Basic Information
Gene Model:Bol003554
Gene Family:Not classificated
Chromosome:Cun
Scaffold:Scaffold000347
Sequence:
 | 
Gene Structure
Nucleotide Length:6387 bp
Transcript Length:4602 bp
Protein Length:1533 aa
Strand:-
Location:Scaffold000347: 204040 : 210426
Gene CDSs(9): 1-140 | 255-884 | 1010-1038 | 1229-1692 | 2041-2165 | 2286-2571 | 2856-3909 | 4421-5035 | 5129-6387 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
HMMPantherPTHR12321CPG BINDING PROTEIN 1470 1518 9e-06Not foundNot found
Gene3DG3DSA:3.30.40.10no description 518 588 5.4e-12Not foundNot found
Gene3DG3DSA:3.30.40.10no description 1459 1522 1.9e-08Not foundNot found
HMMPfamPF00628PHD 1467 1516 3.3e-08IPR019787Zinc finger, PHD-finger
HMMPfamPF02178AT_hook 1311 1323 0.4IPR017956AT hook, DNA-binding motif
HMMPfamPF02178AT_hook 1402 1414 0.039IPR017956AT hook, DNA-binding motif
HMMPfamPF02791DDT 349 406 0.0047IPR004022DDT domain
HMMPfamPF00628PHD 544 589 2.2e-14IPR019787Zinc finger, PHD-finger
superfamilySSF57903FYVE/PHD zinc finger 1250 1307 5.8e-05IPR011011Zinc finger, FYVE/PHD-type
superfamilySSF57903FYVE/PHD zinc finger 1460 1521 1e-07IPR011011Zinc finger, FYVE/PHD-type
superfamilySSF57903FYVE/PHD zinc finger 536 605 6.9e-15IPR011011Zinc finger, FYVE/PHD-type
Segsegseg 1309 1320 NANot foundNot found
Segsegseg 1339 1351 NANot foundNot found
Segsegseg 507 519 NANot foundNot found
Segsegseg 357 378 NANot foundNot found
Segsegseg 275 292 NANot foundNot found
Segsegseg 114 134 NANot foundNot found
Segsegseg 57 69 NANot foundNot found
HMMSmartSM00249no description 1467 1514 0.0024IPR001965Zinc finger, PHD-type
HMMSmartSM00384no description 1402 1414 0.37IPR017956AT hook, DNA-binding motif
HMMSmartSM00384no description 1311 1323 7IPR017956AT hook, DNA-binding motif
HMMSmartSM00249no description 544 587 1.5e-09IPR001965Zinc finger, PHD-type
HMMSmartSM00571no description 346 406 9.9e-06IPR018500DDT domain, subgroup
ProfileScanPS50827DDT 346 406 15.222IPR018501DDT domain superfamily
ProfileScanPS50016ZF_PHD_2 542 589 9.517IPR019787Zinc finger, PHD-finger
PatternScanPS01359ZF_PHD_1 545 586 NAIPR019786Zinc finger, PHD-type, conserved site
Gene Ontology
GO TermGO TypeDescription
GO:0003677 Molecular Function DNA binding
GO:0005515 Molecular Function protein binding
GO:0008270 Molecular Function zinc ion binding
Swiss-Prot
Best HitE_value Description
Q9W0T12e-15NU301_DROME Nucleosome-remodeling factor subunit NURF301 OS=Drosophila melanogaster GN=E(bx) PE=1 SV=2
TrEMBL
Best HitE_value Description
Q94CK20.0Q94CK2_ARATH Putative uncharacterized protein At5g12400 OS=Arabidopsis thaliana GN=At5g12400 PE=2 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description
tca:1001417901e-20K11728BPTF, E(bx)nucleosome-remodeling factor subunit BPTF
Gene Cluster
Orthologs
OrthoMCL GroupSpeciesGene List
ORTHOMCL5225(11 genes,6 taxa):Arabidopsis thalianaAT5G12400.1
ORTHOMCL5225(11 genes,6 taxa):Brassica oleraceaBol003554
ORTHOMCL5225(11 genes,6 taxa):Brassica oleraceaBol034195
ORTHOMCL5225(11 genes,6 taxa):Brassica oleraceaBol043497
ORTHOMCL5225(11 genes,6 taxa):Brassica rapaBra006158
ORTHOMCL5225(11 genes,6 taxa):Brassica rapaBra008890
ORTHOMCL5225(11 genes,6 taxa):Brassica rapaBra023376
ORTHOMCL5225(11 genes,6 taxa):Vitis viniferaGSVIVT01037231001
ORTHOMCL5225(11 genes,6 taxa):Populus trichocarpaPOPTR_0001s26130.1
ORTHOMCL5225(11 genes,6 taxa):Populus trichocarpaPOPTR_0009s05370.1
ORTHOMCL5225(11 genes,6 taxa):Sorghum bicolorSb02g042000.1
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
Note: This gene was not anchored on pseudo-chromosomes.
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

Note: this gene was not anchored on syntenic regions compared to B.rapa genome.

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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