Basic Information
Gene Model:Bol044340
Gene Family:Not classificated
Chromosome:C08
Scaffold:Scaffold000002
Sequence:
 | 
Gene Structure
Nucleotide Length:2249 bp
Transcript Length:2127 bp
Protein Length:708 aa
Strand:-
Location:C08: 29293732 : 29295980
Gene CDSs(2): 1-1368 | 1491-2249 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
Segsegseg 208 225 NANot foundNot found
Segsegseg 277 288 NANot foundNot found
Segsegseg 642 658 NANot foundNot found
PatternScanPS00211ABC_TRANSPORTER_1 213 227 NAIPR017871ABC transporter, conserved site
HMMPfamPF01061ABC2_membrane 402 612 3.8e-54IPR013525ABC-2 type transporter
HMMPfamPF00005ABC_tran 100 289 2.3e-38IPR003439ABC transporter-like
HMMPantherPTHR19241ATP-BINDING CASSETTE 20 707 0Not foundNot found
HMMPantherPTHR19241:SF20ATP-BINDING CASSETTE 20 707 0Not foundNot found
HMMSmartSM00382no description 99 290 3.2e-10IPR003593ATPase, AAA+ type, core
superfamilySSF52540P-loop containing nu 60 300 8.5e-49Not foundNot found
Gene3DG3DSA:3.40.50.300no description 89 300 2.4e-40Not foundNot found
ProfileScanPS50893ABC_TRANSPORTER_2 73 313 19.495IPR003439ABC transporter-like
Gene Ontology
GO TermGO TypeDescription
GO:0000166 Molecular Function nucleotide binding
GO:0005524 Molecular Function ATP binding
GO:0016020 Cellular Component membrane
GO:0016887 Molecular Function ATPase activity
GO:0017111 Molecular Function nucleoside-triphosphatase activity
Swiss-Prot
Best HitE_value Description
Q9M2V50.0AB18G_ARATH ABC transporter G family member 18 OS=Arabidopsis thaliana GN=ABCG18 PE=2 SV=1
TrEMBL
Best HitE_value Description
Q2V6050.0Q2V605_BRACM ABC transporter-like protein OS=Brassica campestris PE=2 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description
vvi:1002484030.0K12843PRPF3, PRP3U4/U6 small nuclear ribonucleoprotein PRP3
Gene Cluster
Orthologs
OrthoMCL GroupSpeciesGene List
ORTHOMCL150(51 genes,8 taxa):Arabidopsis thalianaAT2G37360.1
ORTHOMCL150(51 genes,8 taxa):Arabidopsis thalianaAT2G39350.1
ORTHOMCL150(51 genes,8 taxa):Arabidopsis thalianaAT3G53510.1
ORTHOMCL150(51 genes,8 taxa):Arabidopsis thalianaAT3G55090.1
ORTHOMCL150(51 genes,8 taxa):Arabidopsis thalianaAT3G55100.1
ORTHOMCL150(51 genes,8 taxa):Arabidopsis thalianaAT3G55110.1
ORTHOMCL150(51 genes,8 taxa):Arabidopsis thalianaAT3G55130.1
ORTHOMCL150(51 genes,8 taxa):Arabidopsis thalianaAT5G13580.1
ORTHOMCL150(51 genes,8 taxa):Brassica oleraceaBol008651
ORTHOMCL150(51 genes,8 taxa):Brassica oleraceaBol016256
ORTHOMCL150(51 genes,8 taxa):Brassica oleraceaBol025127
ORTHOMCL150(51 genes,8 taxa):Brassica oleraceaBol025223
ORTHOMCL150(51 genes,8 taxa):Brassica oleraceaBol040260
ORTHOMCL150(51 genes,8 taxa):Brassica oleraceaBol043423
ORTHOMCL150(51 genes,8 taxa):Brassica oleraceaBol044186
ORTHOMCL150(51 genes,8 taxa):Brassica oleraceaBol044187
ORTHOMCL150(51 genes,8 taxa):Brassica oleraceaBol044188
ORTHOMCL150(51 genes,8 taxa):Brassica oleraceaBol044189
ORTHOMCL150(51 genes,8 taxa):Brassica oleraceaBol044194
ORTHOMCL150(51 genes,8 taxa):Brassica oleraceaBol044340
ORTHOMCL150(51 genes,8 taxa):Brassica rapaBra003208
ORTHOMCL150(51 genes,8 taxa):Brassica rapaBra005048
ORTHOMCL150(51 genes,8 taxa):Brassica rapaBra005051
ORTHOMCL150(51 genes,8 taxa):Brassica rapaBra007006
ORTHOMCL150(51 genes,8 taxa):Brassica rapaBra007141
ORTHOMCL150(51 genes,8 taxa):Brassica rapaBra008817
ORTHOMCL150(51 genes,8 taxa):Brassica rapaBra014773
ORTHOMCL150(51 genes,8 taxa):Brassica rapaBra014774
ORTHOMCL150(51 genes,8 taxa):Brassica rapaBra014775
ORTHOMCL150(51 genes,8 taxa):Brassica rapaBra014776
ORTHOMCL150(51 genes,8 taxa):Brassica rapaBra017193
ORTHOMCL150(51 genes,8 taxa):Brassica rapaBra035353
ORTHOMCL150(51 genes,8 taxa):Vitis viniferaGSVIVT01025582001
ORTHOMCL150(51 genes,8 taxa):Vitis viniferaGSVIVT01032625001
ORTHOMCL150(51 genes,8 taxa):Oryza sativaOs01t0836600-01
ORTHOMCL150(51 genes,8 taxa):Oryza sativaOs03t0281900-01
ORTHOMCL150(51 genes,8 taxa):Oryza sativaOs03t0282100-00
ORTHOMCL150(51 genes,8 taxa):Oryza sativaOs05t0120000-00
ORTHOMCL150(51 genes,8 taxa):Oryza sativaOs05t0120200-01
ORTHOMCL150(51 genes,8 taxa):Populus trichocarpaPOPTR_0002s15830.1
ORTHOMCL150(51 genes,8 taxa):Populus trichocarpaPOPTR_0006s23160.1
ORTHOMCL150(51 genes,8 taxa):Populus trichocarpaPOPTR_0008s04770.1
ORTHOMCL150(51 genes,8 taxa):Populus trichocarpaPOPTR_0008s04780.1
ORTHOMCL150(51 genes,8 taxa):Populus trichocarpaPOPTR_0010s22030.1
ORTHOMCL150(51 genes,8 taxa):Populus trichocarpaPOPTR_0014s07600.1
ORTHOMCL150(51 genes,8 taxa):Sorghum bicolorSb01g038970.1
ORTHOMCL150(51 genes,8 taxa):Sorghum bicolorSb03g039110.1
ORTHOMCL150(51 genes,8 taxa):Sorghum bicolorSb09g001900.1
ORTHOMCL150(51 genes,8 taxa):Sorghum bicolorSb09g001940.1
ORTHOMCL150(51 genes,8 taxa):Carica papayaevm.TU.supercontig_1.293
ORTHOMCL150(51 genes,8 taxa):Carica papayaevm.TU.supercontig_114.17
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.oleraceaC08:29166572..30116123 (-)A.thalianaChr5:289765..679043 (+)15
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC08:27373536..34472409 (+)B.rapaA09:10065156..15472209 (+)727
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
NAT3G551102042455020427377Chr3Subgenome_III(LF)368
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


logo