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Report for Sequence Feature Glyma05g24960

Feature Type:gene_model
Chromosome:Gm05
Start:31133960
stop:31137426
Source:JGI
Version:Wm82.a1.v1.1
High confidence:yes



A newer version of this gene model can be found here:

Annotations for Glyma05g24960
Database IDAnnotation TypeAnnotation DescriptionAnnotation SourceMatch ScoreEvidence Code
AT3G26420AT Annotation by Michelle Graham. TAIR10: RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain | chr3:9671953-9673055 FORWARD LENGTH=245 SoyBaseE_val: 1.00E-68ISS
GO:0009409GO-bp Annotation by Michelle Graham. GO Biological Process: response to cold SoyBaseN/AISS
GO:0009631GO-bp Annotation by Michelle Graham. GO Biological Process: cold acclimation SoyBaseN/AISS
GO:0005634GO-cc Annotation by Michelle Graham. GO Cellular Compartment: nucleus SoyBaseN/AISS
GO:0005737GO-cc Annotation by Michelle Graham. GO Cellular Compartment: cytoplasm SoyBaseN/AISS
GO:0005829GO-cc Annotation by Michelle Graham. GO Cellular Compartment: cytosol SoyBaseN/AISS
GO:0000166GO-mf Annotation by Michelle Graham. GO Molecular Function: nucleotide binding SoyBaseN/AISS
GO:0003676GO-mf Annotation by Michelle Graham. GO Molecular Function: nucleic acid binding SoyBaseN/AISS
GO:0003723GO-mf Annotation by Michelle Graham. GO Molecular Function: RNA binding SoyBaseN/AISS
GO:0008270GO-mf Annotation by Michelle Graham. GO Molecular Function: zinc ion binding SoyBaseN/AISS
KOG0114 KOG Predicted RNA-binding protein (RRM superfamily) JGI ISS
PTHR24012Panther FAMILY NOT NAMED JGI ISS
PTHR24012:SF188Panther JGI ISS
PF00076PFAM RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) JGI ISS
PF00098PFAM Zinc knuckle JGI ISS
UniRef100_B9SCP7UniRef Annotation by Michelle Graham. Most informative UniRef hit: Dc50, putative n=1 Tax=Ricinus communis RepID=B9SCP7_RICCO SoyBaseE_val: 1.00E-78ISS
UniRef100_C6TJJ8UniRef Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=C6TJJ8_SOYBN SoyBaseE_val: 1.00E-139ISS

Expression Patterns of Glyma05g24960
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 Glyma05g24960
ParalogEvidenceComments
Glyma08g08051 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 Glyma05g24960 Gene Call Version Wm82.a1.v1.1
Corresponding NameAnnotation VersionEvidenceComments
Glyma.05g121100 Wm82.a2.v1IGC As supplied by JGI

References for Glyma05g24960
Schmutz et al. 2010
  Genome sequence of the palaeopolyploid soybean
  Nature 2010, 463:178-183

Coding sequences of Glyma05g24960
>Glyma05g24960.1   sequence type=CDS   gene model=Glyma05g24960   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGTCTGACGTGGAAGAGTTTCGTTGCTTCATTGGTGGCCTTGCATGGTCAACGTCTGATAGAAAGTTAAAGGATACATTTGAAAAGTTTGGCAAGCTTATTGAGGCAAAGGTGGTTGTTGACAAGTTCTCTGGGCGTTCTCGTGGTTTTGGATTTGTCACATTTGATGACAAGAAAGCAATGGACGAGGCTATTGATGCTATGAATGGGATAGATTTAGACGGGCGAACTATTACTGTTGATAGAGCTCAGCCTCAACAAGGATCAACTAGAGATGATGGTGATCGTTACCGGGAGCGTGGTCGTGATCGTGATCGTAACCGAGATTATGGAGGTGGAGGTGGTCGAGGATCTAATGGTGGTGAATGCTTTAAGTGTGGAAAACCTGGTCATTTTGCTAGGGAATGCCCTGGTGAAGGGTCCAGGGGAGGAAGGTATGGTGGTAGGGAAAGTAGATATGGTGGAAGCAGTGGTGGTGGTTATGGACCGGATAGAAATGCAGATCGTTCTTCAGGGGGGCGCAGCAGGGATGGTGGTAGTCATGGGGATTCTGGAAGTGATCGATATTATCGTGATCGTTCAGGACCATATGAGCGGGAGCGACGGGGATCGGGAGGCTTTCGTTGA
Predicted protein sequences of Glyma05g24960
>Glyma05g24960.1   sequence type=predicted peptide   gene model=Glyma05g24960   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MSDVEEFRCFIGGLAWSTSDRKLKDTFEKFGKLIEAKVVVDKFSGRSRGFGFVTFDDKKAMDEAIDAMNGIDLDGRTITVDRAQPQQGSTRDDGDRYRERGRDRDRNRDYGGGGGRGSNGGECFKCGKPGHFARECPGEGSRGGRYGGRESRYGGSSGGGYGPDRNADRSSGGRSRDGGSHGDSGSDRYYRDRSGPYERERRGSGGFR*






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