Basic Information
Gene Model:Bol023106
Gene Family:Not classificated
Chromosome:C01
Scaffold:Scaffold000102
Sequence:
 | 
Gene Structure
Nucleotide Length:2939 bp
Transcript Length:2433 bp
Protein Length:810 aa
Strand:-
Location:C01: 37415750 : 37418688
Gene CDSs(7): 1-29 | 135-297 | 392-620 | 698-1464 | 1530-1751 | 1838-2554 | 2634-2939 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
Segsegseg 792 807 NANot foundNot found
Segsegseg 590 602 NANot foundNot found
HMMPantherPTHR23077AAA-FAMILY ATPASE 173 810 0Not foundNot found
Segsegseg 7 17 NANot foundNot found
HMMPantherPTHR23077:SF18CELL DIVISION CONTRO 173 810 0Not foundNot found
HMMPfamPF00004AAA 516 704 3.2e-101IPR003959ATPase, AAA-type, core
HMMPfamPF00004AAA 243 427 6.5e-97IPR003959ATPase, AAA-type, core
HMMPfamPF02933CDC48_2 129 195 6.9e-13IPR004201Cell division protein 48, CDC48, domain 2
HMMPfamPF02359CDC48_N 26 112 3.4e-42IPR003338ATPase, AAA-type, VAT, N-terminal
HMMSmartSM00382no description 513 653 1.4e-24IPR003593ATPase, AAA+ type, core
HMMSmartSM00382no description 240 376 2.8e-23IPR003593ATPase, AAA+ type, core
HMMTigrTIGR01243CDC48: AAA family AT 27 770 1.1e-246IPR005938ATPase, AAA-type, CDC48
superfamilySSF50692ADC-like 25 110 4.3e-31IPR009010Aspartate decarboxylase-like fold
superfamilySSF54585Cdc48 domain 2-like 111 204 9.5e-36Not foundNot found
superfamilySSF52540P-loop containing nu 199 468 7.5e-71Not foundNot found
superfamilySSF52540P-loop containing nu 474 767 3.9e-81Not 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 1.6e-22Not foundNot found
Gene3DG3DSA:3.40.50.300no description 465 649 1.1e-63Not foundNot found
Gene3DG3DSA:1.10.8.60no description 375 461 1e-25Not foundNot found
Gene3DG3DSA:3.40.50.300no description 192 372 5.6e-60Not foundNot found
Gene3DG3DSA:3.10.330.10no description 113 189 6.7e-35Not foundNot found
Gene3DG3DSA:2.40.40.20no description 21 112 6.5e-38IPR009010Aspartate decarboxylase-like fold
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
ath:AT3G098400.0K13525VCP, CDC48transitional endoplasmic reticulum ATPase
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
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
B.oleraceaC01:36818843..37987036 (+)B.rapaA05:1185540..2013688 (-)74
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
FAT3G0984030193403023052Chr3Subgenome_I279
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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