Basic Information
Gene Model:Bol040983
Gene Family:Not classificated
Chromosome:C05
Scaffold:Scaffold000012
Sequence:
 | 
Gene Structure
Nucleotide Length:3284 bp
Transcript Length:2076 bp
Protein Length:691 aa
Strand:+
Location:C05: 1714457 : 1717740
Gene CDSs(7): 1-645 | 754-877 | 970-1052 | 1502-1740 | 1874-1960 | 2291-2390 | 2487-3284 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
Gene3DG3DSA:3.30.40.10no description 161 229 1.4e-12Not foundNot found
HMMSmartSM00249no description 229 283 0.055IPR001965Zinc finger, PHD-type
HMMSmartSM00249no description 187 228 1.7e-12IPR001965Zinc finger, PHD-type
PatternScanPS01359ZF_PHD_1 188 253 NAIPR019786Zinc finger, PHD-type, conserved site
ProfileScanPS50016ZF_PHD_2 185 230 9.971IPR019787Zinc finger, PHD-finger
HMMPantherPTHR13712:SF48AUTOIMMUNE REGULATOR 186 245 2.3e-06Not foundNot found
HMMPantherPTHR13712RING FINGER-CONTAINI 186 245 2.3e-06Not foundNot found
superfamilySSF57903FYVE/PHD zinc finger 247 289 0.02IPR011011Zinc finger, FYVE/PHD-type
superfamilySSF57903FYVE/PHD zinc finger 179 237 3.5e-13IPR011011Zinc finger, FYVE/PHD-type
superfamilySSF55729Acyl-CoA N-acyltrans 376 459 2.9e-06IPR016181Acyl-CoA N-acyltransferase
Segsegseg 174 203 NANot foundNot found
Segsegseg 635 649 NANot foundNot found
HMMPfamPF00628PHD 187 230 1e-19IPR019787Zinc finger, PHD-finger
Gene Ontology
GO TermGO TypeDescription
GO:0005515 Molecular Function protein binding
GO:0008270 Molecular Function zinc ion binding
Swiss-Prot
Best HitE_value Description
O971592e-11CHDM_DROME Chromodomain-helicase-DNA-binding protein Mi-2 homolog OS=Drosophila melanogaster GN=Mi-2 PE=1 SV=2
TrEMBL
Best HitE_value Description
Q9ZW000.0Q9ZW00_ARATH T25N20.3 OS=Arabidopsis thaliana PE=4 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description
cqu:CpipJ_CPIJ0046653e-12K11643CHD4, MI2Bchromodomain-helicase-DNA-binding protein 4
Gene Cluster
Orthologs
OrthoMCL GroupSpeciesGene List
ORTHOMCL1230(18 genes,8 taxa):Arabidopsis thalianaAT1G05380.1
ORTHOMCL1230(18 genes,8 taxa):Arabidopsis thalianaAT4G14920.1
ORTHOMCL1230(18 genes,8 taxa):Arabidopsis thalianaAT5G36670.1
ORTHOMCL1230(18 genes,8 taxa):Arabidopsis thalianaAT5G36740.1
ORTHOMCL1230(18 genes,8 taxa):Brassica oleraceaBol040258
ORTHOMCL1230(18 genes,8 taxa):Brassica oleraceaBol040983
ORTHOMCL1230(18 genes,8 taxa):Brassica rapaBra020653
ORTHOMCL1230(18 genes,8 taxa):Brassica rapaBra035350
ORTHOMCL1230(18 genes,8 taxa):Vitis viniferaGSVIVT01001168001
ORTHOMCL1230(18 genes,8 taxa):Vitis viniferaGSVIVT01017972001
ORTHOMCL1230(18 genes,8 taxa):Oryza sativaOs03t0747600-02
ORTHOMCL1230(18 genes,8 taxa):Populus trichocarpaPOPTR_0002s05230.1
ORTHOMCL1230(18 genes,8 taxa):Populus trichocarpaPOPTR_0005s23270.1
ORTHOMCL1230(18 genes,8 taxa):Populus trichocarpaPOPTR_0008s15200.1
ORTHOMCL1230(18 genes,8 taxa):Populus trichocarpaPOPTR_0010s09810.1
ORTHOMCL1230(18 genes,8 taxa):Sorghum bicolorSb01g008195.1
ORTHOMCL1230(18 genes,8 taxa):Sorghum bicolorSb02g004100.1
ORTHOMCL1230(18 genes,8 taxa):Carica papayaevm.TU.supercontig_58.105
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.oleraceaC05:1460669..2471323 (-)A.thalianaChr2:12936979..13856112 (+)53
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC05:906012..2655941 (+)B.rapaA10:15677577..17879701 (+)243
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
AAT1G0538015768631582614Chr1Subgenome_III(LF)492
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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