Basic Information
Gene Model:Bol025235
Gene Family:Not classificated
Chromosome:C04
Scaffold:Scaffold000088
Sequence:
 | 
Gene Structure
Nucleotide Length:3893 bp
Transcript Length:1920 bp
Protein Length:639 aa
Strand:-
Location:C04: 37318700 : 37322592
Gene CDSs(19): 1-105 | 258-398 | 482-575 | 664-720 | 806-867 | 1026-1271 | 1352-1408 | 1492-1549 | 1644-1827 | 2063-2229 | 2308-2360 | 2461-2520 | 2596-2677 | 2786-2851 | 2976-3101 | 3272-3314 | 3417-3621 | 3708-3776 | 3849-3893 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
HMMSmartSM00249no description 362 419 0.00034IPR001965Zinc finger, PHD-type
HMMSmartSM00249no description 283 324 1.6e-12IPR001965Zinc finger, PHD-type
PatternScanPS01359ZF_PHD_1 284 323 NAIPR019786Zinc finger, PHD-type, conserved site
PatternScanPS01359ZF_PHD_1 363 418 NAIPR019786Zinc finger, PHD-type, conserved site
Gene3DG3DSA:3.30.40.10no description 274 337 1.1e-12Not foundNot found
HMMPfamPF00628PHD 283 326 6.4e-20IPR019787Zinc finger, PHD-finger
ProfileScanPS50016ZF_PHD_2 281 326 10.006IPR019787Zinc finger, PHD-finger
HMMPantherPTHR13712RING FINGER-CONTAINI 282 330 5.2e-09Not foundNot found
HMMPantherPTHR13712:SF48AUTOIMMUNE REGULATOR 282 330 5.2e-09Not foundNot found
Segsegseg 568 582 NANot foundNot found
Segsegseg 321 330 NANot foundNot found
Segsegseg 287 299 NANot foundNot found
superfamilySSF55729Acyl-CoA N-acyltrans 516 603 1.6e-09IPR016181Acyl-CoA N-acyltransferase
superfamilySSF57903FYVE/PHD zinc finger 355 425 5.6e-06IPR011011Zinc finger, FYVE/PHD-type
superfamilySSF57903FYVE/PHD zinc finger 275 333 8.6e-13IPR011011Zinc 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
Q6PDQ27e-11CHD4_MOUSE Chromodomain-helicase-DNA-binding protein 4 OS=Mus musculus GN=Chd4 PE=1 SV=1
TrEMBL
Best HitE_value Description
O809220.0O80922_ARATH Putative uncharacterized protein At2g37520 OS=Arabidopsis thaliana GN=At2g37520 PE=2 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description
smm:Smp_0796506e-13K11643CHD4, MI2Bchromodomain-helicase-DNA-binding protein 4
Gene Cluster
Orthologs
OrthoMCL GroupSpeciesGene List
ORTHOMCL11507(7 genes,6 taxa):Arabidopsis thalianaAT2G37520.1
ORTHOMCL11507(7 genes,6 taxa):Arabidopsis thalianaAT3G53680.1
ORTHOMCL11507(7 genes,6 taxa):Brassica oleraceaBol025235
ORTHOMCL11507(7 genes,6 taxa):Brassica rapaBra017181
ORTHOMCL11507(7 genes,6 taxa):Vitis viniferaGSVIVT01025526001
ORTHOMCL11507(7 genes,6 taxa):Populus trichocarpaPOPTR_0006s08370.1
ORTHOMCL11507(7 genes,6 taxa):Carica papayaevm.TU.supercontig_188.20
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
JAT2G375201574476915749788Chr2Subgenome_I375
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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