Glyma05g04040 - SoyBase

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Report for Sequence Feature Glyma05g04040

Feature Type:	gene_model
Chromosome:	Gm05
Start:	3148459
stop:	3154401
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma05g04040

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT4G12080	AT	Annotation by Michelle Graham. TAIR10: AT-hook motif nuclear-localized protein 1 \| chr4:7239466-7241246 FORWARD LENGTH=356	SoyBase	E_val: 2.00E-126	ISS
GO:0016132	GO-bp	Annotation by Michelle Graham. GO Biological Process: brassinosteroid biosynthetic process	SoyBase	N/A	ISS
GO:0005634	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: nucleus	SoyBase	N/A	ISS
GO:0005730	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: nucleolus	SoyBase	N/A	ISS
GO:0005737	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: cytoplasm	SoyBase	N/A	ISS
GO:0005739	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: mitochondrion	SoyBase	N/A	ISS
GO:0003677	GO-mf	Annotation by Michelle Graham. GO Molecular Function: DNA binding	SoyBase	N/A	ISS
PF02178	PFAM	AT hook motif	JGI		ISS
PF03479	PFAM	Domain of unknown function (DUF296)	JGI		ISS
UniRef100_B9RBU6	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: DNA binding protein, putative n=1 Tax=Ricinus communis RepID=B9RBU6_RICCO	SoyBase	E_val: 1.00E-135	ISS
UniRef100_I1K0I8	UniRef	Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=I1K0I8_SOYBN	SoyBase	E_val: 0	ISS

Expression Patterns of Glyma05g04040

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 Glyma05g04040

Paralog	Evidence	Comments
Glyma17g14520	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 Glyma05g04040 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.05g053800	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma05g04040

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

Transcripts of Glyma05g04040

Limit To All Plant Sequences

>Glyma05g04040.2   sequence type=transcript   gene model=Glyma05g04040   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
TTTTTTTCCCTTTTGTCCATATTCACACATTATTTTATATTTTTAAAATGGGGAAAGAAAAAGAAAGCCCCTCCCAACAACTTTAATACTATTTTATACATTTCTCCACCAGATTCCAACCAAAACCAAATAATTATTTCCGTTAAAATATTATTTCCCGCATTAAATATTATTTCACTAAAATAATTTTTAATACCCCCAATTCAGTATATCTCCTTTTCCTCTCCTTTATTTTTTTAATCTCAATTTGGACAGTCTTAGGAAAGTTAGGAACCCAATTACCTGAACAACAAAAACAAAGGATTCATTTTATCTGGCCATTTTCATTTCCCTTGGAAACTAAATTTTTTTCAAATTTCACTCTTTCTTTCTGCACAATATTTTTCCCATCTATTTTTTTTCTCAAAACTCACATATTAGTATTTTCTCCCACAAAATTTCAGCTCATAATTTTTATTTTTCTGTTTCATCCAATCCTGCTCATTTATTTTTAATGACAAAATATACGCAAATGGTGCAAAGTTGAAGATTTTCCACATCTTGTTTCATGCCCAGCTCCTCAAGCTAGCTTTTGATTTTGATTTTTCTCATTTTCTGGCTTAAATTTTTCATCTTTTTCTATAAAAAAAATAAAATTCCCAGCAGCATAGTAGTAGAAGTTTTTGGTGATTGAGTTTGAAGAAGAAGAAGAAGCAAAAAAAAAAAAAAGAGAGATATTGATGTGTGGTTTTACTTTATGTTACGTGTGAGTGGTACTACTTCACAAGTGTTTGAACATGGAGGCCAGTGGCGGTGTTAGCAGCGGCGTTACGGTGGTGGGATCGGATGCTCCGTCGGACTACCATGTAGCTCCGAGGACCGACAACCCGGCTCCCGCAAGCGGATCCACGACGCAGATTCCTGCGACGGCGGGGAGTGCTCTGTCGCCGTCACATCCGCCTCACACGGCGGCGATGGAGGCGTATCCGGCGACGATGCCAGCGAAGAAGAAGAGGGGCCGGCCGAGAAAGTACGCACCGGACGGGTCGGTGACCATGGCGCTGTCTCCGAAGCCGATATCTTCCTCCGCTCCGTTGCCGCCGGTGATCGATTTCTCGTCGGAGAAGCGCGGAAAAATAAAACCAGCTAGCTCCGTGAGCAAAGCCAAATTCGAGTTGGAGAATTTAGGTGAATGGGTTGCATGCTCAGTTGGTGCTAATTTTACTCCCCATATCATCACTGTTAATTCTGGAGAGGATGTTACTATGAAGGTAATATCATTTTCTCAGCAAGGACCTCGAGCTATATGCATTCTTTCAGCTAATGGTGTCATATCAAGTGTCACACTTCGTCAGCCCGATTCTTCTGGGGGCACATTGACATATGAGGGACGGTTTGAGATTCTGTCATTGTCTGGCTCATTCATGCCCAATGAAAGTGGAGGAACACGAAGCAGATCCGGTGGCATGAGTGTATCTTTGGCTAGCCCTGATGGACGTGTTGTAGGTGGCGGAGTAGCTGGTCTGTTGGTGGCTGCAAGTCCTGTGCAGGTAGTGGTAGGAAGTTTTCTGGCAGGAAACCAACATGAGCAGAAGCCAAGAAAACAGAAACACGAGGTTATATCAAGTGTGACACCAGCTGCAGTTGTTCCAATCTCTACACTTGATCCAGTATCAATTCTATCAGCAGCGTCTTCCATCCGCAACGATAATTGGTCTGCTATGCCGGCAGAGGCCAAGGATAAGCCAGCTGACATTAACGTGTCGCTTCCTGCAGGGTTTGTCTTATGTAGATAAATGTGCCGTGAAGCTGGGTTTGGCATTTGCTTTGAATTATATTAATTTTGTCAACGG

Coding sequences of Glyma05g04040

Limit To All Plant Sequences

>Glyma05g04040.1   sequence type=CDS   gene model=Glyma05g04040   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGAGGCCAGTGGCGGTGTTAGCAGCGGCGTTACGGTGGTGGGATCGGATGCTCCGTCGGACTACCATGTAGCTCCGAGGACCGACAACCCGGCTCCCGCAAGCGGATCCACGACGCAGATTCCTGCGACGGCGGGGAGTGCTCTGTCGCCGTCACATCCGCCTCACACGGCGGCGATGGAGGCGTATCCGGCGACGATGCCAGCGAAGAAGAAGAGGGGCCGGCCGAGAAAGTACGCACCGGACGGGTCGGTGACCATGGCGCTGTCTCCGAAGCCGATATCTTCCTCCGCTCCGTTGCCGCCGGTGATCGATTTCTCGTCGGAGAAGCGCGGAAAAATAAAACCAGCTAGCTCCGTGAGCAAAGCCAAATTCGAGTTGGAGAATTTAGGTGAATGGGTTGCATGCTCAGTTGGTGCTAATTTTACTCCCCATATCATCACTGTTAATTCTGGAGAGGATGTTACTATGAAGGTAATATCATTTTCTCAGCAAGGACCTCGAGCTATATGCATTCTTTCAGCTAATGGTGTCATATCAAGTGTCACACTTCGTCAGCCCGATTCTTCTGGGGGCACATTGACATATGAGGGACGGTTTGAGATTCTGTCATTGTCTGGCTCATTCATGCCCAATGAAAGTGGAGGAACACGAAGCAGATCCGGTGGCATGAGTGTATCTTTGGCTAGCCCTGATGGACGTGTTGTAGGTGGCGGAGTAGCTGGTCTGTTGGTGGCTGCAAGTCCTGTGCAGGTAGTGGTAGGAAGTTTTCTGGCAGGAAACCAACATGAGCAGAAGCCAAGAAAACAGAAACACGAGGTTATATCAAGTGTGACACCAGCTGCAGTTGTTCCAATCTCTACACTTGATCCAGTATCAATTCTATCAGCAGCGTCTTCCATCCGCAACGATAATTGGTCTGCTATGCCGGCAGAGGCCAAGGATAAGCCAGCTGACATTAACGTGTCGCTTCCTGCAGGGTAA

>Glyma05g04040.2   sequence type=CDS   gene model=Glyma05g04040   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGAGGCCAGTGGCGGTGTTAGCAGCGGCGTTACGGTGGTGGGATCGGATGCTCCGTCGGACTACCATGTAGCTCCGAGGACCGACAACCCGGCTCCCGCAAGCGGATCCACGACGCAGATTCCTGCGACGGCGGGGAGTGCTCTGTCGCCGTCACATCCGCCTCACACGGCGGCGATGGAGGCGTATCCGGCGACGATGCCAGCGAAGAAGAAGAGGGGCCGGCCGAGAAAGTACGCACCGGACGGGTCGGTGACCATGGCGCTGTCTCCGAAGCCGATATCTTCCTCCGCTCCGTTGCCGCCGGTGATCGATTTCTCGTCGGAGAAGCGCGGAAAAATAAAACCAGCTAGCTCCGTGAGCAAAGCCAAATTCGAGTTGGAGAATTTAGGTGAATGGGTTGCATGCTCAGTTGGTGCTAATTTTACTCCCCATATCATCACTGTTAATTCTGGAGAGGATGTTACTATGAAGGTAATATCATTTTCTCAGCAAGGACCTCGAGCTATATGCATTCTTTCAGCTAATGGTGTCATATCAAGTGTCACACTTCGTCAGCCCGATTCTTCTGGGGGCACATTGACATATGAGGGACGGTTTGAGATTCTGTCATTGTCTGGCTCATTCATGCCCAATGAAAGTGGAGGAACACGAAGCAGATCCGGTGGCATGAGTGTATCTTTGGCTAGCCCTGATGGACGTGTTGTAGGTGGCGGAGTAGCTGGTCTGTTGGTGGCTGCAAGTCCTGTGCAGGTAGTGGTAGGAAGTTTTCTGGCAGGAAACCAACATGAGCAGAAGCCAAGAAAACAGAAACACGAGGTTATATCAAGTGTGACACCAGCTGCAGTTGTTCCAATCTCTACACTTGATCCAGTATCAATTCTATCAGCAGCGTCTTCCATCCGCAACGATAATTGGTCTGCTATGCCGGCAGAGGCCAAGGATAAGCCAGCTGACATTAACGTGTCGCTTCCTGCAGGGTTTGTCTTATGTAGATAA

Predicted protein sequences of Glyma05g04040

Limit To All Plant Sequences

>Glyma05g04040.1   sequence type=predicted peptide   gene model=Glyma05g04040   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MEASGGVSSGVTVVGSDAPSDYHVAPRTDNPAPASGSTTQIPATAGSALSPSHPPHTAAMEAYPATMPAKKKRGRPRKYAPDGSVTMALSPKPISSSAPLPPVIDFSSEKRGKIKPASSVSKAKFELENLGEWVACSVGANFTPHIITVNSGEDVTMKVISFSQQGPRAICILSANGVISSVTLRQPDSSGGTLTYEGRFEILSLSGSFMPNESGGTRSRSGGMSVSLASPDGRVVGGGVAGLLVAASPVQVVVGSFLAGNQHEQKPRKQKHEVISSVTPAAVVPISTLDPVSILSAASSIRNDNWSAMPAEAKDKPADINVSLPAG*

>Glyma05g04040.2   sequence type=predicted peptide   gene model=Glyma05g04040   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MEASGGVSSGVTVVGSDAPSDYHVAPRTDNPAPASGSTTQIPATAGSALSPSHPPHTAAMEAYPATMPAKKKRGRPRKYAPDGSVTMALSPKPISSSAPLPPVIDFSSEKRGKIKPASSVSKAKFELENLGEWVACSVGANFTPHIITVNSGEDVTMKVISFSQQGPRAICILSANGVISSVTLRQPDSSGGTLTYEGRFEILSLSGSFMPNESGGTRSRSGGMSVSLASPDGRVVGGGVAGLLVAASPVQVVVGSFLAGNQHEQKPRKQKHEVISSVTPAAVVPISTLDPVSILSAASSIRNDNWSAMPAEAKDKPADINVSLPAGFVLCR*

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