Basic Information
Gene Model:Bol011585
Gene Family:Not classificated
Chromosome:C08
Scaffold:Scaffold000210
Sequence:
 | 
Gene Structure
Nucleotide Length:5045 bp
Transcript Length:1455 bp
Protein Length:484 aa
Strand:-
Location:C08: 2694810 : 2699854
Gene CDSs(16): 1-128 | 218-331 | 437-493 | 583-667 | 755-832 | 925-1041 | 1187-1291 | 1395-1469 | 1948-2007 | 2111-2206 | 3656-3774 | 3866-4007 | 4162-4248 | 4512-4604 | 4863-4948 | 5033-5045 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
ProfileScanPS50082WD_REPEATS_2 337 377 10.876IPR019782WD40 repeat 2
ProfileScanPS50294WD_REPEATS_REGION 183 377 32.483IPR017986WD40-repeat-containing domain
ProfileScanPS50082WD_REPEATS_2 206 237 14.585IPR019782WD40 repeat 2
ProfileScanPS50082WD_REPEATS_2 251 292 8.838IPR019782WD40 repeat 2
ProfileScanPS50082WD_REPEATS_2 303 336 9.573IPR019782WD40 repeat 2
HMMPfamPF00400WD40 433 470 0.00033IPR019781WD40 repeat, subgroup
HMMPfamPF00400WD40 303 327 0.00052IPR019781WD40 repeat, subgroup
HMMPfamPF00400WD40 331 368 2.8e-10IPR019781WD40 repeat, subgroup
HMMPfamPF00400WD40 245 283 8.4e-09IPR019781WD40 repeat, subgroup
HMMPfamPF00400WD40 200 238 1e-13IPR019781WD40 repeat, subgroup
HMMPfamPF08606Prp19 50 119 3.9e-44IPR013915Pre-mRNA-splicing factor 19
Coilcoilcoiled-coil 101 122 NANot foundNot found
HMMSmartSM00320no description 371 406 4.3e+02IPR001680WD40 repeat
HMMSmartSM00320no description 429 470 0.044IPR001680WD40 repeat
HMMSmartSM00320no description 330 368 6.2e-08IPR001680WD40 repeat
HMMSmartSM00320no description 244 283 6e-07IPR001680WD40 repeat
HMMSmartSM00320no description 286 327 0.97IPR001680WD40 repeat
HMMSmartSM00320no description 199 238 1.9e-08IPR001680WD40 repeat
HMMSmartSM00504no description 1 52 0.0024IPR003613U box domain
Gene3DG3DSA:2.130.10.10no description 179 468 6.1e-53IPR015943WD40/YVTN repeat-like-containing domain
Gene3DG3DSA:3.30.40.10no description 1 36 1.1e-08Not foundNot found
HMMPantherPTHR13889PRE-MRNA SPLICING FA 29 478 4.6e-284Not foundNot found
HMMPantherPTHR13889:SF9PRE-MRNA SPLICING FA 29 478 4.6e-284Not foundNot found
superfamilySSF50978WD40 repeat-like 179 468 1.2e-55IPR011046WD40 repeat-like-containing domain
superfamilySSF57850RING/U-box 1 36 8e-06Not foundNot found
Gene Ontology
GO TermGO TypeDescription
GO:0000151 Cellular Component ubiquitin ligase complex
GO:0004842 Molecular Function ubiquitin-protein ligase activity
GO:0016567 Biological Process protein ubiquitination
Swiss-Prot
Best HitE_value Description
Q94BR40.0PR19A_ARATH Pre-mRNA-processing factor 19 homolog 1 OS=Arabidopsis thaliana GN=PUB59 PE=1 SV=1
TrEMBL
Best HitE_value Description
Q2V4Q90.0Q2V4Q9_ARATH Putative uncharacterized protein At1g04510.2 OS=Arabidopsis thaliana GN=At1g04510 PE=4 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description
ath:AT1G045100.0K10599PRPF19, PRP19pre-mRNA-processing factor 19
Gene Cluster
Orthologs
OrthoMCL GroupSpeciesGene List
ORTHOMCL1431(17 genes,8 taxa):Arabidopsis thalianaAT1G04510.1
ORTHOMCL1431(17 genes,8 taxa):Arabidopsis thalianaAT2G33340.1
ORTHOMCL1431(17 genes,8 taxa):Brassica oleraceaBol011585
ORTHOMCL1431(17 genes,8 taxa):Brassica oleraceaBol027262
ORTHOMCL1431(17 genes,8 taxa):Brassica oleraceaBol037940
ORTHOMCL1431(17 genes,8 taxa):Brassica oleraceaBol040899
ORTHOMCL1431(17 genes,8 taxa):Brassica rapaBra005504
ORTHOMCL1431(17 genes,8 taxa):Brassica rapaBra015322
ORTHOMCL1431(17 genes,8 taxa):Brassica rapaBra021844
ORTHOMCL1431(17 genes,8 taxa):Brassica rapaBra030575
ORTHOMCL1431(17 genes,8 taxa):Vitis viniferaGSVIVT01027911001
ORTHOMCL1431(17 genes,8 taxa):Oryza sativaOs10t0466300-01
ORTHOMCL1431(17 genes,8 taxa):Oryza sativaOs10t0466300-02
ORTHOMCL1431(17 genes,8 taxa):Populus trichocarpaPOPTR_0008s17140.1
ORTHOMCL1431(17 genes,8 taxa):Populus trichocarpaPOPTR_0010s07660.1
ORTHOMCL1431(17 genes,8 taxa):Sorghum bicolorSb01g019790.1
ORTHOMCL1431(17 genes,8 taxa):Carica papayaevm.TU.supercontig_44.4
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.oleraceaC08:2372117..3045158 (-)A.thalianaChr1:880496..1537525 (+)66
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC08:1428736..2959055 (+)B.rapaA10:15715817..17879701 (-)96
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
AAT1G0451012265751230827Chr1Subgenome_II155
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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