Basic Information
Gene Model:Bol008391
Gene Family:Not classificated
Chromosome:C03
Scaffold:Scaffold000247
Sequence:
 | 
Gene Structure
Nucleotide Length:1261 bp
Transcript Length:738 bp
Protein Length:245 aa
Strand:+
Location:C03: 44451315 : 44452575
Gene CDSs(6): 1-177 | 272-362 | 524-711 | 803-916 | 1006-1119 | 1208-1261 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
HMMPfamPF05739SNARE 158 220 1.1e-13IPR000727Target SNARE coiled-coil region
HMMPfamPF09177Syntaxin-6_N 6 99 2.4e-42IPR015260Syntaxin 6, N-terminal
superfamilySSF47661t-snare proteins 5 102 4.5e-29IPR010989t-SNARE
PatternScanPS00914SYNTAXIN 159 198 NAIPR006012Syntaxin/epimorphin, conserved site
Coilcoilcoiled-coil 191 212 NANot foundNot found
Gene3DG3DSA:1.20.5.110no description 153 217 1.3e-07Not foundNot found
Segsegseg 230 244 NANot foundNot found
Segsegseg 208 227 NANot foundNot found
Segsegseg 104 115 NANot foundNot found
Segsegseg 132 143 NANot foundNot found
HMMPantherPTHR12380SYNTAXIN 5 245 4.1e-45Not foundNot found
HMMPantherPTHR12380:SF10SYNTAXIN 6 5 245 4.1e-45Not foundNot found
HMMSmartSM00397no description 148 215 1.5e-06IPR000727Target SNARE coiled-coil region
ProfileScanPS50192T_SNARE 153 215 12.453IPR000727Target SNARE coiled-coil region
Gene Ontology
GO TermGO TypeDescription
GO:0005484 Molecular Function SNAP receptor activity
GO:0005515 Molecular Function protein binding
GO:0006886 Biological Process intracellular protein transport
GO:0016020 Cellular Component membrane
GO:0016192 Biological Process vesicle-mediated transport
GO:0048193 Biological Process Golgi vesicle transport
Swiss-Prot
Best HitE_value Description
Q946Y71e-130SYP61_ARATH Syntaxin-61 OS=Arabidopsis thaliana GN=SYP61 PE=1 SV=1
TrEMBL
Best HitE_value Description
A5BHU91e-103A5BHU9_VITVI Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_034578 PE=4 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description
pop:POPTR_5860611e-102K08498STX6syntaxin 6
Gene Cluster
Orthologs
OrthoMCL GroupSpeciesGene List
ORTHOMCL4445(11 genes,8 taxa):Arabidopsis thalianaAT1G28490.1
ORTHOMCL4445(11 genes,8 taxa):Brassica oleraceaBol008391
ORTHOMCL4445(11 genes,8 taxa):Brassica oleraceaBol015751
ORTHOMCL4445(11 genes,8 taxa):Brassica rapaBra010866
ORTHOMCL4445(11 genes,8 taxa):Brassica rapaBra032912
ORTHOMCL4445(11 genes,8 taxa):Vitis viniferaGSVIVT01038187001
ORTHOMCL4445(11 genes,8 taxa):Oryza sativaOs01t0963300-01
ORTHOMCL4445(11 genes,8 taxa):Populus trichocarpaPOPTR_0004s05020.1
ORTHOMCL4445(11 genes,8 taxa):Populus trichocarpaPOPTR_0011s05870.1
ORTHOMCL4445(11 genes,8 taxa):Sorghum bicolorSb03g046820.1
ORTHOMCL4445(11 genes,8 taxa):Carica papayaevm.TU.supercontig_7.6
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.oleraceaC03:43984041..45229545 (+)A.thalianaChr2:14268269..14573856 (+)24
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC03:43718915..44761567 (+)B.rapaA09:21725957..22850054 (+)34
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
BAT1G284901001591910018047Chr1Subgenome_II145
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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