SoyBase Follow us on Twitter @SoyBaseDatabase
Integrating Genetics and Genomics to Advance Soybean Research

Report for Sequence Feature Glyma03g38620

Feature Type:gene_model
Chromosome:Gm03
Start:44925730
stop:44930360
Source:JGI
Version:Wm82.a1.v1.1
High confidence:yes



A newer version of this gene model can be found here:

Annotations for Glyma03g38620
Database IDAnnotation TypeAnnotation DescriptionAnnotation SourceMatch ScoreEvidence Code
AT1G09570AT Annotation by Michelle Graham. TAIR10: phytochrome A | chr1:3095498-3099216 REVERSE LENGTH=1122 SoyBaseE_val: 0ISS
GO:0006355GO-bp Annotation by Michelle Graham. GO Biological Process: regulation of transcription, DNA-dependent SoyBaseN/AISS
GO:0007165GO-bp Annotation by Michelle Graham. GO Biological Process: signal transduction SoyBaseN/AISS
GO:0007623GO-bp Annotation by Michelle Graham. GO Biological Process: circadian rhythm SoyBaseN/AISS
GO:0009584GO-bp Annotation by Michelle Graham. GO Biological Process: detection of visible light SoyBaseN/AISS
GO:0009585GO-bp Annotation by Michelle Graham. GO Biological Process: red, far-red light phototransduction SoyBaseN/AISS
GO:0009630GO-bp Annotation by Michelle Graham. GO Biological Process: gravitropism SoyBaseN/AISS
GO:0009638GO-bp Annotation by Michelle Graham. GO Biological Process: phototropism SoyBaseN/AISS
GO:0009640GO-bp Annotation by Michelle Graham. GO Biological Process: photomorphogenesis SoyBaseN/AISS
GO:0010017GO-bp Annotation by Michelle Graham. GO Biological Process: red or far-red light signaling pathway SoyBaseN/AISS
GO:0010161GO-bp Annotation by Michelle Graham. GO Biological Process: red light signaling pathway SoyBaseN/AISS
GO:0010201GO-bp Annotation by Michelle Graham. GO Biological Process: response to continuous far red light stimulus by the high-irradiance response system SoyBaseN/AISS
GO:0010203GO-bp Annotation by Michelle Graham. GO Biological Process: response to very low fluence red light stimulus SoyBaseN/AISS
GO:0010218GO-bp Annotation by Michelle Graham. GO Biological Process: response to far red light SoyBaseN/AISS
GO:0017006GO-bp Annotation by Michelle Graham. GO Biological Process: protein-tetrapyrrole linkage SoyBaseN/AISS
GO:0017148GO-bp Annotation by Michelle Graham. GO Biological Process: negative regulation of translation SoyBaseN/AISS
GO:0018106GO-bp Annotation by Michelle Graham. GO Biological Process: peptidyl-histidine phosphorylation SoyBaseN/AISS
GO:0018298GO-bp Annotation by Michelle Graham. GO Biological Process: protein-chromophore linkage SoyBaseN/AISS
GO:0046685GO-bp Annotation by Michelle Graham. GO Biological Process: response to arsenic-containing substance SoyBaseN/AISS
GO:0005634GO-cc Annotation by Michelle Graham. GO Cellular Compartment: nucleus SoyBaseN/AISS
GO:0005737GO-cc Annotation by Michelle Graham. GO Cellular Compartment: cytoplasm SoyBaseN/AISS
GO:0016020GO-cc Annotation by Michelle Graham. GO Cellular Compartment: membrane SoyBaseN/AISS
GO:0016604GO-cc Annotation by Michelle Graham. GO Cellular Compartment: nuclear body SoyBaseN/AISS
GO:0000155GO-mf Annotation by Michelle Graham. GO Molecular Function: phosphorelay sensor kinase activity SoyBaseN/AISS
GO:0004673GO-mf Annotation by Michelle Graham. GO Molecular Function: protein histidine kinase activity SoyBaseN/AISS
GO:0004871GO-mf Annotation by Michelle Graham. GO Molecular Function: signal transducer activity SoyBaseN/AISS
GO:0005515GO-mf Annotation by Michelle Graham. GO Molecular Function: protein binding SoyBaseN/AISS
GO:0005524GO-mf Annotation by Michelle Graham. GO Molecular Function: ATP binding SoyBaseN/AISS
GO:0008020GO-mf Annotation by Michelle Graham. GO Molecular Function: G-protein coupled photoreceptor activity SoyBaseN/AISS
GO:0009881GO-mf Annotation by Michelle Graham. GO Molecular Function: photoreceptor activity SoyBaseN/AISS
GO:0009883GO-mf Annotation by Michelle Graham. GO Molecular Function: red or far-red light photoreceptor activity SoyBaseN/AISS
GO:0031516GO-mf Annotation by Michelle Graham. GO Molecular Function: far-red light photoreceptor activity SoyBaseN/AISS
GO:0042802GO-mf Annotation by Michelle Graham. GO Molecular Function: identical protein binding SoyBaseN/AISS
GO:0042803GO-mf Annotation by Michelle Graham. GO Molecular Function: protein homodimerization activity SoyBaseN/AISS
PF00360PFAM Phytochrome region JGI ISS
PF00512PFAM His Kinase A (phosphoacceptor) domain JGI ISS
PF00989PFAM PAS fold JGI ISS
PF01590PFAM GAF domain JGI ISS
PF08446PFAM PAS fold JGI ISS
UniRef100_C1PHB9UniRef Annotation by Michelle Graham. Most informative UniRef hit: Phytochrome n=1 Tax=Glycine max RepID=C1PHB9_SOYBN SoyBaseE_val: 0ISS
UniRef100_I1JR06UniRef Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein (Fragment) n=1 Tax=Glycine max RepID=I1JR06_SOYBN SoyBaseE_val: 0ISS

Proteins Associated with Glyma03g38620
LocusGene SymbolProtein Name
PHYA4 Phytochrome A gene 4

Expression Patterns of Glyma03g38620
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 Glyma03g38620
ParalogEvidenceComments
Glyma19g41210 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 Glyma03g38620 Gene Call Version Wm82.a1.v1.1
Corresponding NameAnnotation VersionEvidenceComments
Glyma.03g227300 Wm82.a2.v1IGC As supplied by JGI

References for Glyma03g38620
Schmutz et al. 2010
  Genome sequence of the palaeopolyploid soybean
  Nature 2010, 463:178-183

Coding sequences of Glyma03g38620
>Glyma03g38620.1   sequence type=CDS   gene model=Glyma03g38620   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGATAATTCTTGTTTACGTACTCGGCATGATGTTTCTGTCGTTTCCTGGTCAATTAAGATCATCAAGACCCAGTGCTAGGAGGATATCTCAGACAAGTTTAGATGCAAAACCGCATGCAACATTTGAGGAATCAGGTAGTTCTTTTGACTACTCGAATTCAGTGAAAATGTCTCCAGCTGGTACAGGAGGAGGCACTGTCAGTGGAGAGCATGAACCAAAGTCTGATAGAGCAGCAACAACTGCTTACCTCCATCAGATGCAGAAAGGCAAGCTTATTCAGCCATTTGGGTGCTTGTTGGTCTTAGATGAGAAAACATATAAGGTCATCGCTTACAGTGAGAATGCACCTGAAATGCTCACCATGGCTAGTCATGCTGTCCCCAGTGTTGATGACCACCCTGCTCTTGACATTGGCACTTACATAAGGACTATTTTCACTGCCCCAAGTATTGCTTCTATTCACAAGGTACTTGGATTTGGGGATCTTTCACTTCATAACACCATTCTAGTCCATTGCAAGACCTTTGGGAATCCCTTTTACGCAATTATCCATCTTGTTACCGGTAGCACAATCATCGATTTTGAGTCGGTCCAGCCTCCTGAAGTTCCCATGACTGCATCCGGTTCCCTGCAATCCTACTACAAGCTTGCAGCAAAAGCAACAACTAGATTGCAATCCTTGGCTACTGTGAACATGGAAACACTATGTAACACAATGGTTCAAGAGGTTTTTGAGCTCACAGGTTATGACAGAGTGATGGCTTATAAATTCCATGACGATGATCATGGGGAAGTGATTGCTGAGGTGAAAAGGCCAGGCCTAGAGCCATATCTGGGGTTGCACTACCCAGCCACTGATATTCCCCATGCGACGCGCTTTTCTTTATGGAGAACAAGGTGCGTGATTCAAGACAAAAAAATTCCATTTGATTTAGCTTTGTATGGATCAACCTTGAGGGCTGCTCATAGTTGCCACTTGCAATTCATGGTGAACATGAATTCTAGTGCTTCCTTGGTATTGGCAGTTGTGATCAATGACAATGATGAAGATGGGAATAGTTCTGATGATGCTGCTGTTCAGCAGCCACACAAGAGTAGTACGAGTCTATGGGGTTTAGTAGTTTGCCATCACACTACTCCCAAGTTTGTTCCTCAGGGGCGTATTTGTCATCCACGTGTGGGCAAAGAGCTAGAGATTGAGTATCAGATTGTTGAGAAGAACATCCTGCGAACTCAAACACACTTGTTTGATGTGCTGACGCGAGATGAGCCCCTAGCCATTGTTTCACAGAGTCCTAATATGATGGATCTTGTCAAGTGTGATGGAGCGACCCTGTTATATAAAAACAAGGTGTGGAGATTAGGGGTAACGCCAAGTGAATCTCAGATAAGAGAGATAGCTTTGTGGCTCTCTCAGTGCCATAGGGATTCCACAGGTTTTTTTACAGATAGCTTGTCTGATGCAGGCTTCCCTGGGGCTGCTGCTCTTGGTGATATTGCATGTGGAATGACATCTGCCAGAATAACTTCCAAAGATATAGTTTTCTGGTTTTGGTCTCACACGGCTGCAGAAATCCGATGCGACGGTGCAAAGCATGAACCTGGTGAAAGGGATGATGTTGTCAAGAACAGGAGCTTACTCTGGAAGGTCTATGAAACGGATGCCATTCATTCATTGCATTTAATACTGAGAGATGCGTTCAAAGAGACAGAGAGCATGAAGATAGCCACATATGCTCCCAATTCAAGGCTTGGTTGTTTGAACATTGAAGAAACGCAAGGACTGGAGGCAGTGACAAATGAGATGGTAAGGTTAATTGAAACAGCAACAGTGCCAGTTTTGGCAGTTGATGTTAATGGGATGGTCAATGGATGGAACACCAAAATTGCTGAGTTGACAGGTCTTCCAAGTGATGAAGCTATGGGAAAGCATTTTCTCACACTTGTAGAGGATTTTTCAGTAGATAGAGTCAAGAAGATGTTGCACATGGCATTGCAGGGTGAGGAAGAGGAAGAGAGAAATGTCCAATTTGAGATCAACACATATGATTTCAAGATTGATTCTGGTCCTGCCAGCTTGGTAGTTAATGCTTGTGCAAGCAGGGATCTTCAAGATAATATTGTGGGAGTTTGTTTTGTGGCACAAGGTATAACTGCTCAGAAAACAATGATGGAAAAATTCCCCCGAATTGAAGGTGACTACAAGGCAATTGTACAGAACCCAAACCCATCGATCCCTCCATTATTTAGCACAGATGAATTTGGTTGGTGTTGTGAATGGAATTCAGCTATGGCAAAATTAACCGGATGGAAGCGAGAGGAGGTGATGGATAAAATGCTTTTAGGAGAGATTTTCGGGACCCAGATAGCTGGTTGTCGCCTAAGGAATCATGAAGCTGTTGTTAATTTTAGCATTGTACTTAATACAGCCATGGCTGGTTTGGAAACAGAGAAGGTTCCTATTGGTTTCTTTACTCGCGATGGAAAGCATGTAGAATCTAGTCCAGAGCTGCAACAGGCATTACACATTCAGCTCCTATCTGAGCAAACTGCAATGAAAAGACTGAAAGATTTAAATTATTTGAAAAGGCAAATCCGGAATCCTTTATATGGGATTATGTTCTCCCGGAAATTGTTAGAGGGTACTGAGTTGGGAGCTGAACAAAAACAATTTCTGCAAATGAGCACGCAGTGTCAACACCAGCTTAGCAAAATTCTGGATGACTCAGATCTTGACAGCATCATTGATGGTTGCCATTTGTGTGGTATTTTGAGCATTTATCAACAAGAGTTCCTATTAAATCATACAATTGTAAACATTACGCATGATGGTTTTGGGGTTCCAGAAACATTGCTGAACCAGATGTTTGGACGTGATGGACATGAATCTGAGGAGGGTATTAGCATGCTGATTAGCAGAAAGCTCATGAAGGGAGACGTACGTTACATAAGGGAAGCAGGGAAAATCATCTTTCATCTTATCTGTTGA
Predicted protein sequences of Glyma03g38620
>Glyma03g38620.1   sequence type=predicted peptide   gene model=Glyma03g38620   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MIILVYVLGMMFLSFPGQLRSSRPSARRISQTSLDAKPHATFEESGSSFDYSNSVKMSPAGTGGGTVSGEHEPKSDRAATTAYLHQMQKGKLIQPFGCLLVLDEKTYKVIAYSENAPEMLTMASHAVPSVDDHPALDIGTYIRTIFTAPSIASIHKVLGFGDLSLHNTILVHCKTFGNPFYAIIHLVTGSTIIDFESVQPPEVPMTASGSLQSYYKLAAKATTRLQSLATVNMETLCNTMVQEVFELTGYDRVMAYKFHDDDHGEVIAEVKRPGLEPYLGLHYPATDIPHATRFSLWRTRCVIQDKKIPFDLALYGSTLRAAHSCHLQFMVNMNSSASLVLAVVINDNDEDGNSSDDAAVQQPHKSSTSLWGLVVCHHTTPKFVPQGRICHPRVGKELEIEYQIVEKNILRTQTHLFDVLTRDEPLAIVSQSPNMMDLVKCDGATLLYKNKVWRLGVTPSESQIREIALWLSQCHRDSTGFFTDSLSDAGFPGAAALGDIACGMTSARITSKDIVFWFWSHTAAEIRCDGAKHEPGERDDVVKNRSLLWKVYETDAIHSLHLILRDAFKETESMKIATYAPNSRLGCLNIEETQGLEAVTNEMVRLIETATVPVLAVDVNGMVNGWNTKIAELTGLPSDEAMGKHFLTLVEDFSVDRVKKMLHMALQGEEEEERNVQFEINTYDFKIDSGPASLVVNACASRDLQDNIVGVCFVAQGITAQKTMMEKFPRIEGDYKAIVQNPNPSIPPLFSTDEFGWCCEWNSAMAKLTGWKREEVMDKMLLGEIFGTQIAGCRLRNHEAVVNFSIVLNTAMAGLETEKVPIGFFTRDGKHVESSPELQQALHIQLLSEQTAMKRLKDLNYLKRQIRNPLYGIMFSRKLLEGTELGAEQKQFLQMSTQCQHQLSKILDDSDLDSIIDGCHLCGILSIYQQEFLLNHTIVNITHDGFGVPETLLNQMFGRDGHESEEGISMLISRKLMKGDVRYIREAGKIIFHLIC*






Funded by the USDA-ARS. Developed by the USDA-ARS SoyBase and Legume Clade Database group at the Iowa State University, Ames, IA
 
USDA Logo
Iowa State University Logo