Basic Information
Gene Model:Bol024877
Gene Family:Not classificated
Chromosome:C03
Scaffold:Scaffold000090
Sequence:
 | 
Gene Structure
Nucleotide Length:6572 bp
Transcript Length:3528 bp
Protein Length:1175 aa
Strand:+
Location:C03: 39385221 : 39391792
Gene CDSs(20): 1-318 | 598-1278 | 1358-1501 | 1594-1884 | 1955-2140 | 2211-2375 | 2454-2513 | 2737-2799 | 3292-3383 | 3513-3609 | 4099-4215 | 4370-4588 | 4716-4856 | 4934-5101 | 5208-5392 | 5515-5608 | 5691-5779 | 5871-6096 | 6250-6324 | 6456-6572 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
Gene3DG3DSA:3.40.50.300no description 1003 1166 1.3e-34Not foundNot found
Gene3DG3DSA:3.40.50.300no description 1 219 4.4e-50Not foundNot found
PatternScanPS00211ABC_TRANSPORTER_1 1083 1097 NAIPR017871ABC transporter, conserved site
HMMPantherPTHR18937:SF9STRUCTURAL MAINTENAN 23 1175 0Not foundNot found
HMMPantherPTHR18937STRUCTURAL MAINTENAN 23 1175 0Not foundNot found
Segsegseg 1018 1029 NANot foundNot found
Segsegseg 1089 1101 NANot foundNot found
Segsegseg 823 841 NANot foundNot found
Segsegseg 895 912 NANot foundNot found
Segsegseg 177 188 NANot foundNot found
Segsegseg 659 673 NANot foundNot found
Coilcoilcoiled-coil 982 1027 NANot foundNot found
Coilcoilcoiled-coil 894 922 NANot foundNot found
Coilcoilcoiled-coil 679 700 NANot foundNot found
Coilcoilcoiled-coil 729 764 NANot foundNot found
Coilcoilcoiled-coil 789 831 NANot foundNot found
Coilcoilcoiled-coil 359 380 NANot foundNot found
Coilcoilcoiled-coil 400 449 NANot foundNot found
Coilcoilcoiled-coil 335 356 NANot foundNot found
Coilcoilcoiled-coil 178 199 NANot foundNot found
superfamilySSF46579Prefoldin 335 436 0.0036IPR009053Prefoldin
superfamilySSF46579Prefoldin 734 832 0.00042IPR009053Prefoldin
superfamilySSF75553Smc hinge domain 476 687 3.7e-44IPR010935SMCs flexible hinge
superfamilySSF52540P-loop containing nu 1 1157 7.9e-50Not foundNot found
BlastProDomPD968187Q30KS2_CANFA_Q30KS2; 103 223 2e-05Not foundNot found
BlastProDomPD968187Q30KS2_CANFA_Q30KS2; 760 872 2e-05Not foundNot found
BlastProDomPD936484Q806D4_9VIRU_Q806D4; 224 759 2e-08Not foundNot found
HMMPfamPF02463SMC_N 2 1165 4e-109IPR003395RecF/RecN/SMC protein, N-terminal
HMMPfamPF06470SMC_hinge 517 638 2.6e-31IPR010935SMCs flexible hinge
Gene Ontology
GO TermGO TypeDescription
GO:0005515 Molecular Function protein binding
GO:0005524 Molecular Function ATP binding
GO:0005694 Cellular Component chromosome
GO:0016887 Molecular Function ATPase activity
GO:0051276 Biological Process chromosome organization
Swiss-Prot
Best HitE_value Description
Q9SN900.0SMC22_ARATH Structural maintenance of chromosomes protein 2-2 OS=Arabidopsis thaliana GN=SMC2-2 PE=2 SV=1
TrEMBL
Best HitE_value Description
B9R9T80.0B9R9T8_RICCO Structural maintenance of chromosome, putative OS=Ricinus communis GN=RCOM_1500520 PE=4 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
ORTHOMCL3901(12 genes,7 taxa):Arabidopsis thalianaAT3G47460.1
ORTHOMCL3901(12 genes,7 taxa):Arabidopsis thalianaAT5G62410.1
ORTHOMCL3901(12 genes,7 taxa):Brassica oleraceaBol024794
ORTHOMCL3901(12 genes,7 taxa):Brassica oleraceaBol024877
ORTHOMCL3901(12 genes,7 taxa):Brassica rapaBra010079
ORTHOMCL3901(12 genes,7 taxa):Brassica rapaBra018145
ORTHOMCL3901(12 genes,7 taxa):Vitis viniferaGSVIVT01018715001
ORTHOMCL3901(12 genes,7 taxa):Oryza sativaOs01t0904400-01
ORTHOMCL3901(12 genes,7 taxa):Populus trichocarpaPOPTR_0001s00710.1
ORTHOMCL3901(12 genes,7 taxa):Populus trichocarpaPOPTR_0003s10790.1
ORTHOMCL3901(12 genes,7 taxa):Populus trichocarpaPOPTR_0003s10790.2
ORTHOMCL3901(12 genes,7 taxa):Carica papayaevm.TU.supercontig_3.332
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.oleraceaC03:38950224..40121817 (+)A.thalianaChr3:17313646..17712866 (+)43
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC03:38950224..40121817 (+)B.rapaA06:24336555..24961468 (-)49
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
MAT3G474601748676517493395Chr3Subgenome_III(LF)117
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


logo