Basic Information
Gene Model:Bol044384
Gene Family:Not classificated
Chromosome:C08
Scaffold:Scaffold000002
Sequence:
 | 
Gene Structure
Nucleotide Length:2030 bp
Transcript Length:870 bp
Protein Length:289 aa
Strand:-
Location:C08: 30116594 : 30118623
Gene CDSs(9): 1-81 | 170-250 | 345-392 | 480-639 | 870-1021 | 1216-1295 | 1430-1502 | 1575-1624 | 1886-2030 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
HMMSmartSM00028no description 112 145 0.09IPR019734Tetratricopeptide repeat
HMMSmartSM00028no description 152 185 3.4e+02IPR019734Tetratricopeptide repeat
HMMSmartSM00028no description 53 86 1.9e+02IPR019734Tetratricopeptide repeat
Segsegseg 8 18 NANot foundNot found
Segsegseg 72 80 NANot foundNot found
Segsegseg 271 285 NANot foundNot found
HMMPfamPF02071NSF 32 43 0.24IPR000744NSF attachment protein
HMMPfamPF02071NSF 91 102 0.41IPR000744NSF attachment protein
HMMPfamPF02071NSF 131 142 0.62IPR000744NSF attachment protein
HMMPantherPTHR13768:SF8ALPHA-SOLUBLE NSF AT 3 289 3.9e-157Not foundNot found
HMMPantherPTHR13768SOLUBLE NSF ATTACHME 3 289 3.9e-157IPR000744NSF attachment protein
Gene3DG3DSA:1.25.40.10no description 5 286 9.4e-102IPR011990Tetratricopeptide-like helical
superfamilySSF48452TPR-like 7 284 7.1e-75Not foundNot found
Coilcoilcoiled-coil 151 179 NANot foundNot found
ProfileScanPS50293TPR_REGION 112 145 8.957IPR013026Tetratricopeptide region
ProfileScanPS50005TPR 112 145 9.027IPR019734Tetratricopeptide repeat
Gene Ontology
GO TermGO TypeDescription
GO:0005488 Molecular Function binding
GO:0005783 Cellular Component endoplasmic reticulum
GO:0005794 Cellular Component Golgi apparatus
GO:0006886 Biological Process intracellular protein transport
Swiss-Prot
Best HitE_value Description
Q9SPE61e-147SNAA2_ARATH Alpha-soluble NSF attachment protein 2 OS=Arabidopsis thaliana GN=ASNAP2 PE=1 SV=1
TrEMBL
Best HitE_value Description
Q29Q461e-146Q29Q46_ARATH At3g56190 OS=Arabidopsis thaliana PE=2 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description

Note: this gene was not detected its best hit in KEGG database.

Gene Cluster
Orthologs
OrthoMCL GroupSpeciesGene List
ORTHOMCL1808(16 genes,8 taxa):Arabidopsis thalianaAT3G56190.1
ORTHOMCL1808(16 genes,8 taxa):Brassica oleraceaBol014002
ORTHOMCL1808(16 genes,8 taxa):Brassica oleraceaBol028237
ORTHOMCL1808(16 genes,8 taxa):Brassica oleraceaBol044261
ORTHOMCL1808(16 genes,8 taxa):Brassica oleraceaBol044384
ORTHOMCL1808(16 genes,8 taxa):Brassica rapaBra003231
ORTHOMCL1808(16 genes,8 taxa):Brassica rapaBra007224
ORTHOMCL1808(16 genes,8 taxa):Brassica rapaBra014705
ORTHOMCL1808(16 genes,8 taxa):Vitis viniferaGSVIVT01030239001
ORTHOMCL1808(16 genes,8 taxa):Vitis viniferaGSVIVT01032725001
ORTHOMCL1808(16 genes,8 taxa):Oryza sativaOs08t0282400-01
ORTHOMCL1808(16 genes,8 taxa):Populus trichocarpaPOPTR_0008s07530.1
ORTHOMCL1808(16 genes,8 taxa):Populus trichocarpaPOPTR_0010s18920.1
ORTHOMCL1808(16 genes,8 taxa):Populus trichocarpaPOPTR_0010s18920.2
ORTHOMCL1808(16 genes,8 taxa):Sorghum bicolorSb07g018430.1
ORTHOMCL1808(16 genes,8 taxa):Carica papayaevm.TU.supercontig_19.105
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.oleraceaC08:29129169..31352420 (+)A.thalianaChr3:20318412..21566482 (+)209
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC08:27373536..34472409 (+)B.rapaA09:10065156..15472209 (+)727
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
NAT3G561902084567420848534Chr3Subgenome_III(LF)368
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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