Basic Information
Gene Model:Bol015614
Gene Family:Transcription Factor Families
Chromosome:C06
Scaffold:Scaffold000163_P1
Sequence:
 | 
Gene Structure
Nucleotide Length:1815 bp
Transcript Length:918 bp
Protein Length:305 aa
Strand:+
Location:C06: 13573164 : 13574978
Gene CDSs(6): 1-150 | 237-466 | 848-932 | 1011-1094 | 1193-1552 | 1807-1815 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
HMMPantherPTHR21717TELOMERIC REPEAT BIN 5 61 7.8e-07Not foundNot found
HMMPantherPTHR21717:SF9TELOMERIC REPEAT BIN 5 61 7.8e-07Not foundNot found
superfamilySSF46689Homeodomain-like 1 68 9.9e-08IPR009057Homeodomain-like
superfamilySSF46785"Winged helix" DNA-b 120 205 1.2e-15Not foundNot found
Coilcoilcoiled-coil 246 295 NANot foundNot found
HMMSmartSM00526no description 120 187 2.1e-09IPR005818Histone H1/H5
ProfileScanPS51294HTH_MYB 1 58 11.582IPR017930Myb-type HTH DNA-binding domain
HMMSmartSM00717no description 4 59 8.8e-07IPR001005SANT, DNA-binding
HMMPfamPF00249Myb_DNA-binding 5 57 2.1e-08IPR014778Myb, DNA-binding
HMMPfamPF00538Linker_histone 129 192 6.3e-06IPR005818Histone H1/H5
Gene3DG3DSA:1.10.10.10no description 119 203 1e-05IPR011991Winged helix repressor DNA-binding
Gene3DG3DSA:1.10.10.60no description 3 59 1.8e-14IPR012287Homeodomain-related
Segsegseg 246 291 NANot foundNot found
Segsegseg 116 124 NANot foundNot found
Gene Ontology
GO TermGO TypeDescription
GO:0000786 Cellular Component nucleosome
GO:0003677 Molecular Function DNA binding
GO:0005634 Cellular Component nucleus
GO:0006334 Biological Process nucleosome assembly
GO:0045449 Biological Process regulation of transcription
Swiss-Prot
Best HitE_value Description
P278062e-08H1_WHEAT Histone H1 OS=Triticum aestivum PE=2 SV=2
TrEMBL
Best HitE_value Description
Q9LPL91e-115Q9LPL9_ARATH F2J10.16 protein OS=Arabidopsis thaliana GN=F2J10.16 PE=4 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description
vvi:1002617134e-81K09422MYBPmyb proto-oncogene protein, plant
Gene Cluster
Orthologs
OrthoMCL GroupSpeciesGene List
ORTHOMCL3566(12 genes,7 taxa):Arabidopsis thalianaAT1G49950.3
ORTHOMCL3566(12 genes,7 taxa):Brassica oleraceaBol015614
ORTHOMCL3566(12 genes,7 taxa):Brassica rapaBra018818
ORTHOMCL3566(12 genes,7 taxa):Vitis viniferaGSVIVT01037816001
ORTHOMCL3566(12 genes,7 taxa):Oryza sativaOs01t0589300-01
ORTHOMCL3566(12 genes,7 taxa):Oryza sativaOs12t0613300-01
ORTHOMCL3566(12 genes,7 taxa):Oryza sativaOs12t0613300-02
ORTHOMCL3566(12 genes,7 taxa):Populus trichocarpaPOPTR_0001s30000.1
ORTHOMCL3566(12 genes,7 taxa):Populus trichocarpaPOPTR_0009s09020.1
ORTHOMCL3566(12 genes,7 taxa):Sorghum bicolorSb01g013670.1
ORTHOMCL3566(12 genes,7 taxa):Sorghum bicolorSb03g005080.1
ORTHOMCL3566(12 genes,7 taxa):Sorghum bicolorSb03g026470.1
Tandem Duplication
ClusterGene Num.Gene List

The tandem genes of this gene was not detected with strict parameters, so there is no information collected in Bolbase.

Synteny Analysis
Synteny Genes
Compared to A.thaliana Compared to B.rapa
Synteny Regions
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC06:13031381..13659263 (-)A.thalianaChr1:18375538..18614162 (+)18
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC06:13031381..13659263 (+)B.rapaA08:16542443..16751378 (-)13
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
CAT1G499501849411518497187Chr1Subgenome_III(LF)64
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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