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Report for Sequence Feature Glyma.05g040600

Feature Type:gene_model
Chromosome:Gm05
Start:3643493
stop:3647900
Source:JGI
Version:Wm82.a2.v1
High confidence:yes



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

Annotations for Glyma.05g040600
Database IDAnnotation TypeAnnotation DescriptionAnnotation SourceMatch ScoreEvidence Code
AT5G63110.1AT histone deacetylase 6 JGI N/AIEA
GO:0006325GO-bp chromatin organization EnsemblGenomesN/AIEA
GO:0006351GO-bp transcription, DNA-templated EnsemblGenomesN/AIEA
GO:0006355GO-bp regulation of transcription, DNA-templated EnsemblGenomesN/AIEA
GO:0016569GO-bp covalent chromatin modification EnsemblGenomesN/AIEA
GO:0016575GO-bp histone deacetylation EnsemblGenomesN/AIEA
GO:0070932GO-bp histone H3 deacetylation EnsemblGenomesN/AIEA
GO:0005634GO-cc nucleus EnsemblGenomesN/AIEA
GO:0004407GO-mf histone deacetylase activity EnsemblGenomesN/AIEA
GO:0016787GO-mf hydrolase activity EnsemblGenomesN/AIEA
GO:0032041GO-mf NAD-dependent histone deacetylase activity (H3-K14 specific) EnsemblGenomesN/AIEA
GO:0046872GO-mf metal ion binding EnsemblGenomesN/AIEA
KOG1342 KOG Histone deacetylase complex, catalytic component RPD3 JGI N/AIEA
PTHR10625Panther HISTONE DEACETYLASE JGI N/AIEA
PTHR10625:SF28Panther JGI N/AIEA
PTHR10625:SF65Panther JGI N/AIEA
PF00850PFAM Histone deacetylase domain JGI N/AIEA

Proteins Associated with Glyma.05g040600
LocusGene SymbolProtein Name
HDA7 histone deacetylase

Expression Patterns of Glyma.05g040600
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

Related Legume Genes

View a gene family containing related genes from other legumes at LIS

Gene families from Phytozome are displayed using the PhyloTree viewer developed by LIS.


View gene and ortholog information at GlycineMine

Gene information in GlycineMine developed by LIS.


Related Plant Genes

View a gene family containing related genes from other plant species at PhyloGenes

Gene families from PhyloGenes.


Paralogs of Glyma.05g040600
ParalogEvidenceComments
Glyma.17g085700 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 0.35.

Gene model name correspondences to Glyma.05g040600 Gene Call Version Wm82.a2.v1
Corresponding NameAnnotation VersionEvidenceComments
Glyma05g02540 Wm82.a1.v1.1IGC As supplied by JGI


Transcripts of Glyma.05g040600
>Glyma.05g040600.2 sequence-type=transcript locus=Glyma.05g040600 ID=Glyma.05g040600.2.Wm82.a2.v1 annot-version=Wm82.a2.v1
TTAAAGTAGATAAGCCTTCCCCGCCCACTAGAAATAGAGAGAAGGTAAGGAGGGTTTGGTTTTGGGTACTTTACAAATTACAATAATTAGCGAAAGAGAGAAGACATAGCACATAGAGTCATAGAGACATCATCATCGTATGGGAATGGAAGAGGAGAGTAGCAACAACAGCAGCATCATAGAAGGTGGTGCTTCGCTGCCATCAACGGGTTCAGACGCCAAGAAGCGAAGAGTGACGTACTTCTACGAGCCCACGATCGGCGATTACTACTACGGTCAGGGGCACCCAATGAAGCCGCACCGAATCCGCATGGCGCACAACCTCATCGTCCACTACTCCCTCCACCGCCGCATGGAGATCAACCGTCCCTTCCCGGCCTCCCCCGCCGACATCCGCCGCTTCCACTCCGACGACTACGTCGACTTTCTCTCCTCCGTCTCCCCCGAGACCCTCGCCGATTCCGCCTTCTCCCGCCACCTCAAGCGCTTCAACGTCGGCGAGGACTGCCCCGTCTTCGACGGCCTCTTCCCCTTCTGCCAGGCCTCCGCCGGCGGCTCCCTCGGCGCCGCCGTCAAACTCAACCGCGCCGACGCCGACATCGCCATCAATTGGGCCGGCGGCCTCCACCACGCCAAGAAGTCCGAGGCCTCTGGATTCTGCTACGTCAACGACATTGTCCTCGGTATCCTCGAACTCCTCAAAGTTCACAGGCGCGTGCTGTATGTTGACATTGATGTTCACCATGGTGATGGTGTTGAGGAGGCCTTTTACACCACTGATAGAGTGATGACAGTGTCTTTCCATAAGTTTGGGGACTTTTTCCCTGGCACAGGACACGTCAAGGACATTGGGGTGGGATCAGGAAAGAATTATGCAGTCAATGTCCCATTAAATGACGGAATGGATGATGAGAGTTTCCGTAGTCTGTTTCGAACCATCATTCAAAAAGTCATGGAGGTCTATCAACCAGAGGCAGTTGTTCTACAATGTGGAGCTGATTCATTGTCTGGGGACAGGTTGGGTTGCTTCAACTTGTCTGTGAGAGGTCATGCAGATTGCCTTCGTTTTCTTAGATCGTTCAATGTTCCTTTAATGGTCTTGGGTGGGGGTGGATATACAATTCGGAATGTTGCCCGTTGTTGGTGTTATGAGACAGCAGTGGCAGTAGGAGTGGAGCCTGATAATAAGTTGCCTTATAATGAATATTATGAATATTTTGGCCCAGATTATACTCTCTATGTCGATCCAAGCAACATGGAGAACCTAAACACACCCAAGGATATGGAAAAAATAAGGGACATTACAGATGAAATGGAAGAAGAGAAACCAGAAGTGCATCCATCATCTTGTTGTTGATAGAACAGAGCAAGTTCTTGCACAGCATGTTTGTATTGTTATCTTTATTCCGTTTATGGGGGAGATCATTACTAAACAGTACCACATGCAGCTGTTGAGAATGCAAATATAATCAATACATTGTGCAAATGTAATATAGTGTAAAACATTGTTTTGGTCTCTCTCGTAAACTATTTTTGTTTAAGTCATTTTCTTTTATTTGGTCCCTGGCTTACACTTAGTTTCGTTTTAGTCTGTCATGGTCAATTTAGTTGATTTTGAATATTCTCATTTGTGCATACTTTCATTTGGTCAAATGGATACATCACTTTAATTTGGTTCTTGTATCTTTTTCCTGTATGATGAGGATATTAAAGAAAGTGAGGAAGGTGCGAAATGTTG
Coding sequences of Glyma.05g040600
>Glyma.05g040600.1 sequence-type=CDS polypeptide=Glyma.05g040600.1.p locus=Glyma.05g040600 ID=Glyma.05g040600.1.Wm82.a2.v1 annot-version=Wm82.a2.v1
ATGGGAATGGAAGAGGAGAGTAGCAACAACAGCAGCATCATAGAAGGTGGTGCTTCGCTGCCATCAACGGGTTCAGACGCCAAGAAGCGAAGAGTGACGTACTTCTACGAGCCCACGATCGGCGATTACTACTACGGTCAGGGGCACCCAATGAAGCCGCACCGAATCCGCATGGCGCACAACCTCATCGTCCACTACTCCCTCCACCGCCGCATGGAGATCAACCGTCCCTTCCCGGCCTCCCCCGCCGACATCCGCCGCTTCCACTCCGACGACTACGTCGACTTTCTCTCCTCCGTCTCCCCCGAGACCCTCGCCGATTCCGCCTTCTCCCGCCACCTCAAGCGCTTCAACGTCGGCGAGGACTGCCCCGTCTTCGACGGCCTCTTCCCCTTCTGCCAGGCCTCCGCCGGCGGCTCCCTCGGCGCCGCCGTCAAACTCAACCGCGCCGACGCCGACATCGCCATCAATTGGGCCGGCGGCCTCCACCACGCCAAGAAGTCCGAGGCCTCTGGATTCTGCTACGTCAACGACATTGTCCTCGGTATCCTCGAACTCCTCAAAGTTCACAGGCGCGTGCTGTATGTTGACATTGATGTTCACCATGGTGATGGTGTTGAGGAGGCCTTTTACACCACTGATAGAGTGATGACAGTGTCTTTCCATAAGTTTGGGGACTTTTTCCCTGGCACAGGACACGTCAAGGACATTGGGGTGGGATCAGGAAAGAATTATGCAGTCAATGTCCCATTAAATGACGGAATGGATGATGAGAGTTTCCGTAGTCTGTTTCGAACCATCATTCAAAAAGTCATGGAGGTCTATCAACCAGAGGCAGTTGTTCTACAATGTGGAGCTGATTCATTGTCTGGGGACAGGTTGGGTTGCTTCAACTTGTCTGTGAGAGGTCATGCAGATTGCCTTCGTTTTCTTAGATCGTTCAATGTTCCTTTAATGGTCTTGGGTGGGGGTGGATATACAATTCGGAATGTTGCCCGTTGTTGGTGTTATGAGACAGCAGTGGCAGTAGGAGTGGAGCCTGATAATAAGTTGCCTTATAATGAATATTATGAATATTTTGGCCCAGATTATACTCTCTATGTCGATCCAAGCAACATGGAGAACCTAAACACACCCAAGGATATGGAAAAAATAAGGAACACACTACTAGAACAGATTTCTCAACTTCCCCATGCTCCCGGTGTACCTTTTCAGACAACACCACCTACCTTACAACTTCCGGAAGAGGCAGAAGAGGACATGGATAGAAGACCTAAACTTCGCAAATGGGATGGTGAAGATTATGATTCTGATCCTGATGAAGGTGGAAAGGCTAATTCCAAGTTTCCAAACGTCACTGCCCATATGAGGGACATTACAGATGAAATGGAAGAAGAGAAACCAGAAGTGCATCCATCATCTTGTTGTTGA

>Glyma.05g040600.2 sequence-type=CDS polypeptide=Glyma.05g040600.2.p locus=Glyma.05g040600 ID=Glyma.05g040600.2.Wm82.a2.v1 annot-version=Wm82.a2.v1
ATGGGAATGGAAGAGGAGAGTAGCAACAACAGCAGCATCATAGAAGGTGGTGCTTCGCTGCCATCAACGGGTTCAGACGCCAAGAAGCGAAGAGTGACGTACTTCTACGAGCCCACGATCGGCGATTACTACTACGGTCAGGGGCACCCAATGAAGCCGCACCGAATCCGCATGGCGCACAACCTCATCGTCCACTACTCCCTCCACCGCCGCATGGAGATCAACCGTCCCTTCCCGGCCTCCCCCGCCGACATCCGCCGCTTCCACTCCGACGACTACGTCGACTTTCTCTCCTCCGTCTCCCCCGAGACCCTCGCCGATTCCGCCTTCTCCCGCCACCTCAAGCGCTTCAACGTCGGCGAGGACTGCCCCGTCTTCGACGGCCTCTTCCCCTTCTGCCAGGCCTCCGCCGGCGGCTCCCTCGGCGCCGCCGTCAAACTCAACCGCGCCGACGCCGACATCGCCATCAATTGGGCCGGCGGCCTCCACCACGCCAAGAAGTCCGAGGCCTCTGGATTCTGCTACGTCAACGACATTGTCCTCGGTATCCTCGAACTCCTCAAAGTTCACAGGCGCGTGCTGTATGTTGACATTGATGTTCACCATGGTGATGGTGTTGAGGAGGCCTTTTACACCACTGATAGAGTGATGACAGTGTCTTTCCATAAGTTTGGGGACTTTTTCCCTGGCACAGGACACGTCAAGGACATTGGGGTGGGATCAGGAAAGAATTATGCAGTCAATGTCCCATTAAATGACGGAATGGATGATGAGAGTTTCCGTAGTCTGTTTCGAACCATCATTCAAAAAGTCATGGAGGTCTATCAACCAGAGGCAGTTGTTCTACAATGTGGAGCTGATTCATTGTCTGGGGACAGGTTGGGTTGCTTCAACTTGTCTGTGAGAGGTCATGCAGATTGCCTTCGTTTTCTTAGATCGTTCAATGTTCCTTTAATGGTCTTGGGTGGGGGTGGATATACAATTCGGAATGTTGCCCGTTGTTGGTGTTATGAGACAGCAGTGGCAGTAGGAGTGGAGCCTGATAATAAGTTGCCTTATAATGAATATTATGAATATTTTGGCCCAGATTATACTCTCTATGTCGATCCAAGCAACATGGAGAACCTAAACACACCCAAGGATATGGAAAAAATAAGGGACATTACAGATGAAATGGAAGAAGAGAAACCAGAAGTGCATCCATCATCTTGTTGTTGA
Predicted protein sequences of Glyma.05g040600
>Glyma.05g040600.1.p sequence-type=predicted peptide transcript=Glyma.05g040600.1 locus=Glyma.05g040600 ID=Glyma.05g040600.1.Wm82.a2.v1 annot-version=Wm82.a2.v1
MGMEEESSNNSSIIEGGASLPSTGSDAKKRRVTYFYEPTIGDYYYGQGHPMKPHRIRMAHNLIVHYSLHRRMEINRPFPASPADIRRFHSDDYVDFLSSVSPETLADSAFSRHLKRFNVGEDCPVFDGLFPFCQASAGGSLGAAVKLNRADADIAINWAGGLHHAKKSEASGFCYVNDIVLGILELLKVHRRVLYVDIDVHHGDGVEEAFYTTDRVMTVSFHKFGDFFPGTGHVKDIGVGSGKNYAVNVPLNDGMDDESFRSLFRTIIQKVMEVYQPEAVVLQCGADSLSGDRLGCFNLSVRGHADCLRFLRSFNVPLMVLGGGGYTIRNVARCWCYETAVAVGVEPDNKLPYNEYYEYFGPDYTLYVDPSNMENLNTPKDMEKIRNTLLEQISQLPHAPGVPFQTTPPTLQLPEEAEEDMDRRPKLRKWDGEDYDSDPDEGGKANSKFPNVTAHMRDITDEMEEEKPEVHPSSCC*

>Glyma.05g040600.2.p sequence-type=predicted peptide transcript=Glyma.05g040600.2 locus=Glyma.05g040600 ID=Glyma.05g040600.2.Wm82.a2.v1 annot-version=Wm82.a2.v1
MGMEEESSNNSSIIEGGASLPSTGSDAKKRRVTYFYEPTIGDYYYGQGHPMKPHRIRMAHNLIVHYSLHRRMEINRPFPASPADIRRFHSDDYVDFLSSVSPETLADSAFSRHLKRFNVGEDCPVFDGLFPFCQASAGGSLGAAVKLNRADADIAINWAGGLHHAKKSEASGFCYVNDIVLGILELLKVHRRVLYVDIDVHHGDGVEEAFYTTDRVMTVSFHKFGDFFPGTGHVKDIGVGSGKNYAVNVPLNDGMDDESFRSLFRTIIQKVMEVYQPEAVVLQCGADSLSGDRLGCFNLSVRGHADCLRFLRSFNVPLMVLGGGGYTIRNVARCWCYETAVAVGVEPDNKLPYNEYYEYFGPDYTLYVDPSNMENLNTPKDMEKIRDITDEMEEEKPEVHPSSCC*






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