Basic Information
Gene Model:Bol038548
Gene Family:Transcription Factor Families
Chromosome:C06
Scaffold:Scaffold000020_P1
Sequence:
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Gene Structure
Nucleotide Length:3332 bp
Transcript Length:1497 bp
Protein Length:498 aa
Strand:-
Location:C06: 177931 : 181262
Gene CDSs(12): 1-218 | 302-507 | 595-695 | 766-810 | 1096-1223 | 1788-1932 | 2022-2111 | 2348-2379 | 2461-2623 | 2737-2943 | 3083-3233 | 3322-3332 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
HMMPfamPF02362B3 360 454 6.5e-25IPR003340Transcriptional factor B3
HMMPfamPF05739SNARE 142 204 1e-13IPR000727Target SNARE coiled-coil region
Gene3DG3DSA:2.40.330.10no description 351 454 4.1e-06Not foundNot found
Gene3DG3DSA:1.20.5.110no description 137 201 3.1e-10Not foundNot found
HMMSmartSM00397no description 132 199 1e-06IPR000727Target SNARE coiled-coil region
HMMPantherPTHR12380SYNTAXIN 4 228 3.9e-178Not foundNot found
HMMPantherPTHR12380:SF7SYNTAXIN 51 4 228 3.9e-178Not foundNot found
ProfileScanPS50863B3 361 452 11.082IPR003340Transcriptional factor B3
ProfileScanPS50192T_SNARE 137 199 13.465IPR000727Target SNARE coiled-coil region
PatternScanPS00914SYNTAXIN 143 182 NAIPR006012Syntaxin/epimorphin, conserved site
Segsegseg 490 498 NANot foundNot found
Segsegseg 273 284 NANot foundNot found
Gene Ontology
GO TermGO TypeDescription
GO:0003677 Molecular Function DNA binding
GO:0005484 Molecular Function SNAP receptor activity
GO:0006355 Biological Process regulation of transcription, DNA-dependent
GO:0006886 Biological Process intracellular protein transport
GO:0016020 Cellular Component membrane
Swiss-Prot
Best HitE_value Description
Q94KK71e-123SYP52_ARATH Syntaxin-52 OS=Arabidopsis thaliana GN=SYP52 PE=1 SV=1
TrEMBL
Best HitE_value Description
B9DHH71e-112B9DHH7_ARATH AT1G16240 protein OS=Arabidopsis thaliana GN=AT1G16240 PE=2 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description
ath:AT1G795901e-123K08503SYP5syntaxin of plants SYP5
Gene Cluster
Orthologs
OrthoMCL GroupSpeciesGene List
ORTHOMCL1667(16 genes,8 taxa):Arabidopsis thalianaAT1G16240.1
ORTHOMCL1667(16 genes,8 taxa):Arabidopsis thalianaAT1G79590.1
ORTHOMCL1667(16 genes,8 taxa):Brassica oleraceaBol009834
ORTHOMCL1667(16 genes,8 taxa):Brassica oleraceaBol038203
ORTHOMCL1667(16 genes,8 taxa):Brassica oleraceaBol038548
ORTHOMCL1667(16 genes,8 taxa):Brassica rapaBra008425
ORTHOMCL1667(16 genes,8 taxa):Brassica rapaBra026074
ORTHOMCL1667(16 genes,8 taxa):Brassica rapaBra026727
ORTHOMCL1667(16 genes,8 taxa):Vitis viniferaGSVIVT01037735001
ORTHOMCL1667(16 genes,8 taxa):Oryza sativaOs08t0277900-01
ORTHOMCL1667(16 genes,8 taxa):Populus trichocarpaPOPTR_0006s03120.1
ORTHOMCL1667(16 genes,8 taxa):Populus trichocarpaPOPTR_0016s02990.1
ORTHOMCL1667(16 genes,8 taxa):Populus trichocarpaPOPTR_0016s02990.2
ORTHOMCL1667(16 genes,8 taxa):Populus trichocarpaPOPTR_0016s03000.1
ORTHOMCL1667(16 genes,8 taxa):Sorghum bicolorSb06g030000.2
ORTHOMCL1667(16 genes,8 taxa):Carica papayaevm.TU.supercontig_12.247
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.oleraceaC06:142683..2462610 (-)A.thalianaChr1:28174378..29999045 (+)292
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC06:47325..759450 (+)B.rapaA09:2463329..2746972 (-)20
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
EAT1G795902994629629948774Chr1Subgenome_III(LF)587
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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