Basic Information
Gene Model:Bol018165
Gene Family:Not classificated
Chromosome:C05
Scaffold:Scaffold000141
Sequence:
 | 
Gene Structure
Nucleotide Length:4664 bp
Transcript Length:3321 bp
Protein Length:1106 aa
Strand:-
Location:C05: 22544888 : 22549551
Gene CDSs(10): 1-319 | 408-973 | 1444-1515 | 1599-1676 | 1768-2854 | 2942-3072 | 3310-3531 | 3638-4168 | 4269-4478 | 4560-4664 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
ProfileScanPS51194HELICASE_CTER 946 1101 13.855IPR001650DNA/RNA helicase, C-terminal
ProfileScanPS51192HELICASE_ATP_BIND_1 493 667 12.892IPR014021Helicase, superfamily 1/2, ATP-binding domain
ProfileScanPS50089ZF_RING_2 821 860 11.501IPR001841Zinc finger, RING-type
HMMPfamPF00271Helicase_C 970 1048 1e-22IPR001650DNA/RNA helicase, C-terminal
HMMPfamPF00097zf-C3HC4 821 858 2.5e-11IPR018957Zinc finger, C3HC4 RING-type
HMMPfamPF00176SNF2_N 318 783 4e-57IPR000330SNF2-related
Gene3DG3DSA:3.30.40.10no description 799 874 6.7e-12Not foundNot found
Gene3DG3DSA:3.40.50.300no description 953 1050 0.00025Not foundNot found
HMMSmartSM00490no description 965 1048 3.8e-18IPR001650DNA/RNA helicase, C-terminal
HMMSmartSM00184no description 821 859 2.6e-05IPR001841Zinc finger, RING-type
HMMSmartSM00487no description 311 684 1.4e-31IPR014001DEAD-like helicase, N-terminal
superfamilySSF57850RING/U-box 796 865 9.5e-13Not foundNot found
superfamilySSF52540P-loop containing nu 932 1080 3.5e-18Not foundNot found
superfamilySSF52540P-loop containing nu 286 669 9.2e-23Not foundNot found
HMMPantherPTHR10799:SF62DNA REPAIR HELICASE 53 1106 4.2e-255Not foundNot found
HMMPantherPTHR10799ATP-DEPENDENT HELICA 53 1106 4.2e-255Not foundNot found
PatternScanPS00518ZF_RING_1 836 845 NAIPR017907Zinc finger, RING-type, conserved site
Segsegseg 416 428 NANot foundNot found
Segsegseg 557 568 NANot foundNot found
Segsegseg 574 599 NANot foundNot found
Segsegseg 922 933 NANot foundNot found
Segsegseg 73 95 NANot foundNot found
Segsegseg 375 391 NANot foundNot found
Gene Ontology
GO TermGO TypeDescription
GO:0003676 Molecular Function nucleic acid binding
GO:0003677 Molecular Function DNA binding
GO:0004386 Molecular Function helicase activity
GO:0005515 Molecular Function protein binding
GO:0005524 Molecular Function ATP binding
GO:0008270 Molecular Function zinc ion binding
Swiss-Prot
Best HitE_value Description
O601772e-94YG42_SCHPO Uncharacterized ATP-dependent helicase C23E6.02 OS=Schizosaccharomyces pombe GN=SPBC23E6.02 PE=2 SV=1
TrEMBL
Best HitE_value Description
Q9LHE40.0Q9LHE4_ARATH Transcription factor-like protein OS=Arabidopsis thaliana GN=At3g20010 PE=4 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description
pic:PICST_491798e-88K01509E3.6.1.3adenosinetriphosphatase
Gene Cluster
Orthologs
OrthoMCL GroupSpeciesGene List
ORTHOMCL339(32 genes,8 taxa):Arabidopsis thalianaAT1G11100.1
ORTHOMCL339(32 genes,8 taxa):Arabidopsis thalianaAT1G50410.1
ORTHOMCL339(32 genes,8 taxa):Arabidopsis thalianaAT1G61140.1
ORTHOMCL339(32 genes,8 taxa):Arabidopsis thalianaAT3G16600.1
ORTHOMCL339(32 genes,8 taxa):Arabidopsis thalianaAT3G20010.1
ORTHOMCL339(32 genes,8 taxa):Brassica oleraceaBol007356
ORTHOMCL339(32 genes,8 taxa):Brassica oleraceaBol010155
ORTHOMCL339(32 genes,8 taxa):Brassica oleraceaBol014069
ORTHOMCL339(32 genes,8 taxa):Brassica oleraceaBol018165
ORTHOMCL339(32 genes,8 taxa):Brassica oleraceaBol026674
ORTHOMCL339(32 genes,8 taxa):Brassica oleraceaBol035440
ORTHOMCL339(32 genes,8 taxa):Brassica rapaBra001771
ORTHOMCL339(32 genes,8 taxa):Brassica rapaBra018847
ORTHOMCL339(32 genes,8 taxa):Brassica rapaBra031452
ORTHOMCL339(32 genes,8 taxa):Brassica rapaBra035824
ORTHOMCL339(32 genes,8 taxa):Brassica rapaBra038573
ORTHOMCL339(32 genes,8 taxa):Vitis viniferaGSVIVT01006339001
ORTHOMCL339(32 genes,8 taxa):Vitis viniferaGSVIVT01034370001
ORTHOMCL339(32 genes,8 taxa):Oryza sativaOs01t0779400-01
ORTHOMCL339(32 genes,8 taxa):Oryza sativaOs01t0779400-02
ORTHOMCL339(32 genes,8 taxa):Oryza sativaOs04t0629300-01
ORTHOMCL339(32 genes,8 taxa):Oryza sativaOs04t0629300-02
ORTHOMCL339(32 genes,8 taxa):Oryza sativaOs08t0180300-01
ORTHOMCL339(32 genes,8 taxa):Oryza sativaOs08t0180300-02
ORTHOMCL339(32 genes,8 taxa):Oryza sativaOs08t0180300-03
ORTHOMCL339(32 genes,8 taxa):Populus trichocarpaPOPTR_0004s03790.1
ORTHOMCL339(32 genes,8 taxa):Populus trichocarpaPOPTR_0004s03790.2
ORTHOMCL339(32 genes,8 taxa):Populus trichocarpaPOPTR_0011s04620.1
ORTHOMCL339(32 genes,8 taxa):Sorghum bicolorSb03g036380.1
ORTHOMCL339(32 genes,8 taxa):Sorghum bicolorSb06g029476.1
ORTHOMCL339(32 genes,8 taxa):Sorghum bicolorSb07g005030.1
ORTHOMCL339(32 genes,8 taxa):Carica papayaevm.TU.supercontig_27.89
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.oleraceaC05:19036067..23690127 (-)A.thalianaChr3:6669146..7716343 (+)157
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC05:20973629..22711971 (+)B.rapaA05:6413509..7042761 (+)60
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
FAT3G2001069713526976595Chr3Subgenome_III(LF)217
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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