Glyma20g04870 - SoyBase

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Report for Sequence Feature Glyma20g04870

Feature Type:	gene_model
Chromosome:	Gm20
Start:	5282268
stop:	5286356
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma20g04870

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT2G02960	AT	Annotation by Michelle Graham. TAIR10: RING/FYVE/PHD zinc finger superfamily protein \| chr2:862346-863980 REVERSE LENGTH=271	SoyBase	E_val: 1.00E-102	ISS
GO:0005634	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: nucleus	SoyBase	N/A	ISS
GO:0008270	GO-mf	Annotation by Michelle Graham. GO Molecular Function: zinc ion binding	SoyBase	N/A	ISS
KOG1609	KOG	Protein involved in mRNA turnover and stability	JGI		ISS
PTHR23012	Panther	MEMBRANE ASSOCIATED RING FINGER	JGI		ISS
PF00097	PFAM	Zinc finger, C3HC4 type (RING finger)	JGI		ISS
PF12428	PFAM	Protein of unknown function (DUF3675)	JGI		ISS
UniRef100_B9S8W6	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: Membrane associated ring finger 1,8, putative n=1 Tax=Ricinus communis RepID=B9S8W6_RICCO	SoyBase	E_val: 1.00E-134	ISS
UniRef100_UPI00018C6E9D	UniRef	Annotation by Michelle Graham. Best UniRef hit: UPI00018C6E9D related cluster n=1 Tax=unknown RepID=UPI00018C6E9D	SoyBase	E_val: 0	ISS

Expression Patterns of Glyma20g04870

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 Glyma20g04870

Paralog	Evidence	Comments
Glyma07g35750	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 Glyma20g04870 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.20g036400	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma20g04870

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

Transcripts of Glyma20g04870

Limit To All Plant Sequences

>Glyma20g04870.2   sequence type=transcript   gene model=Glyma20g04870   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
CCGACCCGACCTAGAACGGGTCGTTTACGCGGCAACGCAAGACTCCAACAACATCATCATCAAAGCACCCCTTCTTCTCCGAAATGACCATAATGTCTCTTTCTACGTTCAAAAATTCCAACAACTTAGTATTCTAATTACACAAAGCCTCCACGAACAAAAACAAAACAAATTCCCTATACATTCGCACAACGCCATTTTATCATACATTTTCTCTTTCTTTCTCTCTTCCTTGTTTTTCGCTCAAGCCTTTTCTCTCTCTCTTTCTTACGAGTTGCAAATAAAACTCCCCTTTTTCTCCGGATCAATGAGCGATCATCTGGTGCTGTTCGTGGACCGGCTGGTGCGACCCGTGCCGATGGTCCAGCCGCTGGCCCAACAGCCCCCCGAGCCCGCGACGCCCGTTGATGAGGCGGCGGCGGGGCCATCCGGGTCGTCTCCGGCGGCGGAGGAAGACGGTGACGACGGCGGAGAGGATGCGCCGCTGCTGCAGCTGGCGGAGTGTCGCATTTGCCAAGAGGAGGACAGCGTCAGCGGTTTGGAGACACCCTGCTCCTGCAGCGGTAGTCTTAAGTATGCTCATAGAAAGTGCGTTCAGCGTTGGTGCAATGAGAAAGGAGACATAACTTGTGAGATATGTCACAAGTCCTATGAACCTGGTTATACTGCCCCACCACCTCGTCCTCAGCCTGAAGAAACTACCCTTGATATAGGTGGAGGCTGGACAATCTCTGGCACGCCATTGGACTTGCGTGATCCCCGACTCTTAGCAATTGCAGAGGCTGAACGTCAATTCTTGGAAGCTGAATACGATGGATATGCTGCTTCTCATGCTAGTGGAGCTGCATTTTGTCGTTCAGTTGCTTTGATTTTAATGGCCCTTTTACTCTTGAGGCATGCACTTTCTGTCACAGATTCTGACGCTGAAGATGATCCATCCACTTTTTTCTCTCTTTTCTTGCTTCGTGCTGCTGGTTTTCTTTTACCTTGCTATATCATGGCTTGGGCAATCAGTATTTTGCAACGCCGGCGACAAAGACAAGAGGCGGCAGCACTAGCGGCAACCCAAGTTGCTTTCGTTCTACAATCCGGGCAGCGTAGGGGTCTGCAGTTTGCAATAGCACCAGGACCACCAACAATGAATACACACCAGCAGGAACAAGTGTAATTTTTTGTATGCCACCAGTGTATGTAACAAGGCTTGTTGGAATGATGCCATGCATTTTTTTACTCATGATTTTCTGAGCTCTAATTTACGTACATACACACTAGCTTGAGCTACTTTGAGATGGTGCATAATATTTCTTGGATCCATTGCCTTAGAAAAGAAACATCTCATTTTGTTGTATTGCAGCTTCAAGTCTTTGAAAGTTATAGCAATGTTAATTAAGCTAAAAAGTTAACATGTCATTCCTTAGGGATAAGGTTGTTTCCGTGCCTGTTTTTCTGCACCGTAATAATCATAATGATTCAAGCAAACAAACGGTGGGAGAATTTGACAAGATTTTTTGCATTAATTAGATCACGAGAATGTTCCGTATGTCTTCGGTGCTTGTTGGCTTTTTTATGCTTTCTGGTTTGCTTCCAAATTGTATTGGCTTC

Coding sequences of Glyma20g04870

Limit To All Plant Sequences

>Glyma20g04870.1   sequence type=CDS   gene model=Glyma20g04870   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGAGCGATCATCTGGTGCTGTTCGTGGACCGGCTGGTGCGACCCGTGCCGATGGTCCAGCCGCTGGCCCAACAGCCCCCCGAGCCCGCGACGCCCGTTGATGAGGCGGCGGCGGGGCCATCCGGGTCGTCTCCGGCGGCGGAGGAAGACGGTGACGACGGCGGAGAGGATGCGCCGCTGCTGCAGCTGGCGGAGTGTCGCATTTGCCAAGAGGAGGACAGCGTCAGCGGTTTGGAGACACCCTGCTCCTGCAGCGGTAGTCTTAAGTATGCTCATAGAAAGTGCGTTCAGCGTTGGTGCAATGAGAAAGGAGACATAACTTGTGAGATATGTCACAAGTCCTATGAACCTGGTTATACTGCCCCACCACCTCGTCCTCAGCCTGAAGAAACTACCCTTGATATAGGTGGAGGCTGGACAATCTCTGGCACGCCATTGGACTTGCGTGATCCCCGACTCTTAGCAATTGCAGAGGCTGAACGTCAATTCTTGGAAGCTGAATACGATGGATATGCTGCTTCTCATGCTAGTGGAGCTGCATTTTGTCGTTCAGTTGCTTTGATTTTAATGGCCCTTTTACTCTTGAGGCATGCACTTTCTGTCACAGATTCTGACGCTGAAGATGATCCATCCACTTTTTTCTCTCTTTTCTTGCTTCGTGCTGCTGGTTTTCTTTTACCTTGCTATATCATGGCTTGGGCAATCAGTATTTTGCAACGCCGGCGACAAAGACAAGAGGCGGCAGCACTAGCGGCAACCCAAGTTGCTTTCGTTCTACAATCCGGGCAGCGTAGGGGTCTGCAGTTTGCAATAGCACCAGGACCACCAACAATGAATACACACCAGCAGGAACAAGTGTAA

>Glyma20g04870.2   sequence type=CDS   gene model=Glyma20g04870   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGAGCGATCATCTGGTGCTGTTCGTGGACCGGCTGGTGCGACCCGTGCCGATGGTCCAGCCGCTGGCCCAACAGCCCCCCGAGCCCGCGACGCCCGTTGATGAGGCGGCGGCGGGGCCATCCGGGTCGTCTCCGGCGGCGGAGGAAGACGGTGACGACGGCGGAGAGGATGCGCCGCTGCTGCAGCTGGCGGAGTGTCGCATTTGCCAAGAGGAGGACAGCGTCAGCGGTTTGGAGACACCCTGCTCCTGCAGCGGTAGTCTTAAGTATGCTCATAGAAAGTGCGTTCAGCGTTGGTGCAATGAGAAAGGAGACATAACTTGTGAGATATGTCACAAGTCCTATGAACCTGGTTATACTGCCCCACCACCTCGTCCTCAGCCTGAAGAAACTACCCTTGATATAGGTGGAGGCTGGACAATCTCTGGCACGCCATTGGACTTGCGTGATCCCCGACTCTTAGCAATTGCAGAGGCTGAACGTCAATTCTTGGAAGCTGAATACGATGGATATGCTGCTTCTCATGCTAGTGGAGCTGCATTTTGTCGTTCAGTTGCTTTGATTTTAATGGCCCTTTTACTCTTGAGGCATGCACTTTCTGTCACAGATTCTGACGCTGAAGATGATCCATCCACTTTTTTCTCTCTTTTCTTGCTTCGTGCTGCTGGTTTTCTTTTACCTTGCTATATCATGGCTTGGGCAATCAGTATTTTGCAACGCCGGCGACAAAGACAAGAGGCGGCAGCACTAGCGGCAACCCAAGTTGCTTTCGTTCTACAATCCGGGCAGCGTAGGGGTCTGCAGTTTGCAATAGCACCAGGACCACCAACAATGAATACACACCAGCAGGAACAAGTGTAA

Predicted protein sequences of Glyma20g04870

Limit To All Plant Sequences

>Glyma20g04870.1   sequence type=predicted peptide   gene model=Glyma20g04870   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MSDHLVLFVDRLVRPVPMVQPLAQQPPEPATPVDEAAAGPSGSSPAAEEDGDDGGEDAPLLQLAECRICQEEDSVSGLETPCSCSGSLKYAHRKCVQRWCNEKGDITCEICHKSYEPGYTAPPPRPQPEETTLDIGGGWTISGTPLDLRDPRLLAIAEAERQFLEAEYDGYAASHASGAAFCRSVALILMALLLLRHALSVTDSDAEDDPSTFFSLFLLRAAGFLLPCYIMAWAISILQRRRQRQEAAALAATQVAFVLQSGQRRGLQFAIAPGPPTMNTHQQEQV*

>Glyma20g04870.2   sequence type=predicted peptide   gene model=Glyma20g04870   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MSDHLVLFVDRLVRPVPMVQPLAQQPPEPATPVDEAAAGPSGSSPAAEEDGDDGGEDAPLLQLAECRICQEEDSVSGLETPCSCSGSLKYAHRKCVQRWCNEKGDITCEICHKSYEPGYTAPPPRPQPEETTLDIGGGWTISGTPLDLRDPRLLAIAEAERQFLEAEYDGYAASHASGAAFCRSVALILMALLLLRHALSVTDSDAEDDPSTFFSLFLLRAAGFLLPCYIMAWAISILQRRRQRQEAAALAATQVAFVLQSGQRRGLQFAIAPGPPTMNTHQQEQV*

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