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USP17L6P Gene

pseudogene   GIFtS: 24
GCID: GC04P009371

Ubiquitin Specific Peptidase 17-Like Family Member 6, Pseudogene

(Previous names: ubiquitin specific peptidase 17-like 6, pseudogene)
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(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Ubiquitin Specific Peptidase 17-Like Family Member 6, Pseudogene1 2     USP17D3
Ubiquitin Specific Peptidase 17-Like 6, Pseudogene1     USP17N3
DUB42     Deubiquitinating Enzyme 17-Like Protein 63
USP17L62     Ubiquitin Thioesterase 17-Like Protein 63
vDUB42     Ubiquitin-Specific-Processing Protease 17-Like Protein 63
EC 3.4.19.123     EC 3.1.2.158
USP17C3     

External Ids:    HGNC: 371791   Entrez Gene: 3916222   Ensembl: ENSG000002059467   UniProtKB: Q6QN143   

Export aliases for USP17L6P gene to outside databases

Previous GC identifers: GC04P008979 GC04P008724


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for USP17L6P Gene:
USP17L6P (ubiquitin specific peptidase 17-like family member 6, pseudogene) is a pseudogene. GO annotations related to this gene include cysteine-type peptidase activity and ubiquitin thiolesterase activity.

UniProtKB/Swiss-Prot: U17L6_HUMAN, Q6QN14
Function: Deubiquitinating enzyme that removes conjugated ubiquitin from specific proteins to regulate different
cellular processes that may include cell proliferation, progression through the cell cycle, cell migration, and
the cellular response to viral infection. Seems to be non-functional in the regulation of apoptosis




(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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Regulatory elements:
   Search for regulatory transcription factor binding sites for USP17L6P
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for USP17L6P

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat USP17L6P


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 4p16.1   Ensembl cytogenetic band:  4p16.1   HGNC cytogenetic band: 4p16.1

USP17L6P Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
USP17L6P gene location

GeneLoc information about chromosome 4         GeneLoc Exon Structure

GeneLoc location for GC04P009371:  view genomic region     (about GC identifiers)

Start:
9,369,600 bp from pter      End:
9,370,796 bp from pter
Size:
1,197 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, Cloud-Clone Corp., and/or eBioscience,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., and/or eBioscience, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: U17L6_HUMAN, Q6QN14 (See protein sequence)
Recommended Name: Ubiquitin carboxyl-terminal hydrolase 17-like protein 6  
Size: 398 amino acids; 44690 Da
Caution: The RS447 megasatellite DNA is a highly polymorphic conserved tandem repetitive sequence which contains a
copy of the USP17 gene. It is present with an interindividual variation in copy number, ranging from 20 to 103,
and can be found in the genome both on chromosome 4 and chromosome 8. The high similarity between the UPS17-like
genes makes impossible to clearly assign data to one of the genes of the family. Oligonucleotides designed in
RNAi experiments are for instance not specific of a given UPS17-like gene

Explore the universe of human proteins at neXtProt for USP17L6P: NX_Q6QN14

Explore proteomics data for USP17L6P at MOPED

Selected DME Specific Peptides for USP17L6P (Q6QN14) (see all 11)
 CTMQAHIT  WRSQIKCL  GFHRGKQED  VYVLYAVLVH 


See USP17L6P Protein Expression from SPIRE MOPED, PaxDB, and MaxQB


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(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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3 InterPro protein domains:
 IPR001394 Peptidase_C19_UCH
 IPR018200 Pept_C19ubi-hydrolase_C_CS
 IPR028889 UCH/PAN2

Graphical View of Domain Structure for InterPro Entry Q6QN14

ProtoNet protein and cluster: Q6QN14

1 Blocks protein domain: IPB001394 Ubiquitin thiolesterase

UniProtKB/Swiss-Prot: U17L6_HUMAN, Q6QN14
Similarity: Belongs to the peptidase C19 family. USP17 subfamily
Similarity: Contains 1 USP domain


Find genes that share domains with USP17L6P           About GenesLikeMe


(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Molecular Function:

     UniProtKB/Swiss-Prot Summary: U17L6_HUMAN, Q6QN14
Function: Deubiquitinating enzyme that removes conjugated ubiquitin from specific proteins to regulate different
cellular processes that may include cell proliferation, progression through the cell cycle, cell migration, and
the cellular response to viral infection. Seems to be non-functional in the regulation of apoptosis
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)

     Enzyme Numbers (IUBMB): EC 3.1.2.152 EC 3.4.19.121

     Gene Ontology (GO): 1 molecular function term:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0008234cysteine-type peptidase activity IEA--
     
Find genes that share ontologies with USP17L6P           About GenesLikeMe


Animal Models:
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(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Subcellular locations from UniProtKB/Swiss-Prot
U17L6_HUMAN, Q6QN14: Nucleus. Cytoplasm
Subcellular locations from COMPARTMENTS: 

CompartmentConfidence
nucleus5
cytosol2
peroxisome1

Gene Ontology (GO): 2 cellular component terms:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0005634nucleus IEA--
GO:0005737cytoplasm IEA--

Find genes that share ontologies with USP17L6P           About GenesLikeMe


(SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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    Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for USP17L6P
Interactions:

    Search GeneGlobe Interaction Network for USP17L6P

Gene Ontology (GO): 1 biological process term:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0006511ubiquitin-dependent protein catabolic process IEA--

Find genes that share ontologies with USP17L6P           About GenesLikeMe



(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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Browse Small Molecules at EMD Millipore
   Browse drugs & compounds from Enzo Life Sciences
  Browse compounds at ApexBio 

Browse Tocris compounds for USP17L6P (U17L6)



(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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1 Ensembl transcript including schematic representation, and UCSC links where relevant:
ENST00000382470(uc011bws.2)
miRNA
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Primer
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2 AceView cDNA sequences:

AY533200 NM_212553 

GeneLoc Exon Structure


(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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USP17L6P expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: --
USP17L6P Expression
About this image

USP17L6P Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

USP17L6P Protein Expression
    Custom PCR Arrays for USP17L6P
Primer
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In Situ
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Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for USP17L6P

(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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ENSEMBL Gene Tree for USP17L6P (if available)
TreeFam Gene Tree for USP17L6P (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for USP17L6P gene
Selected SIMAP similar genes for USP17L6P using alignment to 1 protein entry:     U17L6_HUMAN(see all similar genes):
USP17L11    USP17L17    USP17L18    USP17L19    USP17L20    USP17L22
USP17L23    USP17L24    USP17L25    USP17L26    USP17L27    USP17L28
USP17L29    USP17L30    USP17L5    USP17L13    USP17L12    USP17L15

Find genes that share paralogs with USP17L6P           About GenesLikeMe



(SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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Selected SNPs for USP17L6P (see all 157)    About this table                                 

Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 4 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs1391830131,2
C--9369210(+) GTAAAA/GATTTC 1 -- us2k10--------
rs1476812191,2
C--9369321(+) TGATTC/GAGGTG 1 -- us2k10--------
rs2008160171,2
F--9370360(+) TCATTG/CTGGTG 1 -- nc-transcript-variant1Minor allele frequency- C:0.01EU 463
rs1476972381,2
C,F--9370412(+) CACACC/TTCTGC 1 -- nc-transcript-variant1Minor allele frequency- T:0.11EU 177
rs1424161661,2
C--9370544(+) CCTCTC/TGTCTA 1 -- nc-transcript-variant0--------
rs2009001741,2
C--9370646(+) AAAATG/TGATGA 1 -- nc-transcript-variant0--------
rs68574141,2
C--9370664(+) GTCACC/TGCCTC 1 -- nc-transcript-variant2Minor allele frequency- T:0.00NA 4
rs100322451,2
C,F,A,H--9370690(+) CCTGAG/CTCAAC 1 -- nc-transcript-variantese310Minor allele frequency- C:0.28NS EA NA CSA 1183
rs799341281,2
C--9370796(+) GACTAA/GTGAAT 1 -- nc-transcript-variant0--------
rs1143722181,2
C,F--9370803(+) GAATTG/TTGTGT 1 -- ds50011Minor allele frequency- T:0.03WA 118

HapMap Linkage Disequilibrium report for USP17L6P (9369600 - 9370796 bp)

Structural Variations
     Database of Genomic Variants (DGV) Selected variations for USP17L6P (see all 18):    About this table    
Variant IDTypeSubtypePubMed ID
esv2678198CNV Deletion23128226
dgv922e199CNV Deletion23128226
esv2727131CNV Deletion23290073
nsv469637CNV Loss16826518
nsv878640CNV Loss21882294
nsv4227CNV Loss18451855
dgv5467n71CNV Gain21882294
nsv428437CNV Gain18775914
esv1010945CNV Gain20482838
nsv878643CNV Gain+Loss21882294

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(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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(in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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PubMed articles for USP17L6P gene, integrated from 10 sources (see all 18):
(articles sorted by number of sources associating them with USP17L6P)
    Utopia: connect your pdf to the dynamic
world of online information

  1. Hyaluronan- and RNA-binding deubiquitinating enzymes of USP17 family members associated with cell viability. (PubMed id 17109758)1, 2, 3 Shin J.-M.... Baek K.-H. (BMC Genomics 2006)
  2. The DUB/USP17 deubiquitinating enzymes, a multigene family within a tandemly repeated sequence. (PubMed id 15780755)1, 2, 3 Burrows J.F.... Johnston J.A. (Genomics 2005)
  3. The deubiquitinating enzyme USP17 is essential for GTPase subcellular localization and cell motility. (PubMed id 21448158)1 de la Vega M.... Johnston J.A. (Nat. Commun. 2011)
  4. Lys-63-specific deubiquitination of SDS3 by USP17 regulates HDAC activity. (PubMed id 21239494)1 Ramakrishna S.... Baek K.H. (J. Biol. Chem. 2011)
  5. The deubiquitinating enzyme USP17 is highly expressed in tumor biopsies, is cell cycle regulated, and is required for G1-S progression. (PubMed id 20388806)1 McFarlane C.... Johnston J.A. (Cancer Res. 2010)
  6. The DUB/USP17 deubiquitinating enzymes: a gene family within a tandemly repeated sequence, is also embedded within the copy number variable beta-defensin cluster. (PubMed id 20403174)1 Burrows J.F.... Johnston J.A. (BMC Genomics 2010)
  7. Polyclonal and monoclonal antibodies specific for USP17, a proapoptotic deubiquitinating enzyme. (PubMed id 20715989)1 Ramakrishna S....Baek K.H. (Hybridoma (Larchmt) 2010)
  8. Cdc25A and Dub3 in a high-stakes balancing act. (PubMed id 20228807)1 Hayes S.D. and Harper J.W. (Nat. Cell Biol. 2010)
  9. The ubiquitin-specific protease 17 is involved in virus-triggered type I IFN signaling. (PubMed id 20368735)1 Chen R.... Shu H.B. (Cell Res. 2010)
  10. The deubiquitinating enzyme USP17 blocks N-Ras membrane trafficking and activation but leaves K-Ras unaffected. (PubMed id 20147298)1 de la Vega M....Johnston J.A. (J. Biol. Chem. 2010)

(in PubMed, OMIM, and NCBI Bookshelf)
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 ANDOR
Aliases
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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Entrez Gene: 391622 HGNC: 37179 AceView: LOC402165 Ensembl:ENSG00000205946 euGenes: HUgn391622
ECgene: USP17L6P H-InvDB: USP17L6P

(According to HUGE)
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(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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  --

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
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Patent Information for USP17L6P gene:
Search GeneIP for patents involving USP17L6P

GeneCards and IP:
Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, eBioscience, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014 , 21 Aug 2014 , 8 Sep 2014

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