Basic Information
Gene Model:Bol035440
Gene Family:Not classificated
Chromosome:Cun
Scaffold:Scaffold000034_P1
Sequence:
 | 
Gene Structure
Nucleotide Length:5341 bp
Transcript Length:3753 bp
Protein Length:1250 aa
Strand:+
Location:Scaffold000034_P1: 1406759 : 1412099
Gene CDSs(12): 1-141 | 345-405 | 487-813 | 895-2009 | 2253-2324 | 2567-2644 | 2761-3631 | 3716-3846 | 3979-4170 | 4384-4830 | 4927-5136 | 5234-5341 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
Segsegseg 512 522 NANot foundNot found
Segsegseg 734 742 NANot foundNot found
Segsegseg 767 774 NANot foundNot found
Segsegseg 479 491 NANot foundNot found
Segsegseg 128 138 NANot foundNot found
Segsegseg 11 27 NANot foundNot found
HMMSmartSM00490no description 1108 1191 3.3e-17IPR001650DNA/RNA helicase, C-terminal
HMMSmartSM00184no description 992 1030 0.00046IPR001841Zinc finger, RING-type
HMMSmartSM00487no description 564 863 5.6e-30IPR014001DEAD-like helicase, N-terminal
HMMPfamPF00271Helicase_C 1113 1191 1.7e-21IPR001650DNA/RNA helicase, C-terminal
HMMPfamPF00176SNF2_N 571 964 3.4e-47IPR000330SNF2-related
ProfileScanPS50089ZF_RING_2 992 1028 10.070IPR001841Zinc finger, RING-type
ProfileScanPS51192HELICASE_ATP_BIND_1 583 848 11.848IPR014021Helicase, superfamily 1/2, ATP-binding domain
ProfileScanPS51194HELICASE_CTER 1086 1244 14.672IPR001650DNA/RNA helicase, C-terminal
Gene3DG3DSA:3.40.50.300no description 1065 1193 0.00015Not foundNot found
Gene3DG3DSA:3.30.40.10no description 970 1045 1.6e-09Not foundNot found
HMMPantherPTHR10799ATP-DEPENDENT HELICA 363 1249 2.4e-256Not foundNot found
HMMPantherPTHR10799:SF62DNA REPAIR HELICASE 363 1249 2.4e-256Not foundNot found
superfamilySSF52540P-loop containing nu 1050 1228 3.1e-19Not foundNot found
superfamilySSF57850RING/U-box 967 1036 3.9e-11Not foundNot found
superfamilySSF52540P-loop containing nu 567 850 1.4e-19Not 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
Q9FNI61e-104SM3L2_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
O227310.0O22731_ARATH F11P17.13 protein OS=Arabidopsis thaliana GN=F11P17.13 PE=4 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description

Note: this gene was not detected its best hit in KEGG database.

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
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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