGAATGGGCAATTTCTGAGGGAAAAGGAAGAGTTTATGTGCATTGTACGGCTGGACTTGGAAGAGCTCCAGCGGTGGCAATTGCTTATTTGTTCTGGTTTTGTGACATGAATCTAAATGAAGCATATGATATGCTAACTTCAAAGAGACCTTGTGGACCAAATAAAAGAGCAATACGTGGCGCTACTTATGATTTGGCTAAGAATGATCCTTGGAAGGAGCCATTTGAGACTCTTCCAGAATATGCATTTGAGGATATAGCAGATTGGGAAAGGAACTTGATTCAAGATCGTGCCCGCTCCCTTCGTGGAATTTGACAACTTCGGTTTCTACTTATCTGAGATTCCTACATAGGTTGCCACCCTTGCTGGGATGGTATCAGGTGCCATGATACTGCTCAAGTTGGAGATATTTTTTCAAGCATATTCATACTGATATGGGCACATAGCTTACAACGTGTACGAAATATTCAGTATAGTACAGACTATAGAGTGGTAAATAATCAATTTTGCGAATAATGCACCATAATTGTAGACGTCCTAATAATATCTGAGAGTGCAAAATGCCTAGTTGATCTATTGGTCTGTCAATTCTAAATAGTGTCAAAATGATGTATATAAGTAGAGGATAACCTTTATTTTTATTTTATGACGATAACTTTTGGGGTTGAGTTAACATAAACCCAAATTATGCTGGTATCATAGATCCATTAGCAGTATCATGATGATTCA

Coding sequences of Glyma04g39890

Limit To All Plant Sequences

>Glyma04g39890.3   sequence type=CDS   gene model=Glyma04g39890   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGTTACATAAGAACAGCCTAGAACCAACCCGACACGAGCAAAGAGAGATGGGAACCGTTAGTAACATTGGCTTCCCTTCACTATTCAGAGTTCATCTAGATTCACAAGTACTATCAAAGCATATGAAGAATAAATCATCGTGCGATTTTATGGTTCCTTCTAATCATAACTACTCTGTTAGGCTGAGTCCAATATGTTGTAAGCTATCAGAAAGTGGGATTGAGGAGAACCACACGAGCACGAGCACGGGCGAGAGGCCCTCTAAGATCAAGGACAGGATGGAGGAGTACAATATAGCTATGAAGAAAATGATGAGGAACCCTTATGAGTATCACCATGATCTGGGTATGAATTATACTCTTATAACGGACAATTTGATTGTTGGCTCCCAACCACAGAAACCTGAAGACATAGATCACCTCAAAAAGGAAGAGGGTGTGGCATACATTTTAAACTTGCAACAAGATAACGATGTTGAGTATTGGGGAGTAGACTTGCAGTCAATAATAAGAAGGTCTCGTGAACTTGAAATTAGCCACACAAGGAGACCGGCAAAAGACTTTGATCCAGATTCCTTGCAAAATGAACTACCTAAAGCAGTCTCATCCTTAGAATGGGCAATTTCTGAGGGAAAAGGAAGAGTTTATGTGCATTGTACGGCTGGACTTGGAAGAGCTCCAGCGGTGGCAATTGCTTATTTGTTCTGGTTTTGTGACATGAATCTAAATGAAGCATATGATATGCTAACTTCAAAGAGACCTTGTGGACCAAATAAAAGAGCAATACGTGGCGCTACTTATGATTTGGCTAAGAATGATCCTTGGAAGGAGCCATTTGAGACTCTTCCAGAATATGCATTTGAGGATATAGCAGATTGGGAAAGGAACTTGATTCAAGATCGTGCCCGCTCCCTTCGTGGAATTTGA

>Glyma04g39890.4   sequence type=CDS   gene model=Glyma04g39890   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGTTACATAAGAACAGCCTAGAACCAACCCGACACGAGCAAAGAGAGATGGGAACCGTTAGTAACATTGGCTTCCCTTCACTATTCAGAGTTCATCTAGATTCACAAGTACTATCAAAGCATATGAAGAATAAATCATCGTGCGATTTTATGGTTCCTTCTAATCATAACTACTCTGTTAGGCTGAGTCCAATATGTTGTAAGCTATCAGAAAGTGGGATTGAGGAGAACCACACGAGCACGAGCACGGGCGAGAGGCCCTCTAAGATCAAGGACAGGATGGAGGAGTACAATATAGCTATGAAGAAAATGATGAGGAACCCTTATGAGTATCACCATGATCTGGGTATGAATTATACTCTTATAACGGACAATTTGATTGTTGGCTCCCAACCACAGAAACCTGAAGACATAGATCACCTCAAAAAGGAAGAGGGTGTGGCATACATTTTAAACTTGCAACAAGATAACGATGTTGAGTATTGGGGAGTAGACTTGCAGTCAATAATAAGAAGGTCTCGTGAACTTGAAATTAGCCACACAAGGAGACCGGCAAAAGACTTTGATCCAGATTCCTTGCAAAATGAACTACCTAAAGCAGTCTCATCCTTAGAATGGGCAATTTCTGAGGGAAAAGGAAGAGTTTATGTGCATTGTACGGCTGGACTTGGAAGAGCTCCAGCGGTGGCAATTGCTTATTTGTTCTGGTTTTGTGACATGAATCTAAATGAAGCATATGATATGCTAACTTCAAAGAGACCTTGTGGACCAAATAAAAGAGCAATACGTGGCGCTACTTATGATTTGGCTAAGAATGATCCTTGGAAGGAGCCATTTGAGACTCTTCCAGAATATGCATTTGAGGATATAGCAGATTGGGAAAGGAACTTGATTCAAGATCGTGCCCGCTCCCTTCGTGGAATTTGA

Predicted protein sequences of Glyma04g39890

Limit To All Plant Sequences

>Glyma04g39890.3   sequence type=predicted peptide   gene model=Glyma04g39890   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MLHKNSLEPTRHEQREMGTVSNIGFPSLFRVHLDSQVLSKHMKNKSSCDFMVPSNHNYSVRLSPICCKLSESGIEENHTSTSTGERPSKIKDRMEEYNIAMKKMMRNPYEYHHDLGMNYTLITDNLIVGSQPQKPEDIDHLKKEEGVAYILNLQQDNDVEYWGVDLQSIIRRSRELEISHTRRPAKDFDPDSLQNELPKAVSSLEWAISEGKGRVYVHCTAGLGRAPAVAIAYLFWFCDMNLNEAYDMLTSKRPCGPNKRAIRGATYDLAKNDPWKEPFETLPEYAFEDIADWERNLIQDRARSLRGI*

>Glyma04g39890.4   sequence type=predicted peptide   gene model=Glyma04g39890   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MLHKNSLEPTRHEQREMGTVSNIGFPSLFRVHLDSQVLSKHMKNKSSCDFMVPSNHNYSVRLSPICCKLSESGIEENHTSTSTGERPSKIKDRMEEYNIAMKKMMRNPYEYHHDLGMNYTLITDNLIVGSQPQKPEDIDHLKKEEGVAYILNLQQDNDVEYWGVDLQSIIRRSRELEISHTRRPAKDFDPDSLQNELPKAVSSLEWAISEGKGRVYVHCTAGLGRAPAVAIAYLFWFCDMNLNEAYDMLTSKRPCGPNKRAIRGATYDLAKNDPWKEPFETLPEYAFEDIADWERNLIQDRARSLRGI*

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