Glyma05g24540 - SoyBase

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Report for Sequence Feature Glyma05g24540

Feature Type:	gene_model
Chromosome:	Gm05
Start:	30698222
stop:	30702308
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma05g24540

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT5G64200	AT	Annotation by Michelle Graham. TAIR10: ortholog of human splicing factor SC35 \| chr5:25681849-25683553 REVERSE LENGTH=303	SoyBase	E_val: 9.00E-76	ISS
GO:0000398	GO-bp	Annotation by Michelle Graham. GO Biological Process: mRNA splicing, via spliceosome	SoyBase	N/A	ISS
GO:0008380	GO-bp	Annotation by Michelle Graham. GO Biological Process: RNA splicing	SoyBase	N/A	ISS
GO:0030422	GO-bp	Annotation by Michelle Graham. GO Biological Process: production of siRNA involved in RNA interference	SoyBase	N/A	ISS
GO:0035196	GO-bp	Annotation by Michelle Graham. GO Biological Process: production of miRNAs involved in gene silencing by miRNA	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:0016020	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: membrane	SoyBase	N/A	ISS
GO:0016607	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: nuclear speck	SoyBase	N/A	ISS
GO:0000166	GO-mf	Annotation by Michelle Graham. GO Molecular Function: nucleotide binding	SoyBase	N/A	ISS
GO:0003676	GO-mf	Annotation by Michelle Graham. GO Molecular Function: nucleic acid binding	SoyBase	N/A	ISS
GO:0003723	GO-mf	Annotation by Michelle Graham. GO Molecular Function: RNA binding	SoyBase	N/A	ISS
KOG4207	KOG	Predicted splicing factor, SR protein superfamily	JGI		ISS
PTHR23147	Panther	SERINE/ARGININE RICH SPLICING FACTOR	JGI		ISS
PF00076	PFAM	RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)	JGI		ISS
UniRef100_B9SZR9	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: Serine/arginine rich splicing factor, putative n=1 Tax=Ricinus communis RepID=B9SZR9_RICCO	SoyBase	E_val: 1.00E-100	ISS
UniRef100_I1K2P0	UniRef	Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=I1K2P0_SOYBN	SoyBase	E_val: 1.00E-179	ISS

Expression Patterns of Glyma05g24540

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 Glyma05g24540

Paralog	Evidence	Comments
Glyma08g07730	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 Glyma05g24540 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.05g117600	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma05g24540

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

Transcripts of Glyma05g24540

Limit To All Plant Sequences

>Glyma05g24540.4   sequence type=transcript   gene model=Glyma05g24540   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
AAAAGAGTTCCAAGTGAAGATAAATAAAGGCAGAGGCATTACGAGTATTCAAGAAGATTCTGCGGCCAAACCCTAGCTACCTCTTCCTTAATCCCTAATCTCTATTTCTCTCTCTCTCTTTTTCTCTGCAAAACAAAAATGTCTCACTTCGGACGTTCGGGTCCCCCAGACATTTCCGACACTTACTCTCTTCTCGTTCTGAACATCACCTTCCGTACCACCGCCGACGACCTATTCCCTCTCTTCGACAAGTATGGGAAGGTCGTCGACATCTTCATCCCCAAGGATCGAAGGACTGGTGAATCGAGGGGTTTTGCGTTCGTGCGTTACAAGTATGCTGATGAGGCTCAGAAGGCCGTTGAGAGGCTCGACGGGAGAATGGTTGATGGTCGCGAAATAACGGTCCAGTTTGCGAAATATGGGCCTAATGCTGAAAGGATTCACAAAGGAAGGATTATTGAAACATCCCCAAGATCAAGGCGATCAAGGAGCCGTAGCCCAAGGAAAAGGCATCGTGATGATTACAGAGACAGAGATTATAGGAGAAGAAGTCGCAGCAGAAGTTATGATAGGTATGAACGTGACAGGCATCGTGGGAGAGACAAAGATTATCGTCGCAGAAGTAGGAGCCGTAGTGCCAGTCTTGATTACAAGGGTCGTGGTAGAGGACGCTATGATGATGAGCGTAATAGTAGAAGCCGGAGCAGATCAGTTGATAGCCGCTCCCCTGCACGACGCAGTCCTAGTCCTCGAAGGAGTCCCTCCCCTCAGAGGAGCACTTCCCCTCAAAGGAGTACTTCCCCTAGGAAGAGTCCACGGGGTGAAAGTCCTGCAAATCGTAGCCGTGAGGAACGTTCCCCTACCCCTCGCAGTGTCTCACCACGCGGTCGCCCTGATGCTTCACGAAGTCCTTCCCCTCGAAATTCAAACGGGGATGAATAAGCTATGTTTTTCATGAAAAATTCTGGAGACGTCGGACTATTGCACCTGTAGCTGTTTTGCCATTGTTGGATCTTTTAGTCTATGTGAATGGTCTTATCAGAGTCATTGAAGAATTTTATGATCTAAGTGCTATTTGGTAGGGTCAGACTTCCTGATGTTTGAATGGTTTTTATATTTGGACTTGCTATGTTGTCTATTTCAGTGTTTGGTAACTATTAGACCTTGCAGTTGATAGGTTATTATCTCAGTTTGAGGGATTTTGCCATTTTATTTTCATTATACTGTTTGCATTTTTCTCTCTCCATACCTCCGTTTTCATTTCCTAATTTATAGGAAGGAATGGCTGTGATCTAGTTAAAGCTCAGTTAATTTATGTTGAACAACTTATTGGGTTTTATAGTTATGATCGGGAAAAGTGATGAGGGCATGATAGCCGCATGTTGACTTTGTTGCTGTTGATGCTGTTTCTATTCATTGATGATTGGTCGTGAATTTGATGCTGGTTGCAAGAGTACGCTGGTTTTAGAACTGATTGTTTTACCAGTGTGCTGATTAGACAGACAATTAGTTGAGTTGGTTTTTTTCCTGAATGATCTGATCATTGGTAAGCTCTTTTGGTTTACATTCTTGTTTCTTCTGAGATCCCTCATAACCATTGAGATTTCTGATCTTTGATCTCATATCCGTGTTTGGTTTTCATCGGAAAAGTGTTCTGAAAAGGATTCTTGATGCTGTGATGAACACGAGTGACCATATTTTGTCATGTAGCTGATGCCTCCTAGGAGTTGGACCTGTCATTTGTTGATTCAGATGCAGATACTAAACATAAAACTGTGGGTATTAAATATGAACTTTAATGTGCTGGTGTTTATTTCGAATCACAGTGAAGGGGACAATGGTAACACCATGGTTTATTTTTTAGGGTATTTTAATCAATATTTTATTCAAGATTATAACATCTGCTACTTAACGTAGTGAGATATGTTTGTTGTAGCACACTGCTCCATGACACTGTAGCTGTGAGGTGGTAGCTGATGCATCTTTAATATGAAATGCATGTGTTCGTGAATAATTTGAAGCACTAACCAATTACTGTAGCTGACTGTTGCTGCCCTTTATGCTGGAATCGGGTTGGCAATGGTATCAGCGGTTGATACTGATGATGGCTGTCTAGCTGTGCTGCTGGTTTCTGTTGATTCCAAAGCCACTTGACAATTGTTTTTTCATTATTTGACTGGTGATTTGTTTTTGTAGTCTCAATTTCAGTTATTCATTCATTCTTATGGCAAAACGATATATAACTAGTGGCAATCTTTTGTTGCTTTGATATTTGTGATAACTATTGCAGCATTGTGTTGTGTTTACTGTTTTGCTACTGAAATAACCAATGTGTTTTAGAGACGGGTTCCTTTTAAAGTTACAAGTTTTCTTGGGTTGTTGGTG

>Glyma05g24540.5   sequence type=transcript   gene model=Glyma05g24540   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
AAAAGAGTTCCAAGTGAAGATAAATAAAGGCAGAGGCATTACGAGTATTCAAGAAGATTCTGCGGCCAAACCCTAGCTACCTCTTCCTTAATCCCTAATCTCTATTTCTCTCTCTCTCTTTTTCTCTGCAAAACAAAAATGTCTCACTTCGGACGTTCGGGTCCCCCAGACATTTCCGACACTTACTCTCTTCTCGTTCTGAACATCACCTTCCGTACCACCGCCGACGACCTATTCCCTCTCTTCGACAAGTATGGGAAGGTCGTCGACATCTTCATCCCCAAGGATCGAAGGACTGGTGAATCGAGGGGTTTTGCGTTCGTGCGTTACAAGTATGCTGATGAGGCTCAGAAGGCCGTTGAGAGGCTCGACGGGAGAATGGTTGATGGTCGCGAAATAACGGTCCAGTTTGCGAAATATGGGCCTAATGCTGAAAGGATTCACAAAGGAAGGATTATTGAAACATCCCCAAGATCAAGGCGATCAAGGAGCCGTAGCCCAAGGAAAAGGCATCGTGATGATTACAGAGACAGAGATTATAGGAGAAGAAGTCGCAGCAGAAGTTATGATAGGTATGAACGTGACAGGCATCGTGGGAGAGACAAAGATTATCGTCGCAGAAGTAGGAGCCGTAGTGCCAGTCTTGATTACAAGGGTCGTGGTAGAGGACGCTATGATGATGAGCGTAATAGTAGAAGCCGGAGCAGATCAGTTGATAGCCGCTCCCCTGCACGACGCAGTCCTAGTCCTCGAAGGAGTCCCTCCCCTCAGAGGAGCACTTCCCCTCAAAGGAGTACTTCCCCTAGGAAGAGTCCACGGGGTGAAAGTCCTGCAAATCGTAGCCGTGAGGAACGTTCCCCTACCCCTCGCAGTGTCTCACCACGCGGTCGCCCTGATGCTTCACGAAGTCCTTCCCCTCGAAATTCAAACGGGGATGAATAAGCTATGTTTTTCATGAAAAATTCTGGAGACGTCGGACTATTGCACCTGTAGCTGTTTTGCCATTGTTGGATCTTTTAGTCTATGTGAATGGTCTTATCAGAGTCATTGAAGAATTTTATGATCTAAGTGCTATTTGTTATGATCGGGAAAAGTGATGAGGGCATGATAGCCGCATGTTGACTTTGTTGCTGTTGATGCTGTTTCTATTCATTGATGATTGGTCGTGAATTTGATGCTGGTTGCAAGAGTACGCTGGTTTTAGAACTGATTGTTTTACCAGTGTGCTGATTAGACAGACAATTAGTTGAGTTGGTTTTTTTCCTGAATGATCTGATCATTGTGTTCTGAAAAGGATTCTTGATGCTGTGATGAACACGAGTGACCATATTTTGTCATGTAGCTGATGCCTCCTAGGAGTTGGACCTGTCATTTGTTGATTCAGATGCAGATACTAAACATAAAACTGTGGGTATTAAATATGAACTTTAATGTGCTGGTGTTTATTTCGAATCACAGTGAAGGGGACAATGGTAACACCATGGTTTATTTTTTAGGGTATTTTAATCAATATTTTATTCAAGATTATAACATCTGCTACTTAACGTAGTGAGATATGTTTGTTGTAGCACACTGCTCCATGACACTGTAGCTGTGAGGTGGTAGCTGATGCATCTTTAATATGAAATGCATGTGTTCGTGAATAATTTGAAGCACTAACCAATTACTGTAGCTGACTGTTGCTGCCCTTTATGCTGGAATCGGGTTGGCAATGGTATCAGCGGTTGATACTGATGATGGCTGTCTAGCTGTGCTGCTGGTTTCTGTTGATTCCAAAGCCACTTGACAATTGTTTTTTCATTATTTGACTGGTGATTTGTTTTTGTAGTCTCAATTTCAGTTATTCATTCATTCTTATGGCAAAACGATATATAACTAGTGGCAATCTTTTGTTGCTTTGATATTTGTGATAACTATTGCAGCATTGTGTTGTGTTTACTGTTTTGCTACTGAAATAACCAATGTGTTTTAGAGACGGGTTCCTTTTAAAGTTACAAGTTTTCTTGGGTTGTTGGTG

Coding sequences of Glyma05g24540

Limit To All Plant Sequences

>Glyma05g24540.3   sequence type=CDS   gene model=Glyma05g24540   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGTCTCACTTCGGACGTTCGGGTCCCCCAGACATTTCCGACACTTACTCTCTTCTCGTTCTGAACATCACCTTCCGTACCACCGCCGACGACCTATTCCCTCTCTTCGACAAGTATGGGAAGGTCGTCGACATCTTCATCCCCAAGGATCGAAGGACTGGTGAATCGAGGGGTTTTGCGTTCGTGCGTTACAAGTATGCTGATGAGGCTCAGAAGGCCGTTGAGAGGCTCGACGGGAGAATGGTTGATGGTCGCGAAATAACGGTCCAGTTTGCGAAATATGGGCCTAATGCTGAAAGGATTCACAAAGGAAGGATTATTGAAACATCCCCAAGATCAAGGCGATCAAGGAGCCGTAGCCCAAGGAAAAGGCATCGTGATGATTACAGAGACAGAGATTATAGGAGAAGAAGTCGCAGCAGAAGTTATGATAGGTATGAACGTGACAGGCATCGTGGGAGAGACAAAGATTATCGTCGCAGAAGTAGGAGCCGTAGTGCCAGTCTTGATTACAAGGGTCGTGGTAGAGGACGCTATGATGATGAGCGTAATAGTAGAAGCCGGAGCAGATCAGTTGATAGCCGCTCCCCTGCACGACGCAGTCCTAGTCCTCGAAGGAGTCCCTCCCCTCAGAGGAGCACTTCCCCTCAAAGGAGTACTTCCCCTAGGAAGAGTCCACGGGGTGAAAGTCCTGCAAATCGTAGCCGTGAGGAACGTTCCCCTACCCCTCGCAGTGTCTCACCACGCGGTCGCCCTGATGCTTCACGAAGTCCTTCCCCTCGAAATTCAAACGGGGATGAATAA

>Glyma05g24540.4   sequence type=CDS   gene model=Glyma05g24540   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGTCTCACTTCGGACGTTCGGGTCCCCCAGACATTTCCGACACTTACTCTCTTCTCGTTCTGAACATCACCTTCCGTACCACCGCCGACGACCTATTCCCTCTCTTCGACAAGTATGGGAAGGTCGTCGACATCTTCATCCCCAAGGATCGAAGGACTGGTGAATCGAGGGGTTTTGCGTTCGTGCGTTACAAGTATGCTGATGAGGCTCAGAAGGCCGTTGAGAGGCTCGACGGGAGAATGGTTGATGGTCGCGAAATAACGGTCCAGTTTGCGAAATATGGGCCTAATGCTGAAAGGATTCACAAAGGAAGGATTATTGAAACATCCCCAAGATCAAGGCGATCAAGGAGCCGTAGCCCAAGGAAAAGGCATCGTGATGATTACAGAGACAGAGATTATAGGAGAAGAAGTCGCAGCAGAAGTTATGATAGGTATGAACGTGACAGGCATCGTGGGAGAGACAAAGATTATCGTCGCAGAAGTAGGAGCCGTAGTGCCAGTCTTGATTACAAGGGTCGTGGTAGAGGACGCTATGATGATGAGCGTAATAGTAGAAGCCGGAGCAGATCAGTTGATAGCCGCTCCCCTGCACGACGCAGTCCTAGTCCTCGAAGGAGTCCCTCCCCTCAGAGGAGCACTTCCCCTCAAAGGAGTACTTCCCCTAGGAAGAGTCCACGGGGTGAAAGTCCTGCAAATCGTAGCCGTGAGGAACGTTCCCCTACCCCTCGCAGTGTCTCACCACGCGGTCGCCCTGATGCTTCACGAAGTCCTTCCCCTCGAAATTCAAACGGGGATGAATAA

>Glyma05g24540.5   sequence type=CDS   gene model=Glyma05g24540   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGTCTCACTTCGGACGTTCGGGTCCCCCAGACATTTCCGACACTTACTCTCTTCTCGTTCTGAACATCACCTTCCGTACCACCGCCGACGACCTATTCCCTCTCTTCGACAAGTATGGGAAGGTCGTCGACATCTTCATCCCCAAGGATCGAAGGACTGGTGAATCGAGGGGTTTTGCGTTCGTGCGTTACAAGTATGCTGATGAGGCTCAGAAGGCCGTTGAGAGGCTCGACGGGAGAATGGTTGATGGTCGCGAAATAACGGTCCAGTTTGCGAAATATGGGCCTAATGCTGAAAGGATTCACAAAGGAAGGATTATTGAAACATCCCCAAGATCAAGGCGATCAAGGAGCCGTAGCCCAAGGAAAAGGCATCGTGATGATTACAGAGACAGAGATTATAGGAGAAGAAGTCGCAGCAGAAGTTATGATAGGTATGAACGTGACAGGCATCGTGGGAGAGACAAAGATTATCGTCGCAGAAGTAGGAGCCGTAGTGCCAGTCTTGATTACAAGGGTCGTGGTAGAGGACGCTATGATGATGAGCGTAATAGTAGAAGCCGGAGCAGATCAGTTGATAGCCGCTCCCCTGCACGACGCAGTCCTAGTCCTCGAAGGAGTCCCTCCCCTCAGAGGAGCACTTCCCCTCAAAGGAGTACTTCCCCTAGGAAGAGTCCACGGGGTGAAAGTCCTGCAAATCGTAGCCGTGAGGAACGTTCCCCTACCCCTCGCAGTGTCTCACCACGCGGTCGCCCTGATGCTTCACGAAGTCCTTCCCCTCGAAATTCAAACGGGGATGAATAA

Predicted protein sequences of Glyma05g24540

Limit To All Plant Sequences

>Glyma05g24540.3   sequence type=predicted peptide   gene model=Glyma05g24540   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MSHFGRSGPPDISDTYSLLVLNITFRTTADDLFPLFDKYGKVVDIFIPKDRRTGESRGFAFVRYKYADEAQKAVERLDGRMVDGREITVQFAKYGPNAERIHKGRIIETSPRSRRSRSRSPRKRHRDDYRDRDYRRRSRSRSYDRYERDRHRGRDKDYRRRSRSRSASLDYKGRGRGRYDDERNSRSRSRSVDSRSPARRSPSPRRSPSPQRSTSPQRSTSPRKSPRGESPANRSREERSPTPRSVSPRGRPDASRSPSPRNSNGDE*

>Glyma05g24540.4   sequence type=predicted peptide   gene model=Glyma05g24540   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MSHFGRSGPPDISDTYSLLVLNITFRTTADDLFPLFDKYGKVVDIFIPKDRRTGESRGFAFVRYKYADEAQKAVERLDGRMVDGREITVQFAKYGPNAERIHKGRIIETSPRSRRSRSRSPRKRHRDDYRDRDYRRRSRSRSYDRYERDRHRGRDKDYRRRSRSRSASLDYKGRGRGRYDDERNSRSRSRSVDSRSPARRSPSPRRSPSPQRSTSPQRSTSPRKSPRGESPANRSREERSPTPRSVSPRGRPDASRSPSPRNSNGDE*

>Glyma05g24540.5   sequence type=predicted peptide   gene model=Glyma05g24540   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MSHFGRSGPPDISDTYSLLVLNITFRTTADDLFPLFDKYGKVVDIFIPKDRRTGESRGFAFVRYKYADEAQKAVERLDGRMVDGREITVQFAKYGPNAERIHKGRIIETSPRSRRSRSRSPRKRHRDDYRDRDYRRRSRSRSYDRYERDRHRGRDKDYRRRSRSRSASLDYKGRGRGRYDDERNSRSRSRSVDSRSPARRSPSPRRSPSPQRSTSPQRSTSPRKSPRGESPANRSREERSPTPRSVSPRGRPDASRSPSPRNSNGDE*

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