Glyma05g04990 - SoyBase

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Report for Sequence Feature Glyma05g04990

Feature Type:	gene_model
Chromosome:	Gm05
Start:	4236969
stop:	4239283
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma05g04990

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT4G16780	AT	Annotation by Michelle Graham. TAIR10: homeobox protein 2 \| chr4:9449291-9450604 FORWARD LENGTH=284	SoyBase	E_val: 6.00E-109	ISS
GO:0006351	GO-bp	Annotation by Michelle Graham. GO Biological Process: transcription, DNA-dependent	SoyBase	N/A	ISS
GO:0006355	GO-bp	Annotation by Michelle Graham. GO Biological Process: regulation of transcription, DNA-dependent	SoyBase	N/A	ISS
GO:0008283	GO-bp	Annotation by Michelle Graham. GO Biological Process: cell proliferation	SoyBase	N/A	ISS
GO:0009641	GO-bp	Annotation by Michelle Graham. GO Biological Process: shade avoidance	SoyBase	N/A	ISS
GO:0009733	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to auxin stimulus	SoyBase	N/A	ISS
GO:0009735	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to cytokinin stimulus	SoyBase	N/A	ISS
GO:0009826	GO-bp	Annotation by Michelle Graham. GO Biological Process: unidimensional cell growth	SoyBase	N/A	ISS
GO:0010016	GO-bp	Annotation by Michelle Graham. GO Biological Process: shoot morphogenesis	SoyBase	N/A	ISS
GO:0010017	GO-bp	Annotation by Michelle Graham. GO Biological Process: red or far-red light signaling pathway	SoyBase	N/A	ISS
GO:0010218	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to far red light	SoyBase	N/A	ISS
GO:0045892	GO-bp	Annotation by Michelle Graham. GO Biological Process: negative regulation of transcription, DNA-dependent	SoyBase	N/A	ISS
GO:0048364	GO-bp	Annotation by Michelle Graham. GO Biological Process: root development	SoyBase	N/A	ISS
GO:0005634	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: nucleus	SoyBase	N/A	ISS
GO:0000976	GO-mf	Annotation by Michelle Graham. GO Molecular Function: transcription regulatory region sequence-specific DNA binding	SoyBase	N/A	ISS
GO:0003677	GO-mf	Annotation by Michelle Graham. GO Molecular Function: DNA binding	SoyBase	N/A	ISS
GO:0003700	GO-mf	Annotation by Michelle Graham. GO Molecular Function: sequence-specific DNA binding transcription factor activity	SoyBase	N/A	ISS
GO:0042803	GO-mf	Annotation by Michelle Graham. GO Molecular Function: protein homodimerization activity	SoyBase	N/A	ISS
GO:0043565	GO-mf	Annotation by Michelle Graham. GO Molecular Function: sequence-specific DNA binding	SoyBase	N/A	ISS
KOG0483	KOG	Transcription factor HEX, contains HOX and HALZ domains	JGI		ISS
PTHR24326	Panther	FAMILY NOT NAMED	JGI		ISS
PTHR24326:SF218	Panther		JGI		ISS
PF00046	PFAM	Homeobox domain	JGI		ISS
PF02183	PFAM	Homeobox associated leucine zipper	JGI		ISS
PF04618	PFAM	HD-ZIP protein N terminus	JGI		ISS
UniRef100_B7FJ62	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: Homeobox-leucine zipper protein HOX17 n=2 Tax=Medicago truncatula RepID=B7FJ62_MEDTR	SoyBase	E_val: 3.00E-157	ISS
UniRef100_UPI000189DA44	UniRef	Annotation by Michelle Graham. Best UniRef hit: UPI000189DA44 related cluster n=1 Tax=unknown RepID=UPI000189DA44	SoyBase	E_val: 0	ISS

Expression Patterns of Glyma05g04990

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

Glyma05g04990 not represented in the dataset	Glyma05g04990 not represented in the dataset
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 Glyma05g04990

Paralog	Evidence	Comments
Glyma17g15380	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 Glyma05g04990 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.05g062700	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma05g04990

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

Transcripts of Glyma05g04990

Limit To All Plant Sequences

>Glyma05g04990.2   sequence type=transcript   gene model=Glyma05g04990   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
GGCAAATGTCATGATTGAGATAACTGACCTTACTGACATAAAGTCATCATTGAACTTACACACCACTCTCACCCATTCTCTCTCCTTTCTATATAATCTCCACCCACATGGCCCCTCCTACCACTCCAAAACCAAAACTCAAACTCCCCTGCTATTCTTCTTCTCCCTCAATTCTCTCTCACCAAAACCCTTTGCACCCAATACCCTCAAACTCAACTTCAATTGCTAATTTTTATAAAGCTAGCCGGAGATGATGGTTCAAAAGGAAGATTTGGGTTTGAGTTTAAGTCTCAATTTCCCTCATCACAGTACCCCAAATCCTCAACATCTGAGTCTCATGTCATCCTCTACTCATTCCTCTTCCCCTTCTGGTTTCAACCCTCAAAAACCCTCTTGGAACGAGGCTTTCGCTTCTTCGGATCGAAACTCCGACACATGCAGAGGCGAAACACGGTCGTTCCTGCGGGGAATCGACGTGAACCGGTTACCTTCCGCCGTGGACGCCGAGGAGGAAGCGGGAGTTTCGTCTCCAAACAGCACCGTCTCGTGCGTGAGCGGAAAACGAAGCGAGAGAGAACCCAACGGCGAAGAACACGACATGGACAGAGCCTGTTCCCGCGGAATCAGCGACGAAGAAGACGCTGAAACCTCAAGGAAAAAACTTAGACTCTCCAAAGACCAATCCGCTATCCTCGAAGAAAGCTTCAAAGAACACAACACCCTCAACCCCAAGCAAAAATTGGCACTGGCAAAACAGCTAGGGCTTCGACCTAGACAAGTGGAGGTGTGGTTCCAGAACAGAAGGGCAAGGACTAAGCTGAAGCAAACTGAGGTGGACTGCGAAGTATTGAAAAGGTGCTGTGAGAATCTGACGGAGGAAAATAGAAGGTTACAGAAGGAGGTTCAGGAGCTTAGAGCACTGAAACTTTCCCCCCAGTTTTACATGCAAATGAGCCCACCCACGACGCTCACTATGTGCCCCTCTTGCGAGCGTGTGGCTGTTTCGTCCTCCGCCGTTGGTTCTGCCACGCGTCATCATCCCATGGCCCATGCCCATGCCCATGCTCGGCCCATGCCCAATGGCCCGTGGGCTTCCGCAGCTCCCATTCCACACCGGCCGTTTGATGCTTTCCACCAATGATCTTGAGGGTGTTTTGGTCATTGTGAATTATTATTATTTACAATTATGGGCCTACTTGTACCACCGTGAATGTGTGTACCCCAAAAGAGAGAAAATATTGGGAGAAACAGTGAGGGAGCGGTTGAAACAGCATGCTGTGGAATTGTGCGTGTTCCAAAGTGCGGTGCGGTCTAAGGATATGGTCATTAGAAGAAGGGATTTGGTGGGTCTCCAATGTTTTGTACCAGTTTGACCCATCAACTTTTGTTTTGTTGGGTATGACCTATATTAGTTAGGAGTTTTTCAGTTTTTAGTATTACTTAAATTTTCTCCTCAACAGAGACTTTGTGTAAAGTGCAATTTTCTAGTTAAATTTCACTTAATTGGGTTTGGGATAATTATTTATTAGTTAGTTTTTTGCGAAAATATTATCACACCCATTGAAACAATTTGCTTTAAGTATTTA

Coding sequences of Glyma05g04990

Limit To All Plant Sequences

>Glyma05g04990.1   sequence type=CDS   gene model=Glyma05g04990   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGATGGTTCAAAAGGAAGATTTGGGTTTGAGTTTAAGTCTCAATTTCCCTCATCACAGTACCCCAAATCCTCAACATCTGAGTCTCATGTCATCCTCTACTCATTCCTCTTCCCCTTCTGGTTTCAACCCTCAAAAACCCTCTTGGAACGAGGCTTTCGCTTCTTCGGATCCAGATCGAAACTCCGACACATGCAGAGGCGAAACACGGTCGTTCCTGCGGGGAATCGACGTGAACCGGTTACCTTCCGCCGTGGACGCCGAGGAGGAAGCGGGAGTTTCGTCTCCAAACAGCACCGTCTCGTGCGTGAGCGGAAAACGAAGCGAGAGAGAACCCAACGGCGAAGAACACGACATGGACAGAGCCTGTTCCCGCGGAATCAGCGACGAAGAAGACGCTGAAACCTCAAGGAAAAAACTTAGACTCTCCAAAGACCAATCCGCTATCCTCGAAGAAAGCTTCAAAGAACACAACACCCTCAACCCCAAGCAAAAATTGGCACTGGCAAAACAGCTAGGGCTTCGACCTAGACAAGTGGAGGTGTGGTTCCAGAACAGAAGGGCAAGGACTAAGCTGAAGCAAACTGAGGTGGACTGCGAAGTATTGAAAAGGTGCTGTGAGAATCTGACGGAGGAAAATAGAAGGTTACAGAAGGAGGTTCAGGAGCTTAGAGCACTGAAACTTTCCCCCCAGTTTTACATGCAAATGAGCCCACCCACGACGCTCACTATGTGCCCCTCTTGCGAGCGTGTGGCTGTTTCGTCCTCCGCCGTTGGTTCTGCCACGCGTCATCATCCCATGGCCCATGCCCATGCCCATGCTCGGCCCATGCCCAATGGCCCGTGGGCTTCCGCAGCTCCCATTCCACACCGGCCGTTTGATGCTTTCCACCAATGA

>Glyma05g04990.2   sequence type=CDS   gene model=Glyma05g04990   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGATGGTTCAAAAGGAAGATTTGGGTTTGAGTTTAAGTCTCAATTTCCCTCATCACAGTACCCCAAATCCTCAACATCTGAGTCTCATGTCATCCTCTACTCATTCCTCTTCCCCTTCTGGTTTCAACCCTCAAAAACCCTCTTGGAACGAGGCTTTCGCTTCTTCGGATCGAAACTCCGACACATGCAGAGGCGAAACACGGTCGTTCCTGCGGGGAATCGACGTGAACCGGTTACCTTCCGCCGTGGACGCCGAGGAGGAAGCGGGAGTTTCGTCTCCAAACAGCACCGTCTCGTGCGTGAGCGGAAAACGAAGCGAGAGAGAACCCAACGGCGAAGAACACGACATGGACAGAGCCTGTTCCCGCGGAATCAGCGACGAAGAAGACGCTGAAACCTCAAGGAAAAAACTTAGACTCTCCAAAGACCAATCCGCTATCCTCGAAGAAAGCTTCAAAGAACACAACACCCTCAACCCCAAGCAAAAATTGGCACTGGCAAAACAGCTAGGGCTTCGACCTAGACAAGTGGAGGTGTGGTTCCAGAACAGAAGGGCAAGGACTAAGCTGAAGCAAACTGAGGTGGACTGCGAAGTATTGAAAAGGTGCTGTGAGAATCTGACGGAGGAAAATAGAAGGTTACAGAAGGAGGTTCAGGAGCTTAGAGCACTGAAACTTTCCCCCCAGTTTTACATGCAAATGAGCCCACCCACGACGCTCACTATGTGCCCCTCTTGCGAGCGTGTGGCTGTTTCGTCCTCCGCCGTTGGTTCTGCCACGCGTCATCATCCCATGGCCCATGCCCATGCCCATGCTCGGCCCATGCCCAATGGCCCGTGGGCTTCCGCAGCTCCCATTCCACACCGGCCGTTTGATGCTTTCCACCAATGA

Predicted protein sequences of Glyma05g04990

Limit To All Plant Sequences

>Glyma05g04990.1   sequence type=predicted peptide   gene model=Glyma05g04990   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MMVQKEDLGLSLSLNFPHHSTPNPQHLSLMSSSTHSSSPSGFNPQKPSWNEAFASSDPDRNSDTCRGETRSFLRGIDVNRLPSAVDAEEEAGVSSPNSTVSCVSGKRSEREPNGEEHDMDRACSRGISDEEDAETSRKKLRLSKDQSAILEESFKEHNTLNPKQKLALAKQLGLRPRQVEVWFQNRRARTKLKQTEVDCEVLKRCCENLTEENRRLQKEVQELRALKLSPQFYMQMSPPTTLTMCPSCERVAVSSSAVGSATRHHPMAHAHAHARPMPNGPWASAAPIPHRPFDAFHQ*

>Glyma05g04990.2   sequence type=predicted peptide   gene model=Glyma05g04990   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MMVQKEDLGLSLSLNFPHHSTPNPQHLSLMSSSTHSSSPSGFNPQKPSWNEAFASSDRNSDTCRGETRSFLRGIDVNRLPSAVDAEEEAGVSSPNSTVSCVSGKRSEREPNGEEHDMDRACSRGISDEEDAETSRKKLRLSKDQSAILEESFKEHNTLNPKQKLALAKQLGLRPRQVEVWFQNRRARTKLKQTEVDCEVLKRCCENLTEENRRLQKEVQELRALKLSPQFYMQMSPPTTLTMCPSCERVAVSSSAVGSATRHHPMAHAHAHARPMPNGPWASAAPIPHRPFDAFHQ*

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