Basic Information
Gene Model:Bol017970
Gene Family:Transcription Factor Families
Chromosome:C01
Scaffold:Scaffold000142
Sequence:
 | 
Gene Structure
Nucleotide Length:10452 bp
Transcript Length:2973 bp
Protein Length:990 aa
Strand:+
Location:C01: 3711534 : 3721985
Gene CDSs(14): 1-221 | 358-529 | 627-715 | 806-891 | 984-1146 | 1223-1504 | 1585-1669 | 1744-1956 | 2044-2105 | 2186-2303 | 8709-9200 | 9300-9692 | 9783-10022 | 10096-10452 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
HMMPfamPF02362B3 777 873 1.1e-15IPR003340Transcriptional factor B3
HMMPfamPF02362B3 646 743 3.8e-29IPR003340Transcriptional factor B3
HMMPfamPF02362B3 487 576 7.6e-18IPR003340Transcriptional factor B3
HMMPfamPF00443UCH 150 456 1.1e-54IPR001394Peptidase C19, ubiquitin carboxyl-terminal hydrolase 2
HMMPfamPF01753zf-MYND 59 91 1e-07IPR002893Zinc finger, MYND-type
Gene3DG3DSA:2.40.330.10no description 474 576 8.4e-13Not foundNot found
PatternScanPS00972UCH_2_1 154 169 NAIPR018200Peptidase C19, ubiquitin carboxyl-terminal hydrolase 2, conserved site
ProfileScanPS50863B3 777 873 8.092IPR003340Transcriptional factor B3
ProfileScanPS50865ZF_MYND_2 53 91 10.375IPR002893Zinc finger, MYND-type
ProfileScanPS50863B3 646 742 13.493IPR003340Transcriptional factor B3
ProfileScanPS50863B3 482 574 11.138IPR003340Transcriptional factor B3
ProfileScanPS50235UCH_2_3 153 460 27.423IPR001394Peptidase C19, ubiquitin carboxyl-terminal hydrolase 2
Segsegseg 604 625 NANot foundNot found
Segsegseg 42 48 NANot foundNot found
HMMPantherPTHR10420:SF51UBIQUITIN-SPECIFIC P 29 405 4.1e-201Not foundNot found
HMMPantherPTHR10420UBIQUITIN SPECIFIC 29 405 4.1e-201Not foundNot found
superfamilySSF54001Cysteine proteinases 147 460 2.7e-83Not foundNot found
Gene Ontology
GO TermGO TypeDescription
GO:0003677 Molecular Function DNA binding
GO:0004221 Molecular Function ubiquitin thiolesterase activity
GO:0006355 Biological Process regulation of transcription, DNA-dependent
GO:0006511 Biological Process ubiquitin-dependent protein catabolic process
GO:0008270 Molecular Function zinc ion binding
Swiss-Prot
Best HitE_value Description
Q67XW50.0UBP18_ARATH Ubiquitin carboxyl-terminal hydrolase 18 OS=Arabidopsis thaliana GN=UBP18 PE=2 SV=2
TrEMBL
Best HitE_value Description
B9RNQ10.0B9RNQ1_RICCO Cysteine-type endopeptidase, putative OS=Ricinus communis GN=RCOM_0919640 PE=4 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description
rcu:RCOM_09196400.0K11855USP36_42ubiquitin carboxyl-terminal hydrolase 36/42
Gene Cluster
Orthologs
OrthoMCL GroupSpeciesGene List
ORTHOMCL1299(18 genes,8 taxa):Arabidopsis thalianaAT2G24640.1
ORTHOMCL1299(18 genes,8 taxa):Arabidopsis thalianaAT4G31630.1
ORTHOMCL1299(18 genes,8 taxa):Arabidopsis thalianaAT4G31670.1
ORTHOMCL1299(18 genes,8 taxa):Brassica oleraceaBol017970
ORTHOMCL1299(18 genes,8 taxa):Brassica oleraceaBol033741
ORTHOMCL1299(18 genes,8 taxa):Brassica oleraceaBol041906
ORTHOMCL1299(18 genes,8 taxa):Brassica oleraceaBol045769
ORTHOMCL1299(18 genes,8 taxa):Brassica rapaBra007837
ORTHOMCL1299(18 genes,8 taxa):Brassica rapaBra011288
ORTHOMCL1299(18 genes,8 taxa):Brassica rapaBra011290
ORTHOMCL1299(18 genes,8 taxa):Brassica rapaBra023991
ORTHOMCL1299(18 genes,8 taxa):Brassica rapaBra032080
ORTHOMCL1299(18 genes,8 taxa):Vitis viniferaGSVIVT01033166001
ORTHOMCL1299(18 genes,8 taxa):Oryza sativaOs06t0654000-01
ORTHOMCL1299(18 genes,8 taxa):Populus trichocarpaPOPTR_0006s28540.1
ORTHOMCL1299(18 genes,8 taxa):Populus trichocarpaPOPTR_0018s03350.1
ORTHOMCL1299(18 genes,8 taxa):Sorghum bicolorSb10g026010.1
ORTHOMCL1299(18 genes,8 taxa):Carica papayaevm.TU.supercontig_23.37
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.oleraceaC01:1110751..4283482 (-)A.thalianaChr4:14920534..17373930 (+)410
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC01:3269215..4168888 (+)B.rapaA09:14954195..15456043 (+)25
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
UAT4G316701533586715339591Chr4Subgenome_III(LF)1224
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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