Glyma19g38280 - SoyBase

SoyBase SoyBase transitions to NEW site on 10/1/2024
Integrating Genetics and Genomics to Advance Soybean Research

Report for Sequence Feature Glyma19g38280

Feature Type:	gene_model
Chromosome:	Gm19
Start:	45227374
stop:	45231279
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma19g38280

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT1G08370	AT	Annotation by Michelle Graham. TAIR10: decapping 1 \| chr1:2638355-2640367 FORWARD LENGTH=367	SoyBase	E_val: 1.00E-94	ISS
GO:0006396	GO-bp	Annotation by Michelle Graham. GO Biological Process: RNA processing	SoyBase	N/A	ISS
GO:0022402	GO-bp	Annotation by Michelle Graham. GO Biological Process: cell cycle process	SoyBase	N/A	ISS
GO:0031087	GO-bp	Annotation by Michelle Graham. GO Biological Process: deadenylation-independent decapping of nuclear-transcribed mRNA	SoyBase	N/A	ISS
GO:0000932	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: cytoplasmic mRNA processing body	SoyBase	N/A	ISS
GO:0005634	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: nucleus	SoyBase	N/A	ISS
GO:0005737	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: cytoplasm	SoyBase	N/A	ISS
GO:0005515	GO-mf	Annotation by Michelle Graham. GO Molecular Function: protein binding	SoyBase	N/A	ISS
GO:0042803	GO-mf	Annotation by Michelle Graham. GO Molecular Function: protein homodimerization activity	SoyBase	N/A	ISS
KOG2868	KOG	Decapping enzyme complex component DCP1	JGI		ISS
PTHR16290	Panther	DCP1 RELATED	JGI		ISS
PF06058	PFAM	Dcp1-like decapping family	JGI		ISS
UniRef100_G7IHH9	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: mRNA-decapping enzyme-like protein n=1 Tax=Medicago truncatula RepID=G7IHH9_MEDTR	SoyBase	E_val: 9.00E-117	ISS
UniRef100_I1NAR0	UniRef	Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=I1NAR0_SOYBN	SoyBase	E_val: 0	ISS

Expression Patterns of Glyma19g38280

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 Glyma19g38280

Paralog	Evidence	Comments
Glyma03g35640	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 Glyma19g38280 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.19g196300	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma19g38280

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

Coding sequences of Glyma19g38280

Limit To All Plant Sequences

>Glyma19g38280.1   sequence type=CDS   gene model=Glyma19g38280   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGTCTCAGACGAAGAAATTGACGCCGAATCTGGATCAGCAGAGCACGAAGGTGCTGAATCTCACGGTGCTCCAGCGAATCGATCCGTTCATCGAAGAGATTCTCTTCACCGCCGCGCATGTCTCCTTCTACGACTTCAACATCGAAAGCAACCAGTGGAGTCGCAAGGATGTTGAAGGATCTCTCTTCGTTGTCAAGAGGAATTCACAACCACGGTTTCAGTTCATCGTCATGAATCGACGGAATACAGATAACCTAGTGGAGAATCTATTGGATTTTGAGTATGAACTTAAAAAGCCGTACCTGTTGTATCGGAATGCTGCTCAAGAAGTTAACGGAATATGGTTTTACAATCCAGATGAATGTGAAGAAGTTGCAAATCTCTTTAACAGGATACTTAATGCATACCCAAAGACTGCTCCAACTACAGTACTGCCTGTTAACATAAGTGAGTCTGAGGAACTTCAGCCAGTGTCAATTATCCCGGAAAGCCCTCTAGAGTCGTCTTCAGCTACTGCTTCTGCAATTGATGCTGTTGAAGATCCTGCAAATACAAACTTCTTAAGCACATTGAAGGTTACTGGAAATTATGCTTCCAATATGGAAAATTTTAGACAGCATTCTGCAACTGTCACTTCTGCTCCTAGTGGTTTATTCTCTACTGCACCTGCTGTGCAAATTCCATCTGCCTCTCATTCAACTTCATCGATATCAGGCTTCCCTCTTGACTCTCTTGAAACAGCCAAGAGTGGCAATCAAATCATTAATCTTGTTAAGCCTTCCACGTTTTTTGCATCGACGTCTTCATCTTCACTGTTAGTTCCACCTATTTCTTCATCTGTGCAACCTAGTGCAGCTGTTCAACATTCCCTGAATCTGCCACGCCAATATGGCACTCCAGTACTTCAACCCTTCCCTCCCCCTAACCCTCCTCTTTCTCTTACCCCTATTTCAAGCTCCACTCCAAATAGACCTGTATTCAGCAGGGATAATGTCCGTGATGCACTTTTATCATTGGTTCAGGAGGATCAATTCATTGACATGATGTTCCAGGCATTACTGAAGGTGAGTCATTCATGA

Predicted protein sequences of Glyma19g38280

Limit To All Plant Sequences

>Glyma19g38280.1   sequence type=predicted peptide   gene model=Glyma19g38280   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MSQTKKLTPNLDQQSTKVLNLTVLQRIDPFIEEILFTAAHVSFYDFNIESNQWSRKDVEGSLFVVKRNSQPRFQFIVMNRRNTDNLVENLLDFEYELKKPYLLYRNAAQEVNGIWFYNPDECEEVANLFNRILNAYPKTAPTTVLPVNISESEELQPVSIIPESPLESSSATASAIDAVEDPANTNFLSTLKVTGNYASNMENFRQHSATVTSAPSGLFSTAPAVQIPSASHSTSSISGFPLDSLETAKSGNQIINLVKPSTFFASTSSSSLLVPPISSSVQPSAAVQHSLNLPRQYGTPVLQPFPPPNPPLSLTPISSSTPNRPVFSRDNVRDALLSLVQEDQFIDMMFQALLKVSHS*

Funded by the USDA-ARS. Developed by the USDA-ARS SoyBase and Legume Clade Database group at the Iowa State University, Ames, IA

U.S. Public Domain