Basic Information
Gene Model:Bol025847
Gene Family:Not classificated
Chromosome:C03
Scaffold:Scaffold000085
Sequence:
 | 
Gene Structure
Nucleotide Length:5804 bp
Transcript Length:4614 bp
Protein Length:1537 aa
Strand:+
Location:C03: 4823362 : 4829165
Gene CDSs(9): 1-761 | 1111-1818 | 2028-2922 | 3113-3392 | 3490-3614 | 3696-4165 | 4265-4293 | 4380-4865 | 4945-5804 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
ProfileScanPS50827DDT 180 240 13.905IPR018501DDT domain superfamily
ProfileScanPS50016ZF_PHD_2 407 454 9.766IPR019787Zinc finger, PHD-finger
HMMPantherPTHR13793PHD FINGER PROTEINS 422 456 3.1e-05Not foundNot found
HMMPantherPTHR13793:SF23MIXED-LINEAGE LEUKEM 422 456 3.1e-05Not foundNot found
Gene3DG3DSA:3.30.40.10no description 1223 1286 6.3e-09Not foundNot found
Gene3DG3DSA:3.30.40.10no description 383 453 1.6e-14Not foundNot found
Segsegseg 962 973 NANot foundNot found
Segsegseg 1408 1421 NANot foundNot found
Segsegseg 627 644 NANot foundNot found
Segsegseg 785 791 NANot foundNot found
Segsegseg 3 18 NANot foundNot found
Segsegseg 135 148 NANot foundNot found
PatternScanPS01359ZF_PHD_1 410 451 NAIPR019786Zinc finger, PHD-type, conserved site
HMMSmartSM00249no description 1488 1534 7.3IPR001965Zinc finger, PHD-type
HMMSmartSM00249no description 1069 1118 29IPR001965Zinc finger, PHD-type
HMMSmartSM00249no description 1230 1278 10IPR001965Zinc finger, PHD-type
HMMSmartSM00249no description 409 452 3.9e-11IPR001965Zinc finger, PHD-type
HMMSmartSM00571no description 180 240 3.1e-16IPR018500DDT domain, subgroup
HMMPfamPF00628PHD 409 454 2.5e-12IPR019787Zinc finger, PHD-finger
HMMPfamPF02791DDT 180 240 3.4e-08IPR004022DDT domain
superfamilySSF57903FYVE/PHD zinc finger 1062 1125 0.0084IPR011011Zinc finger, FYVE/PHD-type
superfamilySSF57903FYVE/PHD zinc finger 1223 1285 1.9e-07IPR011011Zinc finger, FYVE/PHD-type
superfamilySSF57903FYVE/PHD zinc finger 1481 1534 9.6e-05IPR011011Zinc finger, FYVE/PHD-type
superfamilySSF57903FYVE/PHD zinc finger 401 470 2.4e-16IPR011011Zinc finger, FYVE/PHD-type
Gene Ontology
GO TermGO TypeDescription
GO:0005515 Molecular Function protein binding
GO:0008270 Molecular Function zinc ion binding
Swiss-Prot
Best HitE_value Description
Q128302e-11BPTF_HUMAN Nucleosome-remodeling factor subunit BPTF OS=Homo sapiens GN=BPTF PE=1 SV=3
TrEMBL
Best HitE_value Description
Q9FNI50.0Q9FNI5_ARATH Gb|AAC80581.1 OS=Arabidopsis thaliana PE=4 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description

Note: this gene was not detected its best hit in KEGG database.

Gene Cluster
Orthologs
OrthoMCL GroupSpeciesGene List
ORTHOMCL2195(15 genes,8 taxa):Arabidopsis thalianaAT5G22760.1
ORTHOMCL2195(15 genes,8 taxa):Arabidopsis thalianaAT5G35210.1
ORTHOMCL2195(15 genes,8 taxa):Brassica oleraceaBol009090
ORTHOMCL2195(15 genes,8 taxa):Brassica oleraceaBol025847
ORTHOMCL2195(15 genes,8 taxa):Brassica oleraceaBol036017
ORTHOMCL2195(15 genes,8 taxa):Brassica rapaBra006635
ORTHOMCL2195(15 genes,8 taxa):Brassica rapaBra020213
ORTHOMCL2195(15 genes,8 taxa):Brassica rapaBra037601
ORTHOMCL2195(15 genes,8 taxa):Vitis viniferaGSVIVT01031411001
ORTHOMCL2195(15 genes,8 taxa):Oryza sativaOs11t0148700-01
ORTHOMCL2195(15 genes,8 taxa):Populus trichocarpaPOPTR_0004s20090.1
ORTHOMCL2195(15 genes,8 taxa):Populus trichocarpaPOPTR_0009s15240.1
ORTHOMCL2195(15 genes,8 taxa):Sorghum bicolorSb05g002930.1
ORTHOMCL2195(15 genes,8 taxa):Sorghum bicolorSb08g002920.1
ORTHOMCL2195(15 genes,8 taxa):Carica papayaevm.TU.supercontig_47.58
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.oleraceaC03:1982512..4896037 (+)A.thalianaChr5:4002775..7686779 (+)386
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC03:3384356..7484156 (+)B.rapaA10:5981599..12607476 (+)333
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block

Note: this gene was no corresponding triplicated genes.

 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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