Basic Information
Gene Model:Bol037940
Gene Family:Not classificated
Chromosome:C04
Scaffold:Scaffold000023_P2
Sequence:
 | 
Gene Structure
Nucleotide Length:4198 bp
Transcript Length:1128 bp
Protein Length:375 aa
Strand:-
Location:C04: 35183234 : 35187431
Gene CDSs(13): 1-13 | 1347-1468 | 1789-1905 | 2206-2301 | 2384-2443 | 2778-2852 | 2952-3056 | 3223-3339 | 3439-3516 | 3609-3693 | 3787-3838 | 3924-3994 | 4062-4198 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
HMMPfamPF00400WD40 321 358 8.3e-06IPR019781WD40 repeat, subgroup
HMMPfamPF00400WD40 207 231 0.00075IPR019781WD40 repeat, subgroup
HMMPfamPF00400WD40 235 272 6.7e-11IPR019781WD40 repeat, subgroup
HMMPfamPF00400WD40 104 142 7.3e-15IPR019781WD40 repeat, subgroup
HMMPfamPF00400WD40 149 187 4e-08IPR019781WD40 repeat, subgroup
ProfileScanPS50082WD_REPEATS_2 241 281 12.246IPR019782WD40 repeat 2
ProfileScanPS50294WD_REPEATS_REGION 68 281 35.805IPR017986WD40-repeat-containing domain
ProfileScanPS50082WD_REPEATS_2 207 240 9.673IPR019782WD40 repeat 2
ProfileScanPS50082WD_REPEATS_2 155 196 9.071IPR019782WD40 repeat 2
ProfileScanPS50082WD_REPEATS_2 110 141 14.819IPR019782WD40 repeat 2
HMMPantherPTHR13889PRE-MRNA SPLICING FA 8 366 1.4e-247Not foundNot found
HMMPantherPTHR13889:SF9PRE-MRNA SPLICING FA 8 366 1.4e-247Not foundNot found
HMMSmartSM00320no description 317 358 0.01IPR001680WD40 repeat
HMMSmartSM00320no description 275 310 60IPR001680WD40 repeat
HMMSmartSM00320no description 148 187 1.2e-05IPR001680WD40 repeat
HMMSmartSM00320no description 190 231 0.84IPR001680WD40 repeat
HMMSmartSM00320no description 234 272 8.9e-09IPR001680WD40 repeat
HMMSmartSM00320no description 58 100 2.4IPR001680WD40 repeat
HMMSmartSM00320no description 103 142 1.3e-09IPR001680WD40 repeat
superfamilySSF50978WD40 repeat-like 72 357 1.1e-60IPR011046WD40 repeat-like-containing domain
Gene3DG3DSA:2.130.10.10no description 26 357 9.8e-58IPR015943WD40/YVTN repeat-like-containing domain
Gene Ontology
GO TermGO TypeDescription

Note: this gene was not detected its best hit in Swiss-Prot database.

Swiss-Prot
Best HitE_value Description
O227850.0PR19B_ARATH Pre-mRNA-processing factor 19 homolog 2 OS=Arabidopsis thaliana GN=PUB60 PE=2 SV=2
TrEMBL
Best HitE_value Description
Q3EBP50.0Q3EBP5_ARATH Truncated MOS4-associated complex protein 3B OS=Arabidopsis thaliana GN=MAC3B PE=2 SV=2
KEGG
Best HitE_valueKOEC or Symbol Description
ath:AT2G333400.0K10599PRPF19, 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.oleraceaC04:34667219..39428485 (+)A.thalianaChr2:13829420..17464161 (+)433
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC04:34712153..37938243 (+)B.rapaA05:20289850..23204782 (-)186
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
JAT2G333401412621714131143Chr2Subgenome_I375
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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