Basic Information
Gene Model:Bol037706
Gene Family:Not classificated
Chromosome:C04
Scaffold:Scaffold000023_P2
Sequence:
 | 
Gene Structure
Nucleotide Length:5548 bp
Transcript Length:3018 bp
Protein Length:1005 aa
Strand:-
Location:C04: 36961284 : 36966831
Gene CDSs(20): 1-858 | 944-1021 | 1126-1330 | 1430-1589 | 1741-1815 | 1989-2075 | 2169-2258 | 2337-2418 | 2499-2558 | 2634-2686 | 2767-2933 | 3234-3444 | 3598-3655 | 3747-3803 | 3911-4156 | 4631-4695 | 4790-4846 | 4932-5025 | 5145-5285 | 5375-5548 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
HMMSmartSM00249no description 704 761 0.041IPR001965Zinc finger, PHD-type
HMMSmartSM00249no description 616 657 4.9e-11IPR001965Zinc finger, PHD-type
HMMPantherPTHR13712RING FINGER-CONTAINI 612 738 9e-08Not foundNot found
HMMPantherPTHR13712:SF21HMG BOX-CONTAINING 612 738 9e-08Not foundNot found
superfamilySSF55729Acyl-CoA N-acyltrans 819 956 7.4e-06IPR016181Acyl-CoA N-acyltransferase
superfamilySSF57903FYVE/PHD zinc finger 709 763 1.9e-07IPR011011Zinc finger, FYVE/PHD-type
superfamilySSF57903FYVE/PHD zinc finger 608 666 1.6e-13IPR011011Zinc finger, FYVE/PHD-type
HMMPfamPF00628PHD 616 659 2.2e-17IPR019787Zinc finger, PHD-finger
HMMPfamPF00628PHD 704 756 0.0006IPR019787Zinc finger, PHD-finger
PatternScanPS01359ZF_PHD_1 617 656 NAIPR019786Zinc finger, PHD-type, conserved site
PatternScanPS001984FE4S_FER_1 373 384 NAIPR0179004Fe-4S ferredoxin, iron-sulphur binding, conserved site
ProfileScanPS50016ZF_PHD_2 614 659 10.433IPR019787Zinc finger, PHD-finger
Segsegseg 406 419 NANot foundNot found
Segsegseg 497 518 NANot foundNot found
Gene3DG3DSA:3.30.40.10no description 590 675 7.1e-15Not foundNot found
Gene3DG3DSA:3.30.40.10no description 704 774 2.5e-05Not foundNot found
Gene Ontology
GO TermGO TypeDescription
GO:0005515 Molecular Function protein binding
GO:0008270 Molecular Function zinc ion binding
GO:0009055 Molecular Function electron carrier activity
GO:0051536 Molecular Function iron-sulfur cluster binding
Swiss-Prot
Best HitE_value Description
Q148391e-14CHD4_HUMAN Chromodomain-helicase-DNA-binding protein 4 OS=Homo sapiens GN=CHD4 PE=1 SV=1
TrEMBL
Best HitE_value Description
Q8RWG00.0Q8RWG0_ARATH Putative PHD-type zinc finger protein OS=Arabidopsis thaliana GN=At2g36720 PE=2 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description
ptr:4517881e-14K11643CHD4, MI2Bchromodomain-helicase-DNA-binding protein 4
Gene Cluster
Orthologs
OrthoMCL GroupSpeciesGene List
ORTHOMCL892(21 genes,8 taxa):Arabidopsis thalianaAT2G27980.1
ORTHOMCL892(21 genes,8 taxa):Arabidopsis thalianaAT2G36720.1
ORTHOMCL892(21 genes,8 taxa):Brassica oleraceaBol013427
ORTHOMCL892(21 genes,8 taxa):Brassica oleraceaBol026398
ORTHOMCL892(21 genes,8 taxa):Brassica oleraceaBol037706
ORTHOMCL892(21 genes,8 taxa):Brassica rapaBra011988
ORTHOMCL892(21 genes,8 taxa):Brassica rapaBra017226
ORTHOMCL892(21 genes,8 taxa):Brassica rapaBra034381
ORTHOMCL892(21 genes,8 taxa):Vitis viniferaGSVIVT01031451001
ORTHOMCL892(21 genes,8 taxa):Vitis viniferaGSVIVT01031452001
ORTHOMCL892(21 genes,8 taxa):Vitis viniferaGSVIVT01033711001
ORTHOMCL892(21 genes,8 taxa):Oryza sativaOs06t0731100-00
ORTHOMCL892(21 genes,8 taxa):Populus trichocarpaPOPTR_0004s22720.1
ORTHOMCL892(21 genes,8 taxa):Populus trichocarpaPOPTR_0006s12180.1
ORTHOMCL892(21 genes,8 taxa):Populus trichocarpaPOPTR_0006s12180.2
ORTHOMCL892(21 genes,8 taxa):Populus trichocarpaPOPTR_0006s12180.3
ORTHOMCL892(21 genes,8 taxa):Populus trichocarpaPOPTR_0006s12180.4
ORTHOMCL892(21 genes,8 taxa):Populus trichocarpaPOPTR_0009s00930.1
ORTHOMCL892(21 genes,8 taxa):Populus trichocarpaPOPTR_0016s10900.1
ORTHOMCL892(21 genes,8 taxa):Sorghum bicolorSb10g031300.1
ORTHOMCL892(21 genes,8 taxa):Carica papayaevm.TU.supercontig_47.10
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.oleraceaC04:36396141..37787728 (+)A.thalianaChr3:19407023..20112944 (+)40
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC04:36466488..37499835 (+)B.rapaA09:10284578..11183378 (+)26
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
JAT2G367201539307115399418Chr2Subgenome_I375
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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