Human Gene JOSD1 (uc003awf.3)
  Description: Homo sapiens Josephin domain containing 1 (JOSD1), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr22:39,081,548-39,096,459 Size: 14,912 Total Exon Count: 4 Strand: -
Coding Region
   Position: hg19 chr22:39,083,907-39,095,992 Size: 12,086 Coding Exon Count: 4 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr22:39,081,548-39,096,459)mRNA (may differ from genome)Protein (202 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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neXtProtOMIMPubMedReactomeTreefamUniProtKB
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: JOS1_HUMAN
DESCRIPTION: RecName: Full=Josephin-1; EC=3.4.19.12; AltName: Full=Josephin domain-containing 1;
FUNCTION: Has low protease activity towards poly-ubiquitin chains (in vitro). May act as a deubiquitinating enzyme.
CATALYTIC ACTIVITY: Thiol-dependent hydrolysis of ester, thioester, amide, peptide and isopeptide bonds formed by the C- terminal Gly of ubiquitin (a 76-residue protein attached to proteins as an intracellular targeting signal).
SIMILARITY: Contains 1 Josephin domain.
SEQUENCE CAUTION: Sequence=BAA06682.2; Type=Erroneous initiation;

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 27.92 RPKM in Ovary
Total median expression: 863.54 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -138.86467-0.297 Picture PostScript Text
3' UTR -805.762359-0.342 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR006155 - Josephin

Pfam Domains:
PF02099 - Josephin

ModBase Predicted Comparative 3D Structure on Q15040
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologGenome BrowserGenome BrowserNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGDEnsembl   
 Protein SequenceProtein Sequence   
 AlignmentAlignment   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004843 thiol-dependent ubiquitin-specific protease activity
GO:0005515 protein binding
GO:0008233 peptidase activity
GO:0016787 hydrolase activity
GO:0036459 thiol-dependent ubiquitinyl hydrolase activity

Biological Process:
GO:0006508 proteolysis
GO:0016579 protein deubiquitination

Cellular Component:
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005886 plasma membrane
GO:0016020 membrane


-  Descriptions from all associated GenBank mRNAs
  BX538323 - Homo sapiens mRNA; cDNA DKFZp686L13176 (from clone DKFZp686L13176).
BC015026 - Homo sapiens Josephin domain containing 1, mRNA (cDNA clone MGC:8997 IMAGE:3921785), complete cds.
D31884 - Homo sapiens KIAA0063 mRNA.
JD490255 - Sequence 471279 from Patent EP1572962.
JD434773 - Sequence 415797 from Patent EP1572962.
JD224994 - Sequence 206018 from Patent EP1572962.
JD486451 - Sequence 467475 from Patent EP1572962.
JD203484 - Sequence 184508 from Patent EP1572962.
JD438702 - Sequence 419726 from Patent EP1572962.
JD450733 - Sequence 431757 from Patent EP1572962.
JD289531 - Sequence 270555 from Patent EP1572962.
JD196630 - Sequence 177654 from Patent EP1572962.
JD199712 - Sequence 180736 from Patent EP1572962.
JD050884 - Sequence 31908 from Patent EP1572962.
JD541368 - Sequence 522392 from Patent EP1572962.
JD158268 - Sequence 139292 from Patent EP1572962.
JD184816 - Sequence 165840 from Patent EP1572962.
JD067066 - Sequence 48090 from Patent EP1572962.
JD190048 - Sequence 171072 from Patent EP1572962.
JD159123 - Sequence 140147 from Patent EP1572962.
JD272799 - Sequence 253823 from Patent EP1572962.
JD221444 - Sequence 202468 from Patent EP1572962.
JD374262 - Sequence 355286 from Patent EP1572962.
DQ573736 - Homo sapiens piRNA piR-41848, complete sequence.
JD354999 - Sequence 336023 from Patent EP1572962.
JD200134 - Sequence 181158 from Patent EP1572962.
JD507113 - Sequence 488137 from Patent EP1572962.
JD548776 - Sequence 529800 from Patent EP1572962.
JD409889 - Sequence 390913 from Patent EP1572962.
JD080941 - Sequence 61965 from Patent EP1572962.
JD398983 - Sequence 380007 from Patent EP1572962.
JD306784 - Sequence 287808 from Patent EP1572962.
JD235167 - Sequence 216191 from Patent EP1572962.
JD095187 - Sequence 76211 from Patent EP1572962.
JD073386 - Sequence 54410 from Patent EP1572962.
AK291827 - Homo sapiens cDNA FLJ75734 complete cds.
JD516712 - Sequence 497736 from Patent EP1572962.
JD449535 - Sequence 430559 from Patent EP1572962.
JD297754 - Sequence 278778 from Patent EP1572962.
JD063851 - Sequence 44875 from Patent EP1572962.
JD284588 - Sequence 265612 from Patent EP1572962.
JD255683 - Sequence 236707 from Patent EP1572962.
CR456473 - Homo sapiens dJ508I15.2 full length open reading frame (ORF) cDNA clone (cDNA clone C22ORF:pGEM.dJ508I15.2).
DQ596347 - Homo sapiens piRNA piR-34413, complete sequence.
CU013023 - Homo sapiens JOSD1, mRNA (cDNA clone IMAGE:100000185), complete cds, with stop codon, in Gateway system.
CR456923 - Homo sapiens full open reading frame cDNA clone RZPDo834A035D for gene KIAA0063, KIAA0063 gene product; complete cds, incl. stopcodon.
CU677177 - Synthetic construct Homo sapiens gateway clone IMAGE:100018558 5' read JOSD1 mRNA.
AB383731 - Synthetic construct DNA, clone: pF1KSDA0063, Homo sapiens JOSD1 gene for josephin-1, complete cds, without stop codon, in Flexi system.
CU013311 - Homo sapiens JOSD1, mRNA (cDNA clone IMAGE:100000089), complete cds, without stop codon, in Gateway system.
JD203371 - Sequence 184395 from Patent EP1572962.
JD171234 - Sequence 152258 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q15040 (Reactome details) participates in the following event(s):

R-HSA-5688797 ATXN3 family cleave Ub chains
R-HSA-5689877 Josephin domain DUBs
R-HSA-5688426 Deubiquitination
R-HSA-597592 Post-translational protein modification
R-HSA-392499 Metabolism of proteins

-  Other Names for This Gene
  Alternate Gene Symbols: A8K712, JOS1_HUMAN, JSPH1, KIAA0063, NM_014876, NP_055691, Q15040
UCSC ID: uc003awf.3
RefSeq Accession: NM_014876
Protein: Q15040 (aka JOS1_HUMAN)
CCDS: CCDS13976.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_014876.5
exon count: 4CDS single in 3' UTR: no RNA size: 3435
ORF size: 609CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1326.50frame shift in genome: no % Coverage: 100.00
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.