Basic Information
Gene Model:Bol014069
Gene Family:Not classificated
Chromosome:C01
Scaffold:Scaffold000179
Sequence:
 | 
Gene Structure
Nucleotide Length:3377 bp
Transcript Length:2448 bp
Protein Length:815 aa
Strand:+
Location:C01: 19556370 : 19559746
Gene CDSs(12): 1-142 | 221-447 | 556-705 | 784-861 | 951-1101 | 1192-1729 | 1803-1870 | 1962-2383 | 2455-2734 | 2852-2928 | 2998-3207 | 3273-3377 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
HMMPantherPTHR10799ATP-DEPENDENT HELICA 110 815 1.6e-211Not foundNot found
HMMPantherPTHR10799:SF62DNA REPAIR HELICASE 110 815 1.6e-211Not foundNot found
HMMPfamPF00271Helicase_C 679 757 5e-22IPR001650DNA/RNA helicase, C-terminal
HMMPfamPF00176SNF2_N 374 426 2.5e-10IPR000330SNF2-related
HMMPfamPF00097zf-C3HC4 588 625 4.7e-11IPR018957Zinc finger, C3HC4 RING-type
HMMPfamPF00176SNF2_N 172 330 5.5e-24IPR000330SNF2-related
PatternScanPS00518ZF_RING_1 603 612 NAIPR017907Zinc finger, RING-type, conserved site
Gene3DG3DSA:3.30.40.10no description 566 641 6.4e-11Not foundNot found
Segsegseg 654 666 NANot foundNot found
Segsegseg 35 57 NANot foundNot found
Segsegseg 350 367 NANot foundNot found
Segsegseg 9 25 NANot foundNot found
ProfileScanPS51194HELICASE_CTER 647 810 11.928IPR001650DNA/RNA helicase, C-terminal
ProfileScanPS51192HELICASE_ATP_BIND_1 184 434 11.433IPR014021Helicase, superfamily 1/2, ATP-binding domain
ProfileScanPS50089ZF_RING_2 588 625 10.866IPR001841Zinc finger, RING-type
HMMSmartSM00490no description 674 757 3.6e-17IPR001650DNA/RNA helicase, C-terminal
HMMSmartSM00184no description 588 626 2.1e-05IPR001841Zinc finger, RING-type
HMMSmartSM00487no description 165 439 2.7e-23IPR014001DEAD-like helicase, N-terminal
superfamilySSF57850RING/U-box 563 650 3.5e-12Not foundNot found
superfamilySSF52540P-loop containing nu 103 430 7.2e-14Not foundNot found
superfamilySSF52540P-loop containing nu 381 789 6.3e-18Not foundNot found
Coilcoilcoiled-coil 237 258 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
Q9FNI64e-82SM3L2_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
B9RGI10.0B9RGI1_RICCO DNA repair helicase rad5,16, putative OS=Ricinus communis GN=RCOM_1454140 PE=4 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description
spo:SPAC13G6.01c5e-69K01529E3.6.1.---
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

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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