Basic Information
Gene Model:Bol005415
Gene Family:Not classificated
Chromosome:C06
Scaffold:Scaffold000300
Sequence:
 | 
Gene Structure
Nucleotide Length:3944 bp
Transcript Length:2433 bp
Protein Length:810 aa
Strand:+
Location:C06: 15459907 : 15463850
Gene CDSs(8): 1-306 | 382-1023 | 1119-1190 | 1509-1730 | 1805-2571 | 2864-3092 | 3654-3819 | 3916-3944 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
HMMSmartSM00382no description 514 653 6.5e-25IPR003593ATPase, AAA+ type, core
HMMSmartSM00382no description 241 377 1.1e-22IPR003593ATPase, AAA+ type, core
PatternScanPS00674AAA 621 639 NAIPR003960ATPase, AAA-type, conserved site
PatternScanPS00674AAA 345 363 NAIPR003960ATPase, AAA-type, conserved site
superfamilySSF50692ADC-like 26 111 5e-30IPR009010Aspartate decarboxylase-like fold
superfamilySSF54585Cdc48 domain 2-like 112 205 3e-36Not foundNot found
superfamilySSF52540P-loop containing nu 202 466 6.7e-70Not foundNot found
superfamilySSF52540P-loop containing nu 475 766 6.9e-81Not foundNot found
HMMPantherPTHR23077AAA-FAMILY ATPASE 174 810 0Not foundNot found
HMMPantherPTHR23077:SF18CELL DIVISION CONTRO 174 810 0Not foundNot found
HMMTigrTIGR01243CDC48: AAA family AT 28 769 2.3e-252IPR005938ATPase, AAA-type, CDC48
HMMPfamPF00004AAA 517 704 1.6e-103IPR003959ATPase, AAA-type, core
HMMPfamPF00004AAA 244 428 1.1e-96IPR003959ATPase, AAA-type, core
HMMPfamPF02933CDC48_2 130 196 6.8e-12IPR004201Cell division protein 48, CDC48, domain 2
HMMPfamPF02359CDC48_N 27 113 2e-39IPR003338ATPase, AAA-type, VAT, N-terminal
Segsegseg 718 733 NANot foundNot found
Segsegseg 777 797 NANot foundNot found
Segsegseg 590 604 NANot foundNot found
Segsegseg 432 445 NANot foundNot found
Gene3DG3DSA:3.40.50.300no description 466 649 3.6e-66Not foundNot found
Gene3DG3DSA:1.10.8.60no description 654 738 5e-20Not foundNot found
Gene3DG3DSA:3.40.50.300no description 193 373 1.3e-59Not foundNot found
Gene3DG3DSA:1.10.8.60no description 376 462 7.3e-26Not foundNot found
Gene3DG3DSA:3.10.330.10no description 114 190 3.2e-35Not foundNot found
Gene3DG3DSA:2.40.40.20no description 22 113 2.2e-37IPR009010Aspartate 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
Q9SCN80.0CD48D_ARATH Cell division control protein 48 homolog D OS=Arabidopsis thaliana GN=CDC48D PE=2 SV=1
TrEMBL
Best HitE_value Description
B9S0I30.0B9S0I3_RICCO Transitional endoplasmic reticulum ATPase, putative OS=Ricinus communis GN=RCOM_1355090 PE=3 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description
ath:AT3G532300.0K13525VCP, 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
B.oleraceaC06:15454467..15995785 (+)A.thalianaChr3:19721994..19977439 (+)32
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC06:14371666..15508177 (+)B.rapaA03:23425276..24047869 (-)12
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
NAT3G532301972335119726672Chr3Subgenome_II73
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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