Glyma04g02540 - SoyBase

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Report for Sequence Feature Glyma04g02540

Feature Type:	gene_model
Chromosome:	Gm04
Start:	1792449
stop:	1795606
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma04g02540

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT4G35020	AT	Annotation by Michelle Graham. TAIR10: RAC-like 3 \| chr4:16673176-16674540 FORWARD LENGTH=198	SoyBase	E_val: 7.00E-127	ISS
GO:0000226	GO-bp	Annotation by Michelle Graham. GO Biological Process: microtubule cytoskeleton organization	SoyBase	N/A	ISS
GO:0000394	GO-bp	Annotation by Michelle Graham. GO Biological Process: RNA splicing, via endonucleolytic cleavage and ligation	SoyBase	N/A	ISS
GO:0006184	GO-bp	Annotation by Michelle Graham. GO Biological Process: GTP catabolic process	SoyBase	N/A	ISS
GO:0007015	GO-bp	Annotation by Michelle Graham. GO Biological Process: actin filament organization	SoyBase	N/A	ISS
GO:0007165	GO-bp	Annotation by Michelle Graham. GO Biological Process: signal transduction	SoyBase	N/A	ISS
GO:0007264	GO-bp	Annotation by Michelle Graham. GO Biological Process: small GTPase mediated signal transduction	SoyBase	N/A	ISS
GO:0009086	GO-bp	Annotation by Michelle Graham. GO Biological Process: methionine biosynthetic process	SoyBase	N/A	ISS
GO:0009860	GO-bp	Annotation by Michelle Graham. GO Biological Process: pollen tube growth	SoyBase	N/A	ISS
GO:0015031	GO-bp	Annotation by Michelle Graham. GO Biological Process: protein transport	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: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:0005819	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: spindle	SoyBase	N/A	ISS
GO:0005886	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: plasma membrane	SoyBase	N/A	ISS
GO:0016020	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: membrane	SoyBase	N/A	ISS
GO:0030427	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: site of polarized growth	SoyBase	N/A	ISS
GO:0003924	GO-mf	Annotation by Michelle Graham. GO Molecular Function: GTPase activity	SoyBase	N/A	ISS
GO:0005525	GO-mf	Annotation by Michelle Graham. GO Molecular Function: GTP binding	SoyBase	N/A	ISS
KOG0393	KOG	Ras-related small GTPase, Rho type	JGI		ISS
PTHR24072	Panther	FAMILY NOT NAMED	JGI		ISS
PTHR24072:SF353	Panther		JGI		ISS
PF00071	PFAM	Ras family	JGI		ISS
UniRef100_C6T4E6	UniRef	Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=C6T4E6_SOYBN	SoyBase	E_val: 3.00E-143	ISS
UniRef100_Q9SXT7	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: Rac-type small GTP-binding protein n=1 Tax=Cicer arietinum RepID=Q9SXT7_CICAR	SoyBase	E_val: 2.00E-136	ISS

Expression Patterns of Glyma04g02540

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 Glyma04g02540

Paralog	Evidence	Comments
Glyma06g02580	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 Glyma04g02540 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.04g023400	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma04g02540

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

Transcripts of Glyma04g02540

Limit To All Plant Sequences

>Glyma04g02540.4   sequence type=transcript   gene model=Glyma04g02540   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
AACACACAAATAGGAAATTAGAAAAAGAGAGAGACCCGATTTTTACTTAATTAATTAAGAGGAAGGAATAATTATTGGTGGAGGCTAAGAAGTAGTAGGAAGAGGAGCAAATAGTCACATGAAATTATAGATAGCTGGCAAAAGTTTGTCTCTTGGGTCAGTCACAGTCAGCCAAGTGTCTTAAACCTTTTCTTTCTTTCTTTTGAATTTCATTTCAATTTAATTTCGATTTCATTTCCCCCTTTCTCTGCACTCTGCAACTCCCTCCAATTTAGTTTGAGCCTTAGAGGCATTGTTCTTTGGTTGGATAGATCTCTGATCTGAAGATGAGTGCGTCGAGGTTCATTAAGTGCGTCACCGTCGGCGACGGCGCTGTCGGCAAAACCTGCTTGTTGATTTCCTACACCAGCAACACTTTTCCCACGGACTACGTGCCCACGGTTTTTGACAATTTCAGTGCTAATGTTGTGGTGGATGGAAGCACCGTAAACTTGGCATTGTGGGATACTGCTGGTCAGGAAGATTATAATAGGCTTAGACCCTTGAGCTATCGAGGAGCTGATGTTTTTATACTTGCCTTTTCTCTCATAAGCAAGGCTAGCTATGAAAATATTGCAAAGAAGTGGATCCCTGAACTAAGGCATTATGCCCCTGGTGTTCCAATAATTCTCGTTGGAACAAAGTTAGATCTTCGGGAAGATAAGCAATTTTTTATGGACCACCCTGGTGCAGTACCAATTACTACAGCACAGGGAGAAGAATTAAGAAAACTGATTGGTGCTCCTGCCTACATCGAGTGTAGTTCAAAAACACAGCAGAATGTGAAAGCCGTCTTTGACGCTGCCATCAAAGTGGTTCTTCAACCACCAAAGCAAAAGAAAAAGAAGAGAAAGGCACAAAAAGCTTGCTCAATATTGTGATTAAGAATCAGAAGGCTTGCTCAATAGTATGATTTAAGAACCAGAGATTAATAGGAGGTATTGACTGTCTGGCCAACCTTTAATGCTGCCTCTCCATTGGTTTTTCTTGTTTTGGTCGCTATCCTTTGTAGCGAGGGCAGGAAGCTGTGTATAGTTTGGACTGACATCTTAGGCCTTATGATCAATCACATGATTACTGCCTTTGTCTCATTTCATACTCTGTAATTAAAACTAGCTCAATTACATAGCTCAGTGCCGACCTATTTCCTTCAACTACTATTATATGTTAGTAACCCACGAAAGCACTGCATGCTTGTGAATGCGGTCATATTCATATGGCATGCTTGTGAATGCGGTCATATTCATATGGCCTTTGTGATGTCTTCTATGAATTTCTTTAATGGTTTTGGGCAGTTGTTGCACATTTTAAACTTTTTACACTTAAGGGGATGTTATTGAAGGATAAAATTTCACCTTGGAGCATGGGATGTTCCATTTAAATATTTACATAGCTGCACGTGTTCTTGTATCTGTGGATCCAGATCTCCTGCAGTTACATTTTTTAACTGCACAGATCTAATCTTTGAAATTTCTTGTCAAATAAAGGATGGAGATGAGTAAATTT

Coding sequences of Glyma04g02540

Limit To All Plant Sequences

>Glyma04g02540.3   sequence type=CDS   gene model=Glyma04g02540   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGAGTGCGTCGAGGTTCATTAAGTGCGTCACCGTCGGCGACGGCGCTGTCGGCAAAACCTGCTTGTTGATTTCCTACACCAGCAACACTTTTCCCACGGACTACGTGCCCACGGTTTTTGACAATTTCAGTGCTAATGTTGTGGTGGATGGAAGCACCGTAAACTTGGCATTGTGGGATACTGCTGGTCAGGAAGATTATAATAGGCTTAGACCCTTGAGCTATCGAGGAGCTGATGTTTTTATACTTGCCTTTTCTCTCATAAGCAAGGCTAGCTATGAAAATATTGCAAAGAAGTGGATCCCTGAACTAAGGCATTATGCCCCTGGTGTTCCAATAATTCTCGTTGGAACAAAGTTAGATCTTCGGGAAGATAAGCAATTTTTTATGGACCACCCTGGTGCAGTACCAATTACTACAGCACAGGGAGAAGAATTAAGAAAACTGATTGGTGCTCCTGCCTACATCGAGTGTAGTTCAAAAACACAGCAGAATGTGAAAGCCGTCTTTGACGCTGCCATCAAAGTGGTTCTTCAACCACCAAAGCAAAAGAAAAAGAAGAGAAAGGCACAAAAAGCTTGCTCAATATTGTGA

>Glyma04g02540.4   sequence type=CDS   gene model=Glyma04g02540   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGAGTGCGTCGAGGTTCATTAAGTGCGTCACCGTCGGCGACGGCGCTGTCGGCAAAACCTGCTTGTTGATTTCCTACACCAGCAACACTTTTCCCACGGACTACGTGCCCACGGTTTTTGACAATTTCAGTGCTAATGTTGTGGTGGATGGAAGCACCGTAAACTTGGCATTGTGGGATACTGCTGGTCAGGAAGATTATAATAGGCTTAGACCCTTGAGCTATCGAGGAGCTGATGTTTTTATACTTGCCTTTTCTCTCATAAGCAAGGCTAGCTATGAAAATATTGCAAAGAAGTGGATCCCTGAACTAAGGCATTATGCCCCTGGTGTTCCAATAATTCTCGTTGGAACAAAGTTAGATCTTCGGGAAGATAAGCAATTTTTTATGGACCACCCTGGTGCAGTACCAATTACTACAGCACAGGGAGAAGAATTAAGAAAACTGATTGGTGCTCCTGCCTACATCGAGTGTAGTTCAAAAACACAGCAGAATGTGAAAGCCGTCTTTGACGCTGCCATCAAAGTGGTTCTTCAACCACCAAAGCAAAAGAAAAAGAAGAGAAAGGCACAAAAAGCTTGCTCAATATTGTGA

Predicted protein sequences of Glyma04g02540

Limit To All Plant Sequences

>Glyma04g02540.3   sequence type=predicted peptide   gene model=Glyma04g02540   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MSASRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFSANVVVDGSTVNLALWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENIAKKWIPELRHYAPGVPIILVGTKLDLREDKQFFMDHPGAVPITTAQGEELRKLIGAPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKRKAQKACSIL*

>Glyma04g02540.4   sequence type=predicted peptide   gene model=Glyma04g02540   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MSASRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFSANVVVDGSTVNLALWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENIAKKWIPELRHYAPGVPIILVGTKLDLREDKQFFMDHPGAVPITTAQGEELRKLIGAPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKRKAQKACSIL*

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