Basic Information
Gene Model:Bol009090
Gene Family:Not classificated
Chromosome:C01
Scaffold:Scaffold000239
Sequence:
 | 
Gene Structure
Nucleotide Length:6093 bp
Transcript Length:4623 bp
Protein Length:1540 aa
Strand:+
Location:C01: 23918008 : 23924100
Gene CDSs(9): 1-794 | 1205-1891 | 2097-3015 | 3232-3511 | 3602-3726 | 3812-4278 | 4379-4407 | 4678-5154 | 5249-6093 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
superfamilySSF57903FYVE/PHD zinc finger 1231 1293 6.5e-08IPR011011Zinc finger, FYVE/PHD-type
superfamilySSF57903FYVE/PHD zinc finger 1481 1537 0.0011IPR011011Zinc finger, FYVE/PHD-type
superfamilySSF57903FYVE/PHD zinc finger 405 474 3e-16IPR011011Zinc finger, FYVE/PHD-type
Segsegseg 797 803 NANot foundNot found
Segsegseg 1044 1059 NANot foundNot found
Segsegseg 1340 1360 NANot foundNot found
Segsegseg 173 182 NANot foundNot found
Segsegseg 147 166 NANot foundNot found
Segsegseg 112 132 NANot foundNot found
Segsegseg 6 15 NANot foundNot found
HMMSmartSM00249no description 1491 1537 2.9IPR001965Zinc finger, PHD-type
HMMSmartSM00249no description 1238 1286 0.39IPR001965Zinc finger, PHD-type
HMMSmartSM00249no description 413 456 2.2e-11IPR001965Zinc finger, PHD-type
HMMSmartSM00571no description 191 251 2.7e-18IPR018500DDT domain, subgroup
HMMPantherPTHR13793PHD FINGER PROTEINS 426 459 1.8e-05Not foundNot found
HMMPantherPTHR13793:SF23MIXED-LINEAGE LEUKEM 426 459 1.8e-05Not foundNot found
Gene3DG3DSA:3.30.40.10no description 1231 1294 1.4e-09Not foundNot found
PatternScanPS01359ZF_PHD_1 414 455 NAIPR019786Zinc finger, PHD-type, conserved site
Gene3DG3DSA:3.30.40.10no description 387 457 1e-15Not foundNot found
ProfileScanPS50827DDT 191 251 15.134IPR018501DDT domain superfamily
ProfileScanPS50016ZF_PHD_2 411 458 9.801IPR019787Zinc finger, PHD-finger
HMMPfamPF00628PHD 413 458 4.4e-13IPR019787Zinc finger, PHD-finger
HMMPfamPF00628PHD 1238 1288 0.00022IPR019787Zinc finger, PHD-finger
HMMPfamPF02791DDT 191 251 6.9e-07IPR004022DDT domain
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-10BPTF_HUMAN Nucleosome-remodeling factor subunit BPTF OS=Homo sapiens GN=BPTF PE=1 SV=3
TrEMBL
Best HitE_value Description
Q9LHR70.0Q9LHR7_ARATH Genomic DNA, chromosome 5, TAC clone:K3D20 OS=Arabidopsis thaliana PE=4 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description
tca:1001417908e-21K11728BPTF, E(bx)nucleosome-remodeling factor subunit BPTF
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

Note: this gene was not anchored on syntenic regions compared to A.thaliana genome.

SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC01:23308538..25154223 (+)B.rapaA08:11805231..12406486 (+)15
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.


logo