Basic Information
Gene Model:Bol030577
Gene Family:Not classificated
Chromosome:C03
Scaffold:Scaffold000059
Sequence:
 | 
Gene Structure
Nucleotide Length:5475 bp
Transcript Length:2145 bp
Protein Length:714 aa
Strand:-
Location:C03: 17786619 : 17792093
Gene CDSs(21): 1-144 | 227-292 | 381-503 | 599-686 | 763-821 | 903-962 | 1034-1094 | 1188-1319 | 1737-1947 | 2114-2247 | 2462-2544 | 2617-2682 | 2858-2913 | 2995-3094 | 3498-3606 | 3690-3844 | 4033-4203 | 4582-4632 | 4731-4812 | 4900-4983 | 5366-5475 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
PatternScanPS00674AAA 338 356 NAIPR003960ATPase, AAA-type, conserved site
HMMSmartSM00382no description 503 641 7.7e-05IPR003593ATPase, AAA+ type, core
HMMSmartSM00382no description 223 370 2e-16IPR003593ATPase, AAA+ type, core
superfamilySSF54585Cdc48 domain 2-like 68 173 1.1e-23Not foundNot found
superfamilySSF50692ADC-like 9 71 2.5e-12IPR009010Aspartate decarboxylase-like fold
superfamilySSF52540P-loop containing nu 181 466 9.4e-51Not foundNot found
superfamilySSF52540P-loop containing nu 465 713 1.7e-30Not foundNot found
Segsegseg 597 609 NANot foundNot found
Segsegseg 655 667 NANot foundNot found
Segsegseg 567 578 NANot foundNot found
HMMPantherPTHR23078VESICULAR-FUSION PRO 1 714 0Not foundNot found
Gene3DG3DSA:3.40.50.300no description 465 636 3.1e-37Not foundNot found
Gene3DG3DSA:3.40.50.300no description 174 366 8.5e-43Not foundNot found
Gene3DG3DSA:1.10.8.60no description 369 455 5e-17Not foundNot found
Gene3DG3DSA:3.10.330.10no description 69 161 0.00022Not foundNot found
Gene3DG3DSA:2.40.40.20no description 5 66 5.6e-09IPR009010Aspartate decarboxylase-like fold
HMMPfamPF00004AAA 226 425 5e-82IPR003959ATPase, AAA-type, core
HMMPfamPF02933CDC48_2 92 155 5.8e-08IPR004201Cell division protein 48, CDC48, domain 2
Gene Ontology
GO TermGO TypeDescription
GO:0000166 Molecular Function nucleotide binding
GO:0005488 Molecular Function binding
GO:0005524 Molecular Function ATP binding
GO:0017111 Molecular Function nucleoside-triphosphatase activity
Swiss-Prot
Best HitE_value Description
Q9M0Y80.0NSF_ARATH Vesicle-fusing ATPase OS=Arabidopsis thaliana GN=NSF PE=2 SV=2
TrEMBL
Best HitE_value Description
B9H2U60.0B9H2U6_POPTR Predicted protein OS=Populus trichocarpa GN=POPTRDRAFT_831118 PE=3 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description
ath:AT4G049100.0K06027NSFvesicle-fusing ATPase
Gene Cluster
Orthologs
OrthoMCL GroupSpeciesGene List
ORTHOMCL1816(16 genes,8 taxa):Arabidopsis thalianaAT4G04910.1
ORTHOMCL1816(16 genes,8 taxa):Brassica oleraceaBol020264
ORTHOMCL1816(16 genes,8 taxa):Brassica oleraceaBol030577
ORTHOMCL1816(16 genes,8 taxa):Brassica oleraceaBol032663
ORTHOMCL1816(16 genes,8 taxa):Brassica rapaBra000808
ORTHOMCL1816(16 genes,8 taxa):Brassica rapaBra029529
ORTHOMCL1816(16 genes,8 taxa):Brassica rapaBra033538
ORTHOMCL1816(16 genes,8 taxa):Vitis viniferaGSVIVT01014341001
ORTHOMCL1816(16 genes,8 taxa):Oryza sativaOs05t0519400-01
ORTHOMCL1816(16 genes,8 taxa):Oryza sativaOs05t0519400-02
ORTHOMCL1816(16 genes,8 taxa):Oryza sativaOs05t0519400-03
ORTHOMCL1816(16 genes,8 taxa):Populus trichocarpaPOPTR_0004s04380.1
ORTHOMCL1816(16 genes,8 taxa):Populus trichocarpaPOPTR_0011s05260.1
ORTHOMCL1816(16 genes,8 taxa):Populus trichocarpaPOPTR_0011s05260.2
ORTHOMCL1816(16 genes,8 taxa):Sorghum bicolorSb01g014140.1
ORTHOMCL1816(16 genes,8 taxa):Carica papayaevm.TU.supercontig_21.39
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.oleraceaC03:17559905..17857814 (+)A.thalianaChr4:2030319..2589386 (+)22
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC03:17185827..17873007 (+)B.rapaA09:32314017..33579708 (+)37
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
OAT4G0491024894172495766Chr4Subgenome_I143
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


logo