Basic Information
Gene Model:Bol033939
Gene Family:Not classificated
Chromosome:Cun
Scaffold:Scaffold000040
Sequence:
 | 
Gene Structure
Nucleotide Length:3284 bp
Transcript Length:2430 bp
Protein Length:809 aa
Strand:+
Location:Scaffold000040: 387526 : 390809
Gene CDSs(8): 1-29 | 112-274 | 643-871 | 951-1717 | 1796-2017 | 2104-2175 | 2254-2898 | 2982-3284 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
HMMPfamPF00004AAA 516 704 1.8e-100IPR003959ATPase, AAA-type, core
HMMPfamPF02933CDC48_2 129 195 1.6e-12IPR004201Cell division protein 48, CDC48, domain 2
HMMPfamPF00004AAA 243 427 6.5e-97IPR003959ATPase, AAA-type, core
HMMPfamPF02359CDC48_N 26 112 4e-42IPR003338ATPase, AAA-type, VAT, N-terminal
HMMPantherPTHR23077AAA-FAMILY ATPASE 173 809 0Not foundNot found
HMMPantherPTHR23077:SF18CELL DIVISION CONTRO 173 809 0Not foundNot found
PatternScanPS00674AAA 621 639 NAIPR003960ATPase, AAA-type, conserved site
PatternScanPS00674AAA 344 362 NAIPR003960ATPase, AAA-type, conserved site
Gene3DG3DSA:1.10.8.60no description 654 739 5.2e-21Not foundNot found
Gene3DG3DSA:3.40.50.300no description 465 649 1.1e-63Not foundNot found
Gene3DG3DSA:3.40.50.300no description 192 372 5.6e-60Not foundNot found
Gene3DG3DSA:1.10.8.60no description 375 461 1e-25Not foundNot found
Gene3DG3DSA:2.40.40.20no description 21 112 3.6e-38IPR009010Aspartate decarboxylase-like fold
Gene3DG3DSA:3.10.330.10no description 113 189 1e-33Not foundNot found
superfamilySSF50692ADC-like 25 110 3.3e-31IPR009010Aspartate decarboxylase-like fold
superfamilySSF52540P-loop containing nu 199 468 7.5e-71Not foundNot found
superfamilySSF54585Cdc48 domain 2-like 111 204 6.8e-35Not foundNot found
superfamilySSF52540P-loop containing nu 474 767 1.1e-80Not foundNot found
Segsegseg 791 806 NANot foundNot found
Segsegseg 590 602 NANot foundNot found
Segsegseg 7 17 NANot foundNot found
HMMTigrTIGR01243CDC48: AAA family AT 27 770 2.3e-245IPR005938ATPase, AAA-type, CDC48
HMMSmartSM00382no description 240 376 2.8e-23IPR003593ATPase, AAA+ type, core
HMMSmartSM00382no description 513 653 1.4e-24IPR003593ATPase, AAA+ type, core
Gene Ontology
GO TermGO TypeDescription
GO:0000166 Molecular Function nucleotide binding
GO:0005488 Molecular Function binding
GO:0005524 Molecular Function ATP binding
GO:0016787 Molecular Function hydrolase activity
GO:0017111 Molecular Function nucleoside-triphosphatase activity
Swiss-Prot
Best HitE_value Description
P546090.0CD48A_ARATH Cell division control protein 48 homolog A OS=Arabidopsis thaliana GN=CDC48A PE=1 SV=1
TrEMBL
Best HitE_value Description
B9DI550.0B9DI55_ARATH AT3G09840 protein OS=Arabidopsis thaliana GN=At3g09840 PE=2 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
ORTHOMCL273(36 genes,8 taxa):Arabidopsis thalianaAT3G09840.1
ORTHOMCL273(36 genes,8 taxa):Arabidopsis thalianaAT3G53230.1
ORTHOMCL273(36 genes,8 taxa):Arabidopsis thalianaAT5G03340.1
ORTHOMCL273(36 genes,8 taxa):Brassica oleraceaBol005415
ORTHOMCL273(36 genes,8 taxa):Brassica oleraceaBol011340
ORTHOMCL273(36 genes,8 taxa):Brassica oleraceaBol015312
ORTHOMCL273(36 genes,8 taxa):Brassica oleraceaBol023106
ORTHOMCL273(36 genes,8 taxa):Brassica oleraceaBol025098
ORTHOMCL273(36 genes,8 taxa):Brassica oleraceaBol033939
ORTHOMCL273(36 genes,8 taxa):Brassica rapaBra001297
ORTHOMCL273(36 genes,8 taxa):Brassica rapaBra003123
ORTHOMCL273(36 genes,8 taxa):Brassica rapaBra005733
ORTHOMCL273(36 genes,8 taxa):Brassica rapaBra006978
ORTHOMCL273(36 genes,8 taxa):Brassica rapaBra029795
ORTHOMCL273(36 genes,8 taxa):Brassica rapaBra034089
ORTHOMCL273(36 genes,8 taxa):Vitis viniferaGSVIVT01007689001
ORTHOMCL273(36 genes,8 taxa):Vitis viniferaGSVIVT01025723001
ORTHOMCL273(36 genes,8 taxa):Vitis viniferaGSVIVT01031517001
ORTHOMCL273(36 genes,8 taxa):Oryza sativaOs03t0151800-01
ORTHOMCL273(36 genes,8 taxa):Oryza sativaOs03t0151800-02
ORTHOMCL273(36 genes,8 taxa):Oryza sativaOs03t0151800-03
ORTHOMCL273(36 genes,8 taxa):Oryza sativaOs08t0413000-00
ORTHOMCL273(36 genes,8 taxa):Populus trichocarpaPOPTR_0006s12740.1
ORTHOMCL273(36 genes,8 taxa):Populus trichocarpaPOPTR_0012s09000.1
ORTHOMCL273(36 genes,8 taxa):Populus trichocarpaPOPTR_0015s09220.1
ORTHOMCL273(36 genes,8 taxa):Populus trichocarpaPOPTR_0016s09280.1
ORTHOMCL273(36 genes,8 taxa):Populus trichocarpaPOPTR_0017s14340.1
ORTHOMCL273(36 genes,8 taxa):Sorghum bicolorSb01g020910.1
ORTHOMCL273(36 genes,8 taxa):Sorghum bicolorSb01g046840.1
ORTHOMCL273(36 genes,8 taxa):Sorghum bicolorSb01g047410.1
ORTHOMCL273(36 genes,8 taxa):Sorghum bicolorSb01g047440.1
ORTHOMCL273(36 genes,8 taxa):Sorghum bicolorSb07g020190.1
ORTHOMCL273(36 genes,8 taxa):Carica papayaevm.TU.supercontig_153.17
ORTHOMCL273(36 genes,8 taxa):Carica papayaevm.TU.supercontig_56.16
ORTHOMCL273(36 genes,8 taxa):Carica papayaevm.TU.supercontig_65.33
ORTHOMCL273(36 genes,8 taxa):Carica papayaevm.TU.supercontig_65.34
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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