Basic Information
Gene Model:Bol008610
Gene Family:Not classificated
Chromosome:C06
Scaffold:Scaffold000244
Sequence:
 | 
Gene Structure
Nucleotide Length:1658 bp
Transcript Length:723 bp
Protein Length:240 aa
Strand:+
Location:C06: 29897691 : 29899348
Gene CDSs(4): 1-213 | 977-1097 | 1192-1390 | 1469-1658 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
HMMPantherPTHR21136SNARE PROTEINS 10 240 8.2e-165Not foundNot found
HMMPantherPTHR21136:SF8VAMP-7 10 240 8.2e-165Not foundNot found
ProfileScanPS50892V_SNARE 149 209 19.206IPR001388Synaptobrevin
ProfileScanPS50859LONGIN 6 133 23.986IPR010908Longin
Gene3DG3DSA:1.20.5.110no description 134 213 4.8e-23Not foundNot found
HMMPfamPF00957Synaptobrevin 146 234 5.2e-39IPR001388Synaptobrevin
superfamilySSF64356SNARE-like 5 141 1.7e-25IPR011012Longin-like
Segsegseg 107 113 NANot foundNot found
PatternScanPS00417SYNAPTOBREVIN 167 186 NAIPR001388Synaptobrevin
Gene Ontology
GO TermGO TypeDescription
GO:0006810 Biological Process transport
GO:0016021 Cellular Component integral to membrane
GO:0016192 Biological Process vesicle-mediated transport
Swiss-Prot
Best HitE_value Description
Q9M3761e-130VA727_ARATH Vesicle-associated membrane protein 727 OS=Arabidopsis thaliana GN=VAMP727 PE=2 SV=1
TrEMBL
Best HitE_value Description
B9HKP01e-115B9HKP0_POPTR Predicted protein OS=Populus trichocarpa GN=POPTRDRAFT_820204 PE=4 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description
ath:AT3G543001e-130K08511ATVAMP72vesicle-associated membrane protein 72
Gene Cluster
Orthologs
OrthoMCL GroupSpeciesGene List
ORTHOMCL4968(11 genes,8 taxa):Arabidopsis thalianaAT3G54300.1
ORTHOMCL4968(11 genes,8 taxa):Brassica oleraceaBol008610
ORTHOMCL4968(11 genes,8 taxa):Brassica rapaBra003177
ORTHOMCL4968(11 genes,8 taxa):Brassica rapaBra014823
ORTHOMCL4968(11 genes,8 taxa):Vitis viniferaGSVIVT01010710001
ORTHOMCL4968(11 genes,8 taxa):Oryza sativaOs08t0558600-01
ORTHOMCL4968(11 genes,8 taxa):Populus trichocarpaPOPTR_0008s02030.1
ORTHOMCL4968(11 genes,8 taxa):Populus trichocarpaPOPTR_0010s24630.1
ORTHOMCL4968(11 genes,8 taxa):Populus trichocarpaPOPTR_0010s24630.2
ORTHOMCL4968(11 genes,8 taxa):Sorghum bicolorSb07g024140.2
ORTHOMCL4968(11 genes,8 taxa):Carica papayaevm.TU.supercontig_54.2
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.oleraceaC06:28990094..29924973 (-)A.thalianaChr3:20056705..20560212 (+)41
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC06:28991760..29924973 (+)B.rapaA09:11202032..11808244 (-)34
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
NAT3G543002010820820110652Chr3Subgenome_II64
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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