Glyma18g06890 - SoyBase

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Report for Sequence Feature Glyma18g06890

Feature Type:	gene_model
Chromosome:	Gm18
Start:	5563344
stop:	5566061
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma18g06890

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT2G30000	AT	Annotation by Michelle Graham. TAIR10: PHF5-like protein \| chr2:12804042-12804374 REVERSE LENGTH=110	SoyBase	E_val: 1.00E-75	ISS
GO:0005634	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: nucleus	SoyBase	N/A	ISS
KOG1705	KOG	Uncharacterized conserved protein, contains CXXC motifs	JGI		ISS
PTHR13120	Panther	FAMILY NOT NAMED	JGI		ISS
PF03660	PFAM	PHF5-like protein	JGI		ISS
UniRef100_A9P9G1	UniRef	Annotation by Michelle Graham. Best UniRef hit: Predicted protein n=13 Tax=Magnoliophyta RepID=A9P9G1_POPTR	SoyBase	E_val: 4.00E-73	ISS
UniRef100_B6T4K0	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: PHD finger-like domain-containing protein 5A n=3 Tax=Poaceae RepID=B6T4K0_MAIZE	SoyBase	E_val: 5.00E-73	ISS

Expression Patterns of Glyma18g06890

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 Glyma18g06890

Paralog	Evidence	Comments
Glyma11g27333	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 Glyma18g06890 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.18g061500	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma18g06890

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

Transcripts of Glyma18g06890

Limit To All Plant Sequences

>Glyma18g06890.3   sequence type=transcript   gene model=Glyma18g06890   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
GGTTCTGGATTGTTCAGTGAAGTTCCATTTCCTTCTCCGCTCCATTCTTCTCCCTCCCTTGCTTCTTTCTCTTTCGCTTCCACCGTAACACAACCCTCGTTGTTCCGTGTTCTGGCGAAGCGACACCGTTTTACACTTCCTCTTCTCGGCACAGAATCTAGCAGGTTGTTGAAAATATGGCCAAGCATCATCCTGATTTGATTATGTGCCGGAAGCAGCCAGGGATTGCCATTGGACGACTGTGCGAGAAATGTGATGGCAAGTGTGTGATATGTGACTCTTATGTGCGTCCTTGTACACTTGTCCGAGTTTGTGATGAATGCAACTACGGATCATTTCAGGGTCGATGTGTCATATGCGGAGGAGTTGGAATATCTGATGCCTACTACTGCAAGGAATGCACACAGCAGGAGAAAGATAGAGATGGTTGCCCCAAAATTGTTAACTTAGGGAGTGCCAAGACTGATTTATTTTATGAACGCAAAAAGTATGGTTTTAAGAAGAGATGATGAAGGTAGAATACTGAGGCATTTGTATTTCTCTAAAACTTTTTTGTACGTGTATTGTTTGGATATAAGAACCATAGGATGTGAAACCTTGAGCTCGTAAACTTTTTTATGGTACAATTATGATATAAATGCTTGACTAGTTTGCTACTGATCAAAGAATTAGCCAATAGCCATTATGGAATT

Coding sequences of Glyma18g06890

Limit To All Plant Sequences

>Glyma18g06890.1   sequence type=CDS   gene model=Glyma18g06890   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGCCAAGCATCATCCTGATTTGATTATGTGCCGGAAGCAGCCAGGGATTGCCATTGGACGACTGTGCGAGAAATGTGATGGCAAGTGTGTGATATGTGACTCTTATGTGCGTCCTTGTACACTTGTCCGAGTTTGTGATGAATGCAACTACGGATCATTTCAGGGTCGATGTGTCATATGCGGAGGAGTTGGAATATCTGATGCCTACTACTGCAAGGAATGCACACAGCAGGAGAAAGATAGAGATGGTTGCCCCAAAATTGTTAACTTAGGGAGTGCCAAGACTGATTTATTTTATGAACGCAAAAAGTATGGTTTTAAGAAGAGATGA

>Glyma18g06890.3   sequence type=CDS   gene model=Glyma18g06890   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGCCAAGCATCATCCTGATTTGATTATGTGCCGGAAGCAGCCAGGGATTGCCATTGGACGACTGTGCGAGAAATGTGATGGCAAGTGTGTGATATGTGACTCTTATGTGCGTCCTTGTACACTTGTCCGAGTTTGTGATGAATGCAACTACGGATCATTTCAGGGTCGATGTGTCATATGCGGAGGAGTTGGAATATCTGATGCCTACTACTGCAAGGAATGCACACAGCAGGAGAAAGATAGAGATGGTTGCCCCAAAATTGTTAACTTAGGGAGTGCCAAGACTGATTTATTTTATGAACGCAAAAAGTATGGTTTTAAGAAGAGATGA

Predicted protein sequences of Glyma18g06890

Limit To All Plant Sequences

>Glyma18g06890.1   sequence type=predicted peptide   gene model=Glyma18g06890   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MAKHHPDLIMCRKQPGIAIGRLCEKCDGKCVICDSYVRPCTLVRVCDECNYGSFQGRCVICGGVGISDAYYCKECTQQEKDRDGCPKIVNLGSAKTDLFYERKKYGFKKR*

>Glyma18g06890.3   sequence type=predicted peptide   gene model=Glyma18g06890   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MAKHHPDLIMCRKQPGIAIGRLCEKCDGKCVICDSYVRPCTLVRVCDECNYGSFQGRCVICGGVGISDAYYCKECTQQEKDRDGCPKIVNLGSAKTDLFYERKKYGFKKR*

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