Basic Information
Gene Model:Bol010155
Gene Family:Not classificated
Chromosome:C06
Scaffold:Scaffold000225
Sequence:
 | 
Gene Structure
Nucleotide Length:3935 bp
Transcript Length:2904 bp
Protein Length:967 aa
Strand:-
Location:C06: 25038839 : 25042773
Gene CDSs(10): 1-105 | 199-408 | 491-1063 | 1152-1370 | 1457-1587 | 1732-2644 | 2728-2805 | 2881-2952 | 3266-3771 | 3839-3935 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
HMMPantherPTHR10799ATP-DEPENDENT HELICA 189 967 2.6e-260Not foundNot found
HMMPantherPTHR10799:SF62DNA REPAIR HELICASE 189 967 2.6e-260Not foundNot found
HMMPfamPF00097zf-C3HC4 668 706 3.7e-14IPR018957Zinc finger, C3HC4 RING-type
HMMPfamPF00271Helicase_C 831 909 3.6e-22IPR001650DNA/RNA helicase, C-terminal
HMMPfamPF00176SNF2_N 224 631 1.7e-52IPR000330SNF2-related
PatternScanPS00518ZF_RING_1 683 692 NAIPR017907Zinc finger, RING-type, conserved site
superfamilySSF52540P-loop containing nu 792 941 9.6e-20Not foundNot found
superfamilySSF57850RING/U-box 643 710 6.1e-15Not foundNot found
superfamilySSF52540P-loop containing nu 188 517 3.5e-22Not foundNot found
ProfileScanPS51194HELICASE_CTER 788 962 14.214IPR001650DNA/RNA helicase, C-terminal
ProfileScanPS51192HELICASE_ATP_BIND_1 236 515 12.295IPR014021Helicase, superfamily 1/2, ATP-binding domain
ProfileScanPS50089ZF_RING_2 668 707 12.770IPR001841Zinc finger, RING-type
HMMSmartSM00490no description 826 909 3.2e-18IPR001650DNA/RNA helicase, C-terminal
HMMSmartSM00487no description 217 532 9.1e-29IPR014001DEAD-like helicase, N-terminal
HMMSmartSM00184no description 668 706 6.2e-07IPR001841Zinc finger, RING-type
Gene3DG3DSA:3.30.40.10no description 645 725 3e-13Not foundNot found
Gene3DG3DSA:3.40.50.300no description 814 911 9.3e-05Not foundNot found
Segsegseg 788 800 NANot foundNot found
Segsegseg 911 925 NANot foundNot found
Segsegseg 435 443 NANot foundNot found
Segsegseg 403 415 NANot foundNot found
Segsegseg 282 292 NANot foundNot found
Segsegseg 127 146 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
Q9FNI65e-99SM3L2_ARATH Putative SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 3-like 2 OS=Arabidopsis thaliana GN=At5g22750 PE=2 SV=1
TrEMBL
Best HitE_value Description
Q94BR50.0Q94BR5_ARATH Putative DNA-binding protein OS=Arabidopsis thaliana GN=At1g50410 PE=2 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description
pic:PICST_491798e-92K01509E3.6.1.3adenosinetriphosphatase
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.oleraceaC06:24534286..25332003 (-)A.thalianaChr3:6879617..7187521 (+)15
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC06:24534286..25384509 (+)B.rapaA06:2237156..2472723 (-)41
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
CAT1G504101867216318677556Chr1Subgenome_III(LF)69
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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