SoyBase SoyBase transitions to NEW site on 10/1/2024
Integrating Genetics and Genomics to Advance Soybean Research

Report for Sequence Feature Glyma04g05080

Feature Type:gene_model
Chromosome:Gm04
Start:3815995
stop:3820287
Source:JGI
Version:Wm82.a1.v1.1
High confidence:yes



A newer version of this gene model can be found here:

Annotations for Glyma04g05080
Database IDAnnotation TypeAnnotation DescriptionAnnotation SourceMatch ScoreEvidence Code
AT4G37750AT Annotation by Michelle Graham. TAIR10: Integrase-type DNA-binding superfamily protein | chr4:17739782-17742189 FORWARD LENGTH=555 SoyBaseE_val: 4.00E-159ISS
GO:0006306GO-bp Annotation by Michelle Graham. GO Biological Process: DNA methylation SoyBaseN/AISS
GO:0006346GO-bp Annotation by Michelle Graham. GO Biological Process: methylation-dependent chromatin silencing SoyBaseN/AISS
GO:0006355GO-bp Annotation by Michelle Graham. GO Biological Process: regulation of transcription, DNA-dependent SoyBaseN/AISS
GO:0007276GO-bp Annotation by Michelle Graham. GO Biological Process: gamete generation SoyBaseN/AISS
GO:0009855GO-bp Annotation by Michelle Graham. GO Biological Process: determination of bilateral symmetry SoyBaseN/AISS
GO:0009887GO-bp Annotation by Michelle Graham. GO Biological Process: organ morphogenesis SoyBaseN/AISS
GO:0009944GO-bp Annotation by Michelle Graham. GO Biological Process: polarity specification of adaxial/abaxial axis SoyBaseN/AISS
GO:0009965GO-bp Annotation by Michelle Graham. GO Biological Process: leaf morphogenesis SoyBaseN/AISS
GO:0010014GO-bp Annotation by Michelle Graham. GO Biological Process: meristem initiation SoyBaseN/AISS
GO:0010051GO-bp Annotation by Michelle Graham. GO Biological Process: xylem and phloem pattern formation SoyBaseN/AISS
GO:0010073GO-bp Annotation by Michelle Graham. GO Biological Process: meristem maintenance SoyBaseN/AISS
GO:0010089GO-bp Annotation by Michelle Graham. GO Biological Process: xylem development SoyBaseN/AISS
GO:0010492GO-bp Annotation by Michelle Graham. GO Biological Process: maintenance of shoot apical meristem identity SoyBaseN/AISS
GO:0016246GO-bp Annotation by Michelle Graham. GO Biological Process: RNA interference SoyBaseN/AISS
GO:0031047GO-bp Annotation by Michelle Graham. GO Biological Process: gene silencing by RNA SoyBaseN/AISS
GO:0042127GO-bp Annotation by Michelle Graham. GO Biological Process: regulation of cell proliferation SoyBaseN/AISS
GO:0044036GO-bp Annotation by Michelle Graham. GO Biological Process: cell wall macromolecule metabolic process SoyBaseN/AISS
GO:0048439GO-bp Annotation by Michelle Graham. GO Biological Process: flower morphogenesis SoyBaseN/AISS
GO:0048519GO-bp Annotation by Michelle Graham. GO Biological Process: negative regulation of biological process SoyBaseN/AISS
GO:0005634GO-cc Annotation by Michelle Graham. GO Cellular Compartment: nucleus SoyBaseN/AISS
GO:0003677GO-mf Annotation by Michelle Graham. GO Molecular Function: DNA binding SoyBaseN/AISS
GO:0003700GO-mf Annotation by Michelle Graham. GO Molecular Function: sequence-specific DNA binding transcription factor activity SoyBaseN/AISS
PTHR11795Panther PROTEIN KINASE JGI ISS
PTHR11795:SF332Panther JGI ISS
PF00847PFAM AP2 domain JGI ISS
UniRef100_B9H6Q2UniRef Annotation by Michelle Graham. Most informative UniRef hit: AP2 domain-containing transcription factor n=1 Tax=Populus trichocarpa RepID=B9H6Q2_POPTR SoyBaseE_val: 0ISS
UniRef100_UPI0002339680UniRef Annotation by Michelle Graham. Best UniRef hit: UPI0002339680 related cluster n=1 Tax=unknown RepID=UPI0002339680 SoyBaseE_val: 0ISS

Expression Patterns of Glyma04g05080
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 Glyma04g05080
ParalogEvidenceComments
Glyma06g05170 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 Glyma04g05080 Gene Call Version Wm82.a1.v1.1
Corresponding NameAnnotation VersionEvidenceComments
Glyma.04g047900 Wm82.a2.v1IGC As supplied by JGI

References for Glyma04g05080
Schmutz et al. 2010
  Genome sequence of the palaeopolyploid soybean
  Nature 2010, 463:178-183

Coding sequences of Glyma04g05080
>Glyma04g05080.2   sequence type=CDS   gene model=Glyma04g05080   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGAAGCGCATAAATGAGAGTAACAACACCGATGATGGAAACAATCATAACTGGTTGGGGTTCTCTCTCTCACCCCACATGAAAATGGAGGCTACTTCAGCAGCCACTGTTCCGACAACCTTCTACATGTCCCCTTCTCAATCTCACTTGTCCAACTTCGGAATGTGTTACGGTGTCGGAGAAAATGGTAACTTCCATTCTCCACTTACGGTTATGCCTCTCAAGTCTGATGGGTCACTTTGTATCTTGGAAGCTCTCAAAAGATCACAAACGCAAGTGATGGTGCCAACTTCGTCTCCGAAATTGGAGGACTTTCTAGGTGGTGCAACTATGGGAACTCACGAATATGGAAGCCACGAGAGAGGTTTGAGCCTAGACAGCATCTATTATAACTCCCAAAACGCAGAGGCTCAACCCAACAGAGACCTTCTTTCACAACCCTTCAGGCAACAAGGTCATATGAGTGTCCAAACACACCCTTATTACTCAGGCCTTGCTTGCCATGGTTTATATCAAGCACCGTTGGAGGAAGAAACAACAAAGGAAACGCACGTGTCGGATTGCAGCTCCCTAATGCCTCAAATGACAGAAGGCTTGAAAAACTGGGTGGCTCCAACAAGGGAGTTTTCAACTCACCAGCAGGTTTTGGAGCAGCAAATGAATTGTGGCATGGGGAATGAGAGAAATGGTGTGTCTTTAGGATCTGTGGGGTGTGGAGAGTTACAGTCTCTAAGCTTATCTATGAGTCCTGGTTCTCAGTCTAGTTGTGTCACTGCTCCTTCTGGAACAGATTCTGTTGCTGTGGATGCAAAGAAGAGAGGGCATGCTAAACTTGGTCAGAAGCAGCCTGTGCATAGAAAATCTATCGACACATTTGGGCAAAGAACCTCGCAGTATAGAGGTGTCACAAGGCATAGATGGACTGGTAGGTATGAAGCGCATTTGTGGGATAATAGTTGCAAGAAGGAAGGGCAAACTAGGAAAGGACGACAAGTGTATTTGGGGGGTTATGATATGGAGGAGAAAGCTGCAAGAGCCTATGATCTCGCGGCCCTTAAGTACTGGGGACCTTCAACGCATATAAACTTTTCGATAGAGAATTACCAAGTTCAACTTGAGGAAATGAAGAACATGAGCAGACAGGAATACGTTGCACACTTGAGAAGAAAAAGCAGCGGGTTTTCTAGAGGTGCTTCAATATACAGAGGGGTCACAAGGCATCACCAACATGGAAGATGGCAAGCGAGGATAGGCAGAGTTGCTGGGAACAAAGACCTTTACCTTGGGACGTTCAGCACCCAAGAGGAAGCAGCAGAAGCATACGATGTAGCGGCGATCAAATTTCGCGGCGCAAATGCAGTCACAAACTTTGACATTTCAAGATACGATGTGGAGAGAATCATGGCCAGTAGCAATCTCCTCGCTGGGGAGCTTGCAAGGCGTAAGAAAGATAACGATCCTAGAAACAAGGACATAGACTACAACAAGAGTGTAGTAACAAGTGTGAACAATGAGGAAACGGTTCAAGTTCAAGCAGGAAACAACAATAATGAAAACGACTCAGAGTGGAAGATGGTTTTATTTAACCACCCTTCACAGCAGCAACAGGCAAATGGCAATGGCAGTGACCAAAAAATAATGAACTGTGGAAATTACAGAAACAGTGCATTTTCTATGGCCCTACAAGATCTTATTGGGATTGATTCGGTGGGTTCTGGGCAGCATAATATGCTGGACGAGTCTAGCAAAATTGGGACTCATTTTTCAAACACGTCATCGCTGGTGACAAGTTTAAGCAGCTCAAGAGAGGCTAGTCCTGAGAAAAGGGGTCCCTCGCTTCTGTTCCCAATGCCTCCAATGGAAACAAAGATTGTGAACCCCATTGGTACCAGTGTTACCTCTTGGCTACCCTCACCAACGGTTCAAATGAGGCCTTCTCCTGCTATCTCTTTGTCTCACTTGCCAGTTTTTGCTTCTTGGACTGATACTTAA
Predicted protein sequences of Glyma04g05080
>Glyma04g05080.2   sequence type=predicted peptide   gene model=Glyma04g05080   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MKRINESNNTDDGNNHNWLGFSLSPHMKMEATSAATVPTTFYMSPSQSHLSNFGMCYGVGENGNFHSPLTVMPLKSDGSLCILEALKRSQTQVMVPTSSPKLEDFLGGATMGTHEYGSHERGLSLDSIYYNSQNAEAQPNRDLLSQPFRQQGHMSVQTHPYYSGLACHGLYQAPLEEETTKETHVSDCSSLMPQMTEGLKNWVAPTREFSTHQQVLEQQMNCGMGNERNGVSLGSVGCGELQSLSLSMSPGSQSSCVTAPSGTDSVAVDAKKRGHAKLGQKQPVHRKSIDTFGQRTSQYRGVTRHRWTGRYEAHLWDNSCKKEGQTRKGRQVYLGGYDMEEKAARAYDLAALKYWGPSTHINFSIENYQVQLEEMKNMSRQEYVAHLRRKSSGFSRGASIYRGVTRHHQHGRWQARIGRVAGNKDLYLGTFSTQEEAAEAYDVAAIKFRGANAVTNFDISRYDVERIMASSNLLAGELARRKKDNDPRNKDIDYNKSVVTSVNNEETVQVQAGNNNNENDSEWKMVLFNHPSQQQQANGNGSDQKIMNCGNYRNSAFSMALQDLIGIDSVGSGQHNMLDESSKIGTHFSNTSSLVTSLSSSREASPEKRGPSLLFPMPPMETKIVNPIGTSVTSWLPSPTVQMRPSPAISLSHLPVFASWTDT*






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