Glyma04g12600 - SoyBase

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Report for Sequence Feature Glyma04g12600

Feature Type:	gene_model
Chromosome:	Gm04
Start:	11794644
stop:	11796816
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma04g12600

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT4G20860	AT	Annotation by Michelle Graham. TAIR10: FAD-binding Berberine family protein \| chr4:11172726-11174318 FORWARD LENGTH=530	SoyBase	E_val: 0	ISS
GO:0002679	GO-bp	Annotation by Michelle Graham. GO Biological Process: respiratory burst involved in defense response	SoyBase	N/A	ISS
GO:0006865	GO-bp	Annotation by Michelle Graham. GO Biological Process: amino acid transport	SoyBase	N/A	ISS
GO:0009407	GO-bp	Annotation by Michelle Graham. GO Biological Process: toxin catabolic process	SoyBase	N/A	ISS
GO:0010167	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to nitrate	SoyBase	N/A	ISS
GO:0010200	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to chitin	SoyBase	N/A	ISS
GO:0010583	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to cyclopentenone	SoyBase	N/A	ISS
GO:0015706	GO-bp	Annotation by Michelle Graham. GO Biological Process: nitrate transport	SoyBase	N/A	ISS
GO:0015824	GO-bp	Annotation by Michelle Graham. GO Biological Process: proline transport	SoyBase	N/A	ISS
GO:0055114	GO-bp	Annotation by Michelle Graham. GO Biological Process: oxidation-reduction process	SoyBase	N/A	ISS
GO:0005737	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: cytoplasm	SoyBase	N/A	ISS
GO:0005829	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: cytosol	SoyBase	N/A	ISS
GO:0003824	GO-mf	Annotation by Michelle Graham. GO Molecular Function: catalytic activity	SoyBase	N/A	ISS
GO:0008762	GO-mf	Annotation by Michelle Graham. GO Molecular Function: UDP-N-acetylmuramate dehydrogenase activity	SoyBase	N/A	ISS
GO:0009055	GO-mf	Annotation by Michelle Graham. GO Molecular Function: electron carrier activity	SoyBase	N/A	ISS
GO:0016491	GO-mf	Annotation by Michelle Graham. GO Molecular Function: oxidoreductase activity	SoyBase	N/A	ISS
GO:0016614	GO-mf	Annotation by Michelle Graham. GO Molecular Function: oxidoreductase activity, acting on CH-OH group of donors	SoyBase	N/A	ISS
GO:0050660	GO-mf	Annotation by Michelle Graham. GO Molecular Function: flavin adenine dinucleotide binding	SoyBase	N/A	ISS
KOG1231	KOG	Proteins containing the FAD binding domain	JGI		ISS
PTHR11748	Panther	D-LACTATE DEHYDROGENASE	JGI		ISS
PTHR11748:SF29	Panther	SUBFAMILY NOT NAMED	JGI		ISS
PF01565	PFAM	FAD binding domain	JGI		ISS
PF08031	PFAM	Berberine and berberine like	JGI		ISS
UniRef100_Q2PMD5	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: FAD-linked oxidoreductase 1 n=1 Tax=Glycine max RepID=Q2PMD5_SOYBN	SoyBase	E_val: 0	ISS
UniRef100_Q2PMD5	UniRef	Annotation by Michelle Graham. Best UniRef hit: FAD-linked oxidoreductase 1 n=1 Tax=Glycine max RepID=Q2PMD5_SOYBN	SoyBase	E_val: 0	ISS

Expression Patterns of Glyma04g12600

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 Glyma04g12600

Paralog	Evidence	Comments
Glyma06g47980	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 Glyma04g12600 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.04g113400	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma04g12600

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

Coding sequences of Glyma04g12600

Limit To All Plant Sequences

>Glyma04g12600.1   sequence type=CDS   gene model=Glyma04g12600   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGAGTTTGGTTATTGTGCAGTGTTTCTGATACTGCTTCTTCCAATCTCATGTGCAGCTTCTACGTTAGTTGATAAGAAGTTCAAAGAATGCTTGTTAACCCAACTTGATGGCAATTCTGAATCCATTGAAAAAATAACCTTCACGTCCTCCTCCTCATTATATCCCCAAGTCTTGGATTTATTGGAACAAAATCCTAGATGGGTTAATTCCACAAGGAAGCCTCTCATCATTCTAACACCTTTCCATGAATCAGAAATTCAAGCAGCCATTCTATGCAGCAAACAACTTGGGCTGCAGCTAAGAGTTAGAAGTGGTGGCCATGATTATGAGGGGCTATCATACCTTAGTAAGGTCCCATTTGTGATGGTTGACCTCATCAACATCCGTTCCATCGAAATTAACCTTGATGATGAAACTGCTTGGGTTCAGGCTGGGGCATCATTAGGTGAACTTTACTACAAAATTTCAAAAGCAAGTAAAGTGCATGGATTCCCTGCAGGAATCTGTCCAAGTATAGGGATAGGGGGACATATCAGTGGAGGGGGGCAAGGTATGATGATGAGGAGACATGGTCTAGCAGCAGACCATGTTGTTGATGCTTACCTCATTGATGTAAATGGGAAGATTCATGATAGAAAATCAATGGGAGAAGATGTTTTCTGGGCCATTAGAGGAGGAAGTGCCACTAGTTTTGGAGTCATCCTTGGATGGAAGATCAGGTTGGTCAGAGTTCCACCTATTGTTACTGGGTTCAACATTCCCAGAACACCGGAGGAAGGAGCCACCAATCTCATTCACAGGTGGCAACACATAGCACATGAATTGCATGAGGATCTTTTCATTAGAGTAATTGCTCAAAATAGTGGAGACAAATCAAAAAAATTCCAAGCAACCTTCAACTCTGTCTTCCTTGGAGGAATAGACAGTTTGATCCCACTGATGAATGAGAGTTTCCCAGAATTGGGATTGCAGGCCAAAGACTGCACTGAAATGAGCTGGATTCAATCAGTTCTGTTCATTGCTGGATACAAAAAGGACGACCCTCTAGAACTCTTGCTTGACAGAATTACCACATTTAAAAGCTTTTTCAAGGCAAAGTCCGACTTCGTGAAGGAGCCAATACCAAAATCTGGTCTAGACGGAGCTTGGAAAATGCTTCTAGAAGAGGAAACATTAGCAATGCTGATATTGGAACCTTACGGTGGTAGAATGGATGAAATTTCAGAATCTGACATCCCTTTTCCCCACAGAAAGGGTAACTTGTACAACATACAATACTTGGTCAAGTGGGAAGTGAATAGCGACGAAGAATCCAGGAGGCATCTACACTGGGCTAAAATGGTTTACAAATACATGACTCCTTATGTCTCAAAATCTCCAAGAGCTGCCTATTTCAACTATAAGGATCTTGATTTAGGCAAAAACAAGCATGAAAACACAAGCTACTCAAAAGCTAGTGTTTGGGGTGAGAAGTACTTTAAGGGAAACTTTAGGAGATTGGTACATATTAAGACAACGTTTGACCCCCAAAATTTTTTCAGGAATGAACAGAGTATTCCTCTCCTAAATTCCCAGCATTCTTAA

Predicted protein sequences of Glyma04g12600

Limit To All Plant Sequences

>Glyma04g12600.1   sequence type=predicted peptide   gene model=Glyma04g12600   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MEFGYCAVFLILLLPISCAASTLVDKKFKECLLTQLDGNSESIEKITFTSSSSLYPQVLDLLEQNPRWVNSTRKPLIILTPFHESEIQAAILCSKQLGLQLRVRSGGHDYEGLSYLSKVPFVMVDLINIRSIEINLDDETAWVQAGASLGELYYKISKASKVHGFPAGICPSIGIGGHISGGGQGMMMRRHGLAADHVVDAYLIDVNGKIHDRKSMGEDVFWAIRGGSATSFGVILGWKIRLVRVPPIVTGFNIPRTPEEGATNLIHRWQHIAHELHEDLFIRVIAQNSGDKSKKFQATFNSVFLGGIDSLIPLMNESFPELGLQAKDCTEMSWIQSVLFIAGYKKDDPLELLLDRITTFKSFFKAKSDFVKEPIPKSGLDGAWKMLLEEETLAMLILEPYGGRMDEISESDIPFPHRKGNLYNIQYLVKWEVNSDEESRRHLHWAKMVYKYMTPYVSKSPRAAYFNYKDLDLGKNKHENTSYSKASVWGEKYFKGNFRRLVHIKTTFDPQNFFRNEQSIPLLNSQHS*

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