Basic Information
Gene Model:Bol032773
Gene Family:Not classificated
Chromosome:C03
Scaffold:Scaffold000047_P1
Sequence:
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Gene Structure
Nucleotide Length:7354 bp
Transcript Length:4008 bp
Protein Length:1335 aa
Strand:+
Location:C03: 46591114 : 46598467
Gene CDSs(25): 1-96 | 183-261 | 351-403 | 483-646 | 764-997 | 1072-1218 | 1306-1464 | 1556-1736 | 1933-2005 | 2089-2238 | 2334-2458 | 2739-2829 | 2953-3061 | 3141-3240 | 3446-3604 | 3691-3802 | 3880-4184 | 4292-4530 | 5007-5085 | 5164-5299 | 5583-6037 | 6176-6373 | 6458-6682 | 6850-7126 | 7293-7354 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
HMMSmartSM00382no description 1120 1331 0.049IPR003593ATPase, AAA+ type, core
HMMSmartSM00382no description 470 649 4.6e-07IPR003593ATPase, AAA+ type, core
superfamilySSF90123Multidrug resistance 60 354 1.1e-06IPR011527ABC transporter, transmembrane region, type 1
superfamilySSF90123Multidrug resistance 729 996 1.2e-07IPR011527ABC transporter, transmembrane region, type 1
superfamilySSF52540P-loop containing nu 1095 1322 5.5e-27Not foundNot found
superfamilySSF52540P-loop containing nu 445 649 4.2e-42Not foundNot found
Segsegseg 395 406 NANot foundNot found
Segsegseg 67 85 NANot foundNot found
Segsegseg 129 145 NANot foundNot found
Segsegseg 42 53 NANot foundNot found
Segsegseg 24 38 NANot foundNot found
ProfileScanPS50893ABC_TRANSPORTER_2 1095 1335 8.904IPR003439ABC transporter-like
ProfileScanPS50893ABC_TRANSPORTER_2 445 675 13.839IPR003439ABC transporter-like
HMMPantherPTHR11384ATP-BINDING CASSETTE 34 745 0Not foundNot found
HMMPantherPTHR11384:SF4PEROXISOMAL ABC TRAN 34 745 0Not foundNot found
PatternScanPS00211ABC_TRANSPORTER_1 579 593 NAIPR017871ABC transporter, conserved site
PatternScanPS00211ABC_TRANSPORTER_1 1250 1264 NAIPR017871ABC transporter, conserved site
HMMPfamPF00005ABC_tran 1121 1309 1.1e-20IPR003439ABC transporter-like
HMMPfamPF06472ABC_membrane_2 736 1013 9.2e-119IPR010509ABC transporter, N-terminal
HMMPfamPF06472ABC_membrane_2 77 358 1.7e-122IPR010509ABC transporter, N-terminal
HMMPfamPF00005ABC_tran 471 650 1.7e-31IPR003439ABC transporter-like
Gene3DG3DSA:3.40.50.300no description 1060 1322 5.8e-19Not foundNot found
Gene3DG3DSA:3.40.50.300no description 408 649 4.2e-33Not foundNot found
Gene Ontology
GO TermGO TypeDescription
GO:0000166 Molecular Function nucleotide binding
GO:0005524 Molecular Function ATP binding
GO:0006810 Biological Process transport
GO:0016020 Cellular Component membrane
GO:0016021 Cellular Component integral to membrane
GO:0016887 Molecular Function ATPase activity
GO:0017111 Molecular Function nucleoside-triphosphatase activity
GO:0042626 Molecular Function ATPase activity, coupled to transmembrane movement of substances
GO:0055085 Biological Process transmembrane transport
Swiss-Prot
Best HitE_value Description
Q94FB90.0AB1D_ARATH ABC transporter D family member 1 OS=Arabidopsis thaliana GN=ABCC1 PE=1 SV=1
TrEMBL
Best HitE_value Description
B9H5320.0B9H532_POPTR Peroxisomal membrane ABC transporter family, PMP family OS=Populus trichocarpa GN=POPTRDRAFT_831368 PE=3 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description
ngr:NAEGRDRAFT_803121e-105K05677ABCD3, PMP70ATP-binding cassette, subfamily D (ALD), member 3
Gene Cluster
Orthologs
OrthoMCL GroupSpeciesGene List

Note: the orthologous genes of this gene was not detected by OrthoMCL software with default parameters.

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.oleraceaC03:46543544..46819121 (+)A.thalianaChr4:18448980..18580717 (+)15
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC03:45874901..46866351 (+)B.rapaA09:4711174..5223726 (+)22
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block

Note: this gene was no corresponding triplicated genes.

 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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