Glyma04g00960 - SoyBase

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Report for Sequence Feature Glyma04g00960

Feature Type:	gene_model
Chromosome:	Gm04
Start:	559167
stop:	562100
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma04g00960

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT4G34710	AT	Annotation by Michelle Graham. TAIR10: arginine decarboxylase 2 \| chr4:16560315-16562450 REVERSE LENGTH=711	SoyBase	E_val: 0	ISS
GO:0006527	GO-bp	Annotation by Michelle Graham. GO Biological Process: arginine catabolic process	SoyBase	N/A	ISS
GO:0006596	GO-bp	Annotation by Michelle Graham. GO Biological Process: polyamine biosynthetic process	SoyBase	N/A	ISS
GO:0006612	GO-bp	Annotation by Michelle Graham. GO Biological Process: protein targeting to membrane	SoyBase	N/A	ISS
GO:0006970	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to osmotic stress	SoyBase	N/A	ISS
GO:0006979	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to oxidative stress	SoyBase	N/A	ISS
GO:0007165	GO-bp	Annotation by Michelle Graham. GO Biological Process: signal transduction	SoyBase	N/A	ISS
GO:0008295	GO-bp	Annotation by Michelle Graham. GO Biological Process: spermidine biosynthetic process	SoyBase	N/A	ISS
GO:0009409	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to cold	SoyBase	N/A	ISS
GO:0009414	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to water deprivation	SoyBase	N/A	ISS
GO:0009446	GO-bp	Annotation by Michelle Graham. GO Biological Process: putrescine biosynthetic process	SoyBase	N/A	ISS
GO:0009611	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to wounding	SoyBase	N/A	ISS
GO:0009620	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to fungus	SoyBase	N/A	ISS
GO:0009651	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to salt stress	SoyBase	N/A	ISS
GO:0009695	GO-bp	Annotation by Michelle Graham. GO Biological Process: jasmonic acid biosynthetic process	SoyBase	N/A	ISS
GO:0009723	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to ethylene stimulus	SoyBase	N/A	ISS
GO:0009733	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to auxin stimulus	SoyBase	N/A	ISS
GO:0009737	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to abscisic acid stimulus	SoyBase	N/A	ISS
GO:0009738	GO-bp	Annotation by Michelle Graham. GO Biological Process: abscisic acid mediated signaling pathway	SoyBase	N/A	ISS
GO:0009753	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to jasmonic acid stimulus	SoyBase	N/A	ISS
GO:0009793	GO-bp	Annotation by Michelle Graham. GO Biological Process: embryo development ending in seed dormancy	SoyBase	N/A	ISS
GO:0009863	GO-bp	Annotation by Michelle Graham. GO Biological Process: salicylic acid mediated signaling pathway	SoyBase	N/A	ISS
GO:0009867	GO-bp	Annotation by Michelle Graham. GO Biological Process: jasmonic acid mediated signaling pathway	SoyBase	N/A	ISS
GO:0010363	GO-bp	Annotation by Michelle Graham. GO Biological Process: regulation of plant-type hypersensitive response	SoyBase	N/A	ISS
GO:0042538	GO-bp	Annotation by Michelle Graham. GO Biological Process: hyperosmotic salinity response	SoyBase	N/A	ISS
GO:0048316	GO-bp	Annotation by Michelle Graham. GO Biological Process: seed development	SoyBase	N/A	ISS
GO:0080167	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to karrikin	SoyBase	N/A	ISS
GO:0005634	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: nucleus	SoyBase	N/A	ISS
GO:0003824	GO-mf	Annotation by Michelle Graham. GO Molecular Function: catalytic activity	SoyBase	N/A	ISS
GO:0008792	GO-mf	Annotation by Michelle Graham. GO Molecular Function: arginine decarboxylase activity	SoyBase	N/A	ISS
PTHR11482	Panther	ARGININE/DIAMINOPIMELATE/ORNITHINE DECARBOXYLASE	JGI		ISS
PTHR11482:SF3	Panther	ARGININE DECARBOXYLASE	JGI		ISS
PF00278	PFAM	Pyridoxal-dependent decarboxylase, C-terminal sheet domain	JGI		ISS
PF02784	PFAM	Pyridoxal-dependent decarboxylase, pyridoxal binding domain	JGI		ISS
UniRef100_I1JSI5	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: Arginine decarboxylase n=1 Tax=Glycine max RepID=I1JSI5_SOYBN	SoyBase	E_val: 0	ISS
UniRef100_I1JSI5	UniRef	Annotation by Michelle Graham. Best UniRef hit: Arginine decarboxylase n=1 Tax=Glycine max RepID=I1JSI5_SOYBN	SoyBase	E_val: 0	ISS

Expression Patterns of Glyma04g00960

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 Glyma04g00960

Paralog	Evidence	Comments
Glyma06g00990	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 Glyma04g00960 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.04g007700	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma04g00960

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

Coding sequences of Glyma04g00960

Limit To All Plant Sequences

>Glyma04g00960.1   sequence type=CDS   gene model=Glyma04g00960   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGCCTGTCCTGGCTTGTTGCGTGGATGCTGCAGCACCTCCCGGCTATGCATTTGCCGGTGACATCTCTTTTCCGGCGCCGATCGCCTTTACTGGCGTACCTCCGGCCACGGCAGACGACACCAACAACAGCAACAACCATTGGTCGCCGTCTCTCTCCGCCGCCCTTTACAACGTCGACGGCTGGGGCGGCCCCTACTTCGCCGTCAACACCGCCGGGAACATCTCCGTTCGCCCACATGGTTCCGACACGCTGTCGCACCAGGAGATCGATTTGCTGAAGATTGTGAAGAAGGCCTCCGATCCCAAATCTCTCGGTGGTCTCGGCCTTCAGCTACCCCTCATTGTCCGCTTCCCGGACGTTCTCAAGAACCGGTTGGACTCCCTCCAATCGGCTTTCGATTACGCAATCCAATCTGGAGGGTACGAGTCTCATTACCAAGGAGTTTACCCCGTGAAATGCAACCAGGACCGGTTCGTGGTGGAGGATATTGTTAAATTCGGTTCGTCCTTCCGGTTCGGTCTGGAGGCCGGCTCCAAGCCGGAGCTCCTTCTGGCCATGAGCTGTCTTTGCAAAGGCAACCCCGACGCGCTTTTGATTTGCAACGGCTTCAAGGATGCGGAGTACATTTCTCTTGCCCTGGTTGCCAACAAGCTTGCGCTCAACACCGTGATTGTTCTGGAGCAGGAAGAGGAGGTTGATTTGATCGTTGAATTGAGCAAGAAGCTCTGCATTAAGCCCGTGATTGGGCTTCGTGCGAAGCTTAGAACCAAGCATTCTGGGCATTTCGGTGGGACTTCAGGAGAGAAGGGGAAGTTTGGGCTCACCACCGCACAGATTCTGAGGGTTGTGAAGAAGCTGGCCCACGCAGGCATGCTGGATTGCTTGCAACTGCTGCATTTTCATATTGGTTCTCAGATTCCCTCAACCGCGTTGCTTGCTGATGGCGTGGGAGAGGCTGCGCAGATCTACTGCGAGCTGGTTCGGCTCGGGGCGAACATGCGAGTCATCGATATTGGAGGTGGACTGGGCATAGATTACGACGGTTCCAAATCTTGTGACTCAGATATTTCTGTTGAGTACGGTCTCGAGGAGTATGCTGCAGCGGTTGTTCACGCGGTTCAGTGTGTGTGCGACCGAAGGTCCGTGAAACACCCTGTCATCTGCAGCGAGAGTGGGAGAGCCATCGTGTCTCATCATTCGGTCTTGATTTTCGAGGCGGTTGGCACCAGCAGCACAAACGGCGGAGGAGCTCCCCCGGCATTGTCAGCGCATTACCTGGCGGAGGAGCTGTCGGAGGACTACGGATATCTCTCGGAGCTGGCGTTCCGAGGGGACTATGAAACGTGCCTGGTGTACACGGAGGAGATGAAAGAGCGGTGCGTGGAGCAGTTCAAGCAGGGGACGGTGTGTATGGAACAGCTGGCAGCGGTGGAAGGGTTGTGTGAATTGGTGAGGAAGGCGGTTGGGGCGGCGGAATCGGTTCGGAGATATCACGTGAACTTGTCTATTTTCACGTCCGTTCCAGACGCGTGGGGCATTGACCAGGTGTTTCCCATTATCCCCATTCACCGGTTGGAAGAAAAGCCTTCGGTGAGGGGTATTCTCTCGGACTTGACTTGTGACAGCGACGGTAAGATTGACAAGTTCATCAACGGAGAGTCCAGCTTGGCGCTTCATGAAATGGAAGGAGGAAGTTACTATCTGGGAATGTTTTTGGGTGGGGCTTACGAGGAGGCGCTCGGTGGAGTCCACAATTTGTTCGGCGGCCCCAGCGTGATCAGGGTGTCGCAGAGCGATGGCCCTCACAGCTTCGCGGTGACGCGTGCCGTGCCGGGGCCATCCTGTGGAGATGTTCTTCGAGTGATGCAGCACCAGCCCGAGCTCATGTTCGAGACACTCAAGCACCGCGCGCAGGAGTATGTCAGCCACGACAACGCAGCAGCGGTTCTGGCCGCTGGCCTTGCTCGCACCTTTGACAGAATGCCTTATCTGCTGCCTCTGTCTTCCTTTGTGGCTGATGATGTTGCTGCTGCTGCTGCTGTTCCTGCTGGTGAAGATGATGAAGAGCAGTGGTCTTATATATGTGCTTGA

Predicted protein sequences of Glyma04g00960

Limit To All Plant Sequences

>Glyma04g00960.1   sequence type=predicted peptide   gene model=Glyma04g00960   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MPVLACCVDAAAPPGYAFAGDISFPAPIAFTGVPPATADDTNNSNNHWSPSLSAALYNVDGWGGPYFAVNTAGNISVRPHGSDTLSHQEIDLLKIVKKASDPKSLGGLGLQLPLIVRFPDVLKNRLDSLQSAFDYAIQSGGYESHYQGVYPVKCNQDRFVVEDIVKFGSSFRFGLEAGSKPELLLAMSCLCKGNPDALLICNGFKDAEYISLALVANKLALNTVIVLEQEEEVDLIVELSKKLCIKPVIGLRAKLRTKHSGHFGGTSGEKGKFGLTTAQILRVVKKLAHAGMLDCLQLLHFHIGSQIPSTALLADGVGEAAQIYCELVRLGANMRVIDIGGGLGIDYDGSKSCDSDISVEYGLEEYAAAVVHAVQCVCDRRSVKHPVICSESGRAIVSHHSVLIFEAVGTSSTNGGGAPPALSAHYLAEELSEDYGYLSELAFRGDYETCLVYTEEMKERCVEQFKQGTVCMEQLAAVEGLCELVRKAVGAAESVRRYHVNLSIFTSVPDAWGIDQVFPIIPIHRLEEKPSVRGILSDLTCDSDGKIDKFINGESSLALHEMEGGSYYLGMFLGGAYEEALGGVHNLFGGPSVIRVSQSDGPHSFAVTRAVPGPSCGDVLRVMQHQPELMFETLKHRAQEYVSHDNAAAVLAAGLARTFDRMPYLLPLSSFVADDVAAAAAVPAGEDDEEQWSYICA*

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