Basic Information
Gene Model:Bol006036
Gene Family:Not classificated
Chromosome:C09
Scaffold:Scaffold000286
Sequence:
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Gene Structure
Nucleotide Length:2225 bp
Transcript Length:969 bp
Protein Length:322 aa
Strand:-
Location:C09: 992683 : 994907
Gene CDSs(8): 1-108 | 204-284 | 410-475 | 552-629 | 756-836 | 947-1036 | 1483-1768 | 2047-2225 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
PatternScanPS00914SYNTAXIN 232 271 NAIPR006012Syntaxin/epimorphin, conserved site
Gene3DG3DSA:1.20.1050.30no description 69 281 5e-40Not foundNot found
HMMSmartSM00397no description 221 288 3.3e-16IPR000727Target SNARE coiled-coil region
HMMSmartSM00503no description 64 181 7.9e-12IPR006011Syntaxin, N-terminal
superfamilySSF47661t-snare proteins 67 281 2e-37IPR010989t-SNARE
Segsegseg 302 317 NANot foundNot found
Segsegseg 50 63 NANot foundNot found
ProfileScanPS50192T_SNARE 226 288 17.281IPR000727Target SNARE coiled-coil region
HMMPantherPTHR19957SYNTAXIN 3 256 8.8e-107Not foundNot found
HMMPantherPTHR19957:SF5SYNTAXIN 16 3 256 8.8e-107Not foundNot found
HMMPfamPF05739SNARE 231 293 2.2e-21IPR000727Target SNARE coiled-coil region
HMMPfamPF00804Syntaxin 69 167 2.8e-17IPR006011Syntaxin, N-terminal
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
Swiss-Prot
Best HitE_value Description
Q9SWH41e-171SYP42_ARATH Syntaxin-42 OS=Arabidopsis thaliana GN=SYP42 PE=1 SV=1
TrEMBL
Best HitE_value Description
Q0WNW71e-170Q0WNW7_ARATH Putative uncharacterized protein OS=Arabidopsis thaliana PE=2 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description
ath:AT4G021951e-171K08489STX16syntaxin 16
Gene Cluster
Orthologs
OrthoMCL GroupSpeciesGene List
ORTHOMCL15713(4 genes,4 taxa):Arabidopsis thalianaAT4G02195.1
ORTHOMCL15713(4 genes,4 taxa):Brassica oleraceaBol006036
ORTHOMCL15713(4 genes,4 taxa):Brassica rapaBra036287
ORTHOMCL15713(4 genes,4 taxa):Carica papayaevm.TU.supercontig_151.46
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.oleraceaC09:500941..1722070 (+)A.thalianaChr4:570242..1610037 (+)122
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC09:680349..1420517 (+)B.rapaA10:13349311..13777991 (+)18
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
OAT4G02195970007972307Chr4Subgenome_III(LF)188
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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