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Report for Sequence Feature Glyma02g38540
Feature Type: gene_model
Chromosome: Gm02
Start: 43941834
stop: 43945041
Source: JGI
Version: Wm82.a1.v1.1
High confidence: yes
A newer version of this gene model can be found here:
Annotations for Glyma02g38540
Database ID Annotation Type Annotation Description Annotation Source Match Score Evidence Code
AT3G13570 AT
Annotation by Michelle Graham. TAIR10: SC35-like splicing factor 30A | chr3:4429564-4431602 REVERSE LENGTH=262
SoyBase E_val: 3.00E-73 ISS
GO:0000398 GO-bp
Annotation by Michelle Graham. GO Biological Process: mRNA splicing, via spliceosome
SoyBase N/A ISS
GO:0006355 GO-bp
Annotation by Michelle Graham. GO Biological Process: regulation of transcription, DNA-dependent
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: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: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: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
KOG0114
KOG
Predicted RNA-binding protein (RRM superfamily)
JGI 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_G7J9M2 UniRef
Annotation by Michelle Graham. Most informative UniRef hit: Arginine/serine-rich splicing factor n=2 Tax=Medicago truncatula RepID=G7J9M2_MEDTR
SoyBase E_val: 5.00E-92 ISS
UniRef100_I1JH68 UniRef
Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=I1JH68_SOYBN
SoyBase E_val: 1.00E-168 ISS
Expression Patterns of Glyma02g38540
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
To see more experiments click HERE
Paralogs of Glyma02g38540
Paralog Evidence Comments
Glyma14g36670 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 Glyma02g38540 Gene Call Version Wm82.a1.v1.1
Corresponding Name Annotation Version Evidence Comments
Glyma.02g220800 Wm82.a2.v1 IGC As supplied by JGI
References for Glyma02g38540
Transcripts of Glyma02g38540
Show Sequence BLAST Sequence at SoyBase BLAST Sequence against GenBank NT Limit To All Plant Sequences
>Glyma02g38540.2 sequence type=transcript gene model=Glyma02g38540 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high
TGCCATCAAAAAATGGTATTTGTATACACGAAACGACGGAGACTAAATCTCTAAAACGCTTGAAACCCTAAAACTCTGTGTCCTCCGCCGTTCACATCATTGTCGACGTTCGTTCAGTTGCTCACACTCTCAACAGAGAAGAGAAGAGAATGAGAGGAAGGAGCTATAGTCCATCGCCTCCTCCTCCACGTTACAGCAGAAGAGGAGGAGGGAGGAGTCCCAGCCCTAGGGGCCGCTATCCTCCCCGTCCCCGACAACAAGATCTCCCTACCAGCCTTCTTGTTCGTAACCTTCGTCATGACTGTAGGCCTGAGGATCTTCGCAGACCTTTTGGTCAATTTGGTCCTCTCAAGGACATTTACCTTCCTAAGGATTACTACACTGGAGAACCCCGTGGCTTTGGTTTTGTCCAATTTGTGGATCCTGCGGATGCTGCTGATGCCAAATATCATATGGATGGTCAAGTTCTTCTTGGTCGGGAGCTCACTGTTGTTTTTGCTGAAGAGAATAGAAAGAAGCCAACTGAGATGAGGACAAGAGAGAGAAGGGGTCGATTTTCTGATCGTAGGAGGTCTCCTCCTCGTTACTCTCGTTCACCTCGCTACTCTCGTTCACCTCGCTACTCTCGGTCTCCACCACCACGTCATAGATCTCGTTCTCACAGTCGTGACTATTATTCTCCTAAACGAAGGGAGTATTCAAGGTATGTGGCCTGTAATAATCGATAACTAAAAATTATTTTTGTTATATGTAATTGTTTTAAACGTCATTACTTTTGATTTGGTTCTTATTTAACACACGAAAGAGCTGGTGTTGTTAAATAGTTGTAATATAG
Coding sequences of Glyma02g38540
Show Sequence BLAST Sequence at SoyBase BLAST Sequence against GenBank NT Limit To All Plant Sequences
>Glyma02g38540.1 sequence type=CDS gene model=Glyma02g38540 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high
ATGAGAGGAAGGAGCTATAGTCCATCGCCTCCTCCTCCACGTTACAGCAGAAGAGGAGGAGGGAGGAGTCCCAGCCCTAGGGGCCGCTATCCTCCCCGTCCCCGACAACAAGATCTCCCTACCAGCCTTCTTGTTCGTAACCTTCGTCATGACTGTAGGCCTGAGGATCTTCGCAGACCTTTTGGTCAATTTGGTCCTCTCAAGGACATTTACCTTCCTAAGGATTACTACACTGGAGAACCCCGTGGCTTTGGTTTTGTCCAATTTGTGGATCCTGCGGATGCTGCTGATGCCAAATATCATATGGATGGTCAAGTTCTTCTTGGTCGGGAGCTCACTGTTGTTTTTGCTGAAGAGAATAGAAAGAAGCCAACTGAGATGAGGACAAGAGAGAGAAGGGGTCGATTTTCTGATCGTAGGAGGTCTCCTCCTCGTTACTCTCGTTCACCTCGCTACTCTCGTTCACCTCGCTACTCTCGGTCTCCACCACCACGTCATAGATCTCGTTCTCACAGTCGTGACTATTATTCTCCTAAACGAAGGGAGTATTCAAGATCTGTCTCCCCTGAGGGTAGAAGGTACAGTCGAGAAAGATCATATTCACAGCATAATAGAGAGAGGTCATTCTCACGTTCCCCACCTTATAATGGGGGCTCAAGGAGCCGTAGTCAGAGTCCAGCAAAGGGCCCAGGCCGGAGCAGGAGTCCGAGTCTGAATCGAGATGAAAGGGAACCAGCCCGAGGTAGGTCCCCCAGTCAGTGA
>Glyma02g38540.2 sequence type=CDS gene model=Glyma02g38540 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high
ATGAGAGGAAGGAGCTATAGTCCATCGCCTCCTCCTCCACGTTACAGCAGAAGAGGAGGAGGGAGGAGTCCCAGCCCTAGGGGCCGCTATCCTCCCCGTCCCCGACAACAAGATCTCCCTACCAGCCTTCTTGTTCGTAACCTTCGTCATGACTGTAGGCCTGAGGATCTTCGCAGACCTTTTGGTCAATTTGGTCCTCTCAAGGACATTTACCTTCCTAAGGATTACTACACTGGAGAACCCCGTGGCTTTGGTTTTGTCCAATTTGTGGATCCTGCGGATGCTGCTGATGCCAAATATCATATGGATGGTCAAGTTCTTCTTGGTCGGGAGCTCACTGTTGTTTTTGCTGAAGAGAATAGAAAGAAGCCAACTGAGATGAGGACAAGAGAGAGAAGGGGTCGATTTTCTGATCGTAGGAGGTCTCCTCCTCGTTACTCTCGTTCACCTCGCTACTCTCGTTCACCTCGCTACTCTCGGTCTCCACCACCACGTCATAGATCTCGTTCTCACAGTCGTGACTATTATTCTCCTAAACGAAGGGAGTATTCAAGGTATGTGGCCTGTAATAATCGATAA
Predicted protein sequences of Glyma02g38540
Show Sequence BLAST Sequence at SoyBase BLAST Sequence against GenBank NR Limit To All Plant Sequences
>Glyma02g38540.1 sequence type=predicted peptide gene model=Glyma02g38540 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high
MRGRSYSPSPPPPRYSRRGGGRSPSPRGRYPPRPRQQDLPTSLLVRNLRHDCRPEDLRRPFGQFGPLKDIYLPKDYYTGEPRGFGFVQFVDPADAADAKYHMDGQVLLGRELTVVFAEENRKKPTEMRTRERRGRFSDRRRSPPRYSRSPRYSRSPRYSRSPPPRHRSRSHSRDYYSPKRREYSRSVSPEGRRYSRERSYSQHNRERSFSRSPPYNGGSRSRSQSPAKGPGRSRSPSLNRDEREPARGRSPSQ*
>Glyma02g38540.2 sequence type=predicted peptide gene model=Glyma02g38540 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high
MRGRSYSPSPPPPRYSRRGGGRSPSPRGRYPPRPRQQDLPTSLLVRNLRHDCRPEDLRRPFGQFGPLKDIYLPKDYYTGEPRGFGFVQFVDPADAADAKYHMDGQVLLGRELTVVFAEENRKKPTEMRTRERRGRFSDRRRSPPRYSRSPRYSRSPRYSRSPPPRHRSRSHSRDYYSPKRREYSRYVACNNR*