Basic Information
Gene Model:Bol020540
Gene Family:Not classificated
Chromosome:C03
Scaffold:Scaffold000122_P2
Sequence:
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Gene Structure
Nucleotide Length:11971 bp
Transcript Length:5592 bp
Protein Length:1863 aa
Strand:-
Location:C03: 12128468 : 12140438
Gene CDSs(40): 1-87 | 255-334 | 417-585 | 668-750 | 1200-1416 | 1505-1713 | 1797-1857 | 1977-2024 | 2282-2514 | 2641-2755 | 2849-2938 | 3258-3448 | 3534-3646 | 4111-4217 | 4402-4464 | 4717-4803 | 5061-5159 | 5237-5421 | 5830-5884 | 5972-6043 | 6336-7037 | 7397-7575 | 7768-7978 | 8183-8266 | 8381-8422 | 8512-8608 | 8701-8828 | 8936-9040 | 9124-9270 | 9461-9724 | 9798-9933 | 10056-10135 | 10226-10333 | 10480-10630 | 10761-10897 | 10983-11057 | 11142-11445 | 11528-11661 | 11741-11802 | 11890-11971 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
HMMSmartSM00382no description 1464 1651 2e-06IPR003593ATPase, AAA+ type, core
HMMSmartSM00382no description 558 740 6.3e-08IPR003593ATPase, AAA+ type, core
Segsegseg 1064 1075 NANot foundNot found
Segsegseg 1156 1175 NANot foundNot found
Segsegseg 1004 1009 NANot foundNot found
Segsegseg 972 982 NANot foundNot found
Segsegseg 706 718 NANot foundNot found
Segsegseg 231 246 NANot foundNot found
PatternScanPS00211ABC_TRANSPORTER_1 1571 1585 NAIPR017871ABC transporter, conserved site
PatternScanPS00211ABC_TRANSPORTER_1 665 679 NAIPR017871ABC transporter, conserved site
superfamilySSF52540P-loop containing nu 1433 1666 4.5e-58Not foundNot found
superfamilySSF52540P-loop containing nu 530 787 1.7e-61Not foundNot found
Gene3DG3DSA:3.40.50.300no description 524 754 2.8e-52Not foundNot found
Gene3DG3DSA:3.40.50.300no description 1428 1663 1.2e-51Not foundNot found
HMMPfamPF00005ABC_tran 1465 1648 3.2e-46IPR003439ABC transporter-like
HMMPfamPF00005ABC_tran 559 739 3.8e-57IPR003439ABC transporter-like
HMMPantherPTHR19229:SF26ABC TRANSPORTER 5 1860 0Not foundNot found
HMMPantherPTHR19229ATP-BINDING CASSETTE 5 1860 0Not foundNot found
ProfileScanPS50893ABC_TRANSPORTER_2 530 763 19.721IPR003439ABC transporter-like
ProfileScanPS50893ABC_TRANSPORTER_2 1434 1672 18.261IPR003439ABC transporter-like
Gene Ontology
GO TermGO TypeDescription
GO:0000166 Molecular Function nucleotide binding
GO:0005524 Molecular Function ATP binding
GO:0016887 Molecular Function ATPase activity
GO:0017111 Molecular Function nucleoside-triphosphatase activity
Swiss-Prot
Best HitE_value Description
Q84M240.0AB1A_ARATH ABC transporter A family member 1 OS=Arabidopsis thaliana GN=ABCA1 PE=2 SV=2
TrEMBL
Best HitE_value Description
B9H9T20.0B9H9T2_POPTR ABC transporter family, cholesterol/phospholipid flippase OS=Populus trichocarpa GN=PtrAOH1 PE=3 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description
tet:TTHERM_005327900.0K10827E3.6.3.31polyamine-transporting ATPase
Gene Cluster
Orthologs
OrthoMCL GroupSpeciesGene List
ORTHOMCL11524(7 genes,6 taxa):Arabidopsis thalianaAT2G41700.1
ORTHOMCL11524(7 genes,6 taxa):Brassica oleraceaBol020540
ORTHOMCL11524(7 genes,6 taxa):Brassica rapaBra000236
ORTHOMCL11524(7 genes,6 taxa):Vitis viniferaGSVIVT01033258001
ORTHOMCL11524(7 genes,6 taxa):Populus trichocarpaPOPTR_0006s04780.1
ORTHOMCL11524(7 genes,6 taxa):Populus trichocarpaPOPTR_0006s04790.1
ORTHOMCL11524(7 genes,6 taxa):Carica papayaevm.TU.supercontig_224.9
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.oleraceaC03:11545698..12240200 (+)A.thalianaChr2:16844864..17551175 (+)64
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC03:11573797..12276898 (+)B.rapaA05:17764283..18311279 (+)41
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
JAT2G417001738304217395942Chr2Subgenome_II219
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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