Glyma13g28620 - SoyBase

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Report for Sequence Feature Glyma13g28620

Feature Type:	gene_model
Chromosome:	Gm13
Start:	31630501
stop:	31635634
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma13g28620

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT2G47900	AT	Annotation by Michelle Graham. TAIR10: tubby like protein 3 \| chr2:19611196-19612766 REVERSE LENGTH=407	SoyBase	E_val: 0	ISS
GO:0006355	GO-bp	Annotation by Michelle Graham. GO Biological Process: regulation of transcription, DNA-dependent	SoyBase	N/A	ISS
GO:0009620	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to fungus	SoyBase	N/A	ISS
GO:0009651	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to salt stress	SoyBase	N/A	ISS
GO:0042542	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to hydrogen peroxide	SoyBase	N/A	ISS
GO:0043687	GO-bp	Annotation by Michelle Graham. GO Biological Process: post-translational protein modification	SoyBase	N/A	ISS
GO:0045893	GO-bp	Annotation by Michelle Graham. GO Biological Process: positive regulation of transcription, DNA-dependent	SoyBase	N/A	ISS
GO:0071470	GO-bp	Annotation by Michelle Graham. GO Biological Process: cellular response to osmotic stress	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:0005886	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: plasma membrane	SoyBase	N/A	ISS
GO:0009536	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: plastid	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:0008081	GO-mf	Annotation by Michelle Graham. GO Molecular Function: phosphoric diester hydrolase activity	SoyBase	N/A	ISS
KOG2502	KOG	Tub family proteins	JGI		ISS
PTHR16517	Panther	TUBBY-RELATED	JGI		ISS
PTHR16517:SF7	Panther	TUBBY-LIKE PROTEIN	JGI		ISS
PF00646	PFAM	F-box domain	JGI		ISS
PF01167	PFAM	Tub family	JGI		ISS
UniRef100_G7ISK0	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: Tubby-like F-box protein n=1 Tax=Medicago truncatula RepID=G7ISK0_MEDTR	SoyBase	E_val: 0	ISS
UniRef100_I1M1B9	UniRef	Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=I1M1B9_SOYBN	SoyBase	E_val: 0	ISS

Expression Patterns of Glyma13g28620

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 Glyma13g28620

Paralog	Evidence	Comments
Glyma15g10490	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 Glyma13g28620 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.13g214900	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma13g28620

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

Transcripts of Glyma13g28620

Limit To All Plant Sequences

>Glyma13g28620.2   sequence type=transcript   gene model=Glyma13g28620   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
CCATTGTCATATGATATACTTGGTCAAAAAGGTTAAAGGAGAGGTCACTCTTTTGGGCAAATTGAGGGGTGCCCGAAGATGCCTCTTTGGAGTGGAATGCTTTGATTTGTTTGTATTTCCCTACTCTCCATGCCTGGCCCAAGGGAGAATCTCCTACGGTGCTTTATAAAGCGCAACCGGTCCACCCAAACATACTATTTGTTTCTCAGTTTAACCAGTACGCTAGCTGAAGATGGGAAGTTCCTTCTTGCTGCACGCAAATGCAGACGTCCAACCTGCACAGATTATATCATCTCTCTTGACGCAGATGATATGTCAAAGGGAAGCAACTCCTATGTTGGGAAACTAAGATCAAACTTTCTTGGAACAAAGTTCACAATCTATGATAGCCAGCTGCCTCATACAGGAGCAAAGATTATGAAAAGTCGCTCCACAAGGCTGGTGAATCTAAAGCAAGTTTCACCCAAGGTTCCTACAGGCAACTATCCAGTGGCCCATATTTCATATGAATTGAATGTGCTAGGCTCAAGGGGTCCTAGGAGAATGCATTGTGTCATGGATTCCATTCCTGCCACTGCAATTGAACCTGGAGGTGTAGCACCTACACAGACTGAGTTTTCTCTTAACAACATAGACATGTTTCCTTCATTCCCCTTTTTTCGATCAAAATCAAATCGTGCGGAAAATTCCATGTCTGGACCATTGGTTGATCAAAAGGATGGGATGCTAGTGTTGAAAAACAAGGCCCCTAGGTGGCATGAGCAGCTGCAATGTTGGTGCCTGAACTTTCATGGACGGGTGACAATTGCCTCAGTTAAAAACTTTCAGCTGGTGGCTTCTGCAGAAAACGGACCTGCTGGACCAGAACACGATAAGATCATCCTCCAATTTGGAAAAGTTGGGAAGGATTTGTTTACAATGGATTACCGGTACCCTATCTCGGCATTTCAGGCATTTGCAATCTGCCTCAGCAGTTTTGATACCAAGATTGCTTGTGAATGACATGTTTAAACAGTTTCAATCCAGATTATATAGCTATATCTCTTGCTGCTTGGAGAAGTATGGCTTGAATGTCACTTGTTGGGAAGCAGAAAGATGAAAAATGTTTGTCAAGGTAAAGATTGGTTGGATGAGCATTGAACTGAATTCGAAAAAACCATTCAGTTTCTGGGATCACAATTTACCAGCTCTTGGGAAGATAACATAAAATTGGAATGTTACTTGAAACTCCTCCACCATATCCCACAAAACAAAACACAAAAACGGGAAAAATACATTTATTCAGACCCCCGTGTACATAAATTCTCTATTTCTTTCAACAGTTTGGTTGTTTATTGTAATGTAGTAGTGGTTGTTTATAACATGTCCATGCAAGACATGTTTTGTTAATGTGACTACTAGCTTTCAACTTATCCTTTCATGAGAACATTTTGTGTTGGGGGGGACTCTTGCAAGAACACAAGCAGAAGCAACTTGCTATGTGCAACTCCTTTCGTTCCGTAATCCACTCTTGACTTGGTCTTTCCAAAACAGTAACACTGTTCTAATACAGTGCATGTCACGAGGGATAAATGCCACTTGCTGTATTATTCTCTTGACTAAGGAATAAACCCTCCTTGGCTTTGTATAACAGATTATGTTATATTTACAAATTATAACCACTGTCTT

Coding sequences of Glyma13g28620

Limit To All Plant Sequences

>Glyma13g28620.1   sequence type=CDS   gene model=Glyma13g28620   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGGCCTAATCAGAAGCATGAGATCGCGGTCACAGCGTGTGGTGCAGGAGCAAGAAGCTGCTGAGTGTGTCGGTGTCGTCGTCGGCGACAGCATGCGACAGAGTTGTTGGGCCAACATGCCCCAAGAGCTTCTCCGAGAGGTCCTCCTCCGAATCGAGGCCTCCGAGGACACGTGGCCGCCGCGGAAGAGCGTCGTCTCCTGCGCCGGCGTCTGCCGCAGCTGGAGACATATCACCAAAGACATTGTCAAAACGCCCGAACTCTCCTCCAAGATCACCTTCCCCATTTCTGTTAAACAGCCTGGCCCAAGGGAGAATCTCCTACGGTGCTTTATAAAGCGCAACCGGTCCACCCAAACATACTATTTGTTTCTCAGTTTAACCAGTACGCTAGCTGAAGATGGGAAGTTCCTTCTTGCTGCACGCAAATGCAGACGTCCAACCTGCACAGATTATATCATCTCTCTTGACGCAGATGATATGTCAAAGGGAAGCAACTCCTATGTTGGGAAACTAAGATCAAACTTTCTTGGAACAAAGTTCACAATCTATGATAGCCAGCTGCCTCATACAGGAGCAAAGATTATGAAAAGTCGCTCCACAAGGCTGGTGAATCTAAAGCAAGTTTCACCCAAGGTTCCTACAGGCAACTATCCAGTGGCCCATATTTCATATGAATTGAATGTGCTAGGCTCAAGGGGTCCTAGGAGAATGCATTGTGTCATGGATTCCATTCCTGCCACTGCAATTGAACCTGGAGGTGTAGCACCTACACAGACTGAGTTTTCTCTTAACAACATAGACATGTTTCCTTCATTCCCCTTTTTTCGATCAAAATCAAATCGTGCGGAAAATTCCATGTCTGGACCATTGGTTGATCAAAAGGATGGGATGCTAGTGTTGAAAAACAAGGCCCCTAGGTGGCATGAGCAGCTGCAATGTTGGTGCCTGAACTTTCATGGACGGGTGACAATTGCCTCAGTTAAAAACTTTCAGCTGGTGGCTTCTGCAGAAAACGGACCTGCTGGACCAGAACACGATAAGATCATCCTCCAATTTGGAAAAGTTGGGAAGGATTTGTTTACAATGGATTACCGGTACCCTATCTCGGCATTTCAGGCATTTGCAATCTGCCTCAGCAGTTTTGATACCAAGATTGCTTGTGAATGA

>Glyma13g28620.2   sequence type=CDS   gene model=Glyma13g28620   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGCCTGGCCCAAGGGAGAATCTCCTACGGTGCTTTATAAAGCGCAACCGGTCCACCCAAACATACTATTTGTTTCTCAGTTTAACCAGTACGCTAGCTGAAGATGGGAAGTTCCTTCTTGCTGCACGCAAATGCAGACGTCCAACCTGCACAGATTATATCATCTCTCTTGACGCAGATGATATGTCAAAGGGAAGCAACTCCTATGTTGGGAAACTAAGATCAAACTTTCTTGGAACAAAGTTCACAATCTATGATAGCCAGCTGCCTCATACAGGAGCAAAGATTATGAAAAGTCGCTCCACAAGGCTGGTGAATCTAAAGCAAGTTTCACCCAAGGTTCCTACAGGCAACTATCCAGTGGCCCATATTTCATATGAATTGAATGTGCTAGGCTCAAGGGGTCCTAGGAGAATGCATTGTGTCATGGATTCCATTCCTGCCACTGCAATTGAACCTGGAGGTGTAGCACCTACACAGACTGAGTTTTCTCTTAACAACATAGACATGTTTCCTTCATTCCCCTTTTTTCGATCAAAATCAAATCGTGCGGAAAATTCCATGTCTGGACCATTGGTTGATCAAAAGGATGGGATGCTAGTGTTGAAAAACAAGGCCCCTAGGTGGCATGAGCAGCTGCAATGTTGGTGCCTGAACTTTCATGGACGGGTGACAATTGCCTCAGTTAAAAACTTTCAGCTGGTGGCTTCTGCAGAAAACGGACCTGCTGGACCAGAACACGATAAGATCATCCTCCAATTTGGAAAAGTTGGGAAGGATTTGTTTACAATGGATTACCGGTACCCTATCTCGGCATTTCAGGCATTTGCAATCTGCCTCAGCAGTTTTGATACCAAGATTGCTTGTGAATGA

Predicted protein sequences of Glyma13g28620

Limit To All Plant Sequences

>Glyma13g28620.1   sequence type=predicted peptide   gene model=Glyma13g28620   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MGLIRSMRSRSQRVVQEQEAAECVGVVVGDSMRQSCWANMPQELLREVLLRIEASEDTWPPRKSVVSCAGVCRSWRHITKDIVKTPELSSKITFPISVKQPGPRENLLRCFIKRNRSTQTYYLFLSLTSTLAEDGKFLLAARKCRRPTCTDYIISLDADDMSKGSNSYVGKLRSNFLGTKFTIYDSQLPHTGAKIMKSRSTRLVNLKQVSPKVPTGNYPVAHISYELNVLGSRGPRRMHCVMDSIPATAIEPGGVAPTQTEFSLNNIDMFPSFPFFRSKSNRAENSMSGPLVDQKDGMLVLKNKAPRWHEQLQCWCLNFHGRVTIASVKNFQLVASAENGPAGPEHDKIILQFGKVGKDLFTMDYRYPISAFQAFAICLSSFDTKIACE*

>Glyma13g28620.2   sequence type=predicted peptide   gene model=Glyma13g28620   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MPGPRENLLRCFIKRNRSTQTYYLFLSLTSTLAEDGKFLLAARKCRRPTCTDYIISLDADDMSKGSNSYVGKLRSNFLGTKFTIYDSQLPHTGAKIMKSRSTRLVNLKQVSPKVPTGNYPVAHISYELNVLGSRGPRRMHCVMDSIPATAIEPGGVAPTQTEFSLNNIDMFPSFPFFRSKSNRAENSMSGPLVDQKDGMLVLKNKAPRWHEQLQCWCLNFHGRVTIASVKNFQLVASAENGPAGPEHDKIILQFGKVGKDLFTMDYRYPISAFQAFAICLSSFDTKIACE*

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