Basic Information
Gene Model:Bol009907
Gene Family:Not classificated
Chromosome:C09
Scaffold:Scaffold000228
Sequence:
 | 
Gene Structure
Nucleotide Length:3887 bp
Transcript Length:1932 bp
Protein Length:643 aa
Strand:-
Location:C09: 24322116 : 24326002
Gene CDSs(16): 1-66 | 171-222 | 329-390 | 542-629 | 784-852 | 956-1013 | 1098-1199 | 1289-1390 | 1471-1804 | 1953-2066 | 2138-2206 | 2405-2661 | 2987-3226 | 3343-3438 | 3574-3690 | 3782-3887 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
HMMPfamPF07915PRKCSH 523 572 6.6e-11IPR012913Glucosidase II beta subunit-like
Coilcoilcoiled-coil 614 635 NANot foundNot found
Coilcoilcoiled-coil 487 508 NANot foundNot found
Coilcoilcoiled-coil 323 344 NANot foundNot found
Coilcoilcoiled-coil 154 219 NANot foundNot found
Segsegseg 617 631 NANot foundNot found
Segsegseg 188 218 NANot foundNot found
Segsegseg 272 280 NANot foundNot found
Segsegseg 323 350 NANot foundNot found
Segsegseg 2 23 NANot foundNot found
Segsegseg 161 179 NANot foundNot found
superfamilySSF50911Mannose 6-phosphate 490 616 3e-13IPR009011Mannose-6-phosphate receptor, binding
superfamilySSF57424LDL receptor-like mo 76 120 4.5e-05IPR002172Low density lipoprotein-receptor, class A, cysteine-rich
HMMPantherPTHR12630N-LINKED OLIGOSACCHA 23 275 2.5e-93Not foundNot found
HMMPantherPTHR12630:SF1GLUCOSIDASE II BETA 23 275 2.5e-93Not foundNot found
Gene Ontology
GO TermGO TypeDescription
GO:0005515 Molecular Function protein binding
Swiss-Prot
Best HitE_value Description
O087951e-39GLU2B_MOUSE Glucosidase 2 subunit beta OS=Mus musculus GN=Prkcsh PE=1 SV=1
TrEMBL
Best HitE_value Description
Q9FM960.0Q9FM96_ARATH Genomic DNA, chromosome 5, P1 clone: MCD7 OS=Arabidopsis thaliana GN=At5g56360 PE=4 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description
ath:AT5G563600.0K08288PRKCSHprotein kinase C substrate 80K-H
Gene Cluster
Orthologs
OrthoMCL GroupSpeciesGene List
ORTHOMCL4211(12 genes,8 taxa):Arabidopsis thalianaAT5G56360.1
ORTHOMCL4211(12 genes,8 taxa):Brassica oleraceaBol001700
ORTHOMCL4211(12 genes,8 taxa):Brassica oleraceaBol009907
ORTHOMCL4211(12 genes,8 taxa):Brassica rapaBra002821
ORTHOMCL4211(12 genes,8 taxa):Brassica rapaBra028933
ORTHOMCL4211(12 genes,8 taxa):Vitis viniferaGSVIVT01025503001
ORTHOMCL4211(12 genes,8 taxa):Oryza sativaOs01t0276800-01
ORTHOMCL4211(12 genes,8 taxa):Oryza sativaOs01t0276800-03
ORTHOMCL4211(12 genes,8 taxa):Populus trichocarpaPOPTR_0001s03900.1
ORTHOMCL4211(12 genes,8 taxa):Populus trichocarpaPOPTR_0003s20810.1
ORTHOMCL4211(12 genes,8 taxa):Sorghum bicolorSb03g011140.1
ORTHOMCL4211(12 genes,8 taxa):Carica papayaevm.TU.supercontig_119.26
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.oleraceaC09:23931701..24905175 (+)A.thalianaChr5:22719191..22939036 (+)37
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC09:23931701..24905175 (+)B.rapaA10:10089517..10411637 (-)38
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
WAT5G563602282330222828025Chr5Subgenome_III(LF)311
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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