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TRIM16L Gene

protein-coding   GIFtS: 41
GCID: GC17P018602

Tripartite Motif Containing 16-Like

(Previous name: tripartite motif-containing 16-like)
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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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This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

Aliases
Tripartite Motif Containing 16-Like1 2
Tripartite Motif-Containing 16-Like1 2
Tripartite Motif-Containing Protein 702 3
TRIM702 3
Tripartite Motif Protein 702
Tripartite Motif-Containing Protein 16-Like Protein2

External Ids:    HGNC: 326701   Entrez Gene: 1471662   Ensembl: ENSG000001084487   UniProtKB: Q309B13   
ORGUL members:         

Export aliases for TRIM16L gene to outside databases

Previous GC identifer: GC17P018547


(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 TRIM16L Gene:
TRIM16L (tripartite motif containing 16-like) is a protein-coding gene. An important paralog of this gene is ENSG00000251537.


(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:
   Regulatory transcription factor binding sites in the TRIM16L gene promoter:
         Max1   Tal-1beta   HNF-1A   E47   c-Rel   HNF-1   Hand1   Hlf   c-Myc   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidTRIM16L promoter sequence
   Search Chromatin IP Primers for TRIM16L

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat TRIM16L


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

Entrez Gene cytogenetic band: 17p11.2   Ensembl cytogenetic band:  17p11.2   HGNC cytogenetic band: 17p11.2

TRIM16L Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TRIM16L gene location

GeneLoc information about chromosome 17         GeneLoc Exon Structure

GeneLoc location for GC17P018602:  view genomic region     (about GC identifiers)

Start:
18,601,311 bp from pter      End:
18,639,431 bp from pter
Size:
38,121 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., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/Swiss-Prot: TR16L_HUMAN, Q309B1 (See protein sequence)
Recommended Name: Tripartite motif-containing protein 16-like protein  
Size: 348 amino acids; 40306 Da
Secondary accessions: A0PK10 B2RUW6 B4DQK2 B4DWQ8
Alternative splicing: 2 isoforms:  Q309B1-1   Q309B1-2   

Explore the universe of human proteins at neXtProt for TRIM16L: NX_Q309B1

Explore proteomics data for TRIM16L at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See TRIM16L Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_001032407.1  
    ENSEMBL proteins: 
     ENSP00000460272   ENSP00000461386   ENSP00000463750   ENSP00000459199   ENSP00000379030  
     ENSP00000460537   ENSP00000403648   ENSP00000399959   ENSP00000462695   ENSP00000459623  
     ENSP00000379239   ENSP00000379031  

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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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    Selected InterPro protein domains (see all 6):
     IPR006574 PRY
     IPR001870 B30.2/SPRY
     IPR003877 SPRY_rcpt
     IPR018355 SPla/RYanodine_receptor_subgr
     IPR003879 Butyrophylin

    Graphical View of Domain Structure for InterPro Entry Q309B1

    ProtoNet protein and cluster: Q309B1

    1 Blocks protein domain: IPB003879 Butyrophylin C-terminal DUF signature

    UniProtKB/Swiss-Prot: TR16L_HUMAN, Q309B1
    Similarity: Belongs to the TRIM/RBCC family
    Similarity: Contains 1 B30.2/SPRY domain


    Find genes that share domains with TRIM16L           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, 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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         Gene Ontology (GO): 1 molecular function term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005515protein binding ----
         
    Find genes that share ontologies with TRIM16L           About GenesLikeMe


    Animal Models:
       genOway: Develop your customized and physiologically relevant rodent model for TRIM16L

    miRNA
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    miRTarBase miRNAs that target TRIM16L:
    hsa-mir-193b-3p (MIRT041510), hsa-mir-365a-3p (MIRT044031)

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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
    TR16L_HUMAN, Q309B1: Cytoplasm (By similarity)
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    cytosol3
    nucleus2
    peroxisome1

    Gene Ontology (GO): 1 cellular component term:    About this table

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

    Find genes that share ontologies with TRIM16L           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 TRIM16L
    Interactions:

        Search GeneGlobe Interaction Network for TRIM16L

    3 Interacting proteins for TRIM16L (Q309B13) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    CASP1P294663I2D: score=1 
    IL1BP015843I2D: score=1 
    NLRP1Q9C0003I2D: score=1 
    About this table

    (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 TRIM16L (TR16L)



    (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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    REFSEQ mRNAs for TRIM16L gene: 
    NM_001037330.1  

    16 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000572555 ENST00000581904(uc002guf.2) ENST00000449552(uc010vyf.1 uc002gug.1 uc002guh.1 uc010cqg.1)
    ENST00000449697 ENST00000571708 ENST00000578086 ENST00000573443 ENST00000395671(uc002gui.1 uc010vyg.1 uc010vyh.1)
    ENST00000571542 ENST00000414850 ENST00000424146 ENST00000571733 ENST00000577969
    ENST00000574042 ENST00000395902 ENST00000395672
    miRNA
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    Inhib. RNA
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      QuantiFast Probe-based Assays in human, mouse, rat TRIM16L

    Selected AceView cDNA sequences (see all 92):

    BQ944151 BQ431174 BQ952988 AI745144 BQ217372 CB115986 AI476375 BM807219 
    AI745151 BG420440 BG490267 BE272706 BM981643 BQ954488 BQ430050 BP374882 
    BF182998 BQ943994 CR594025 BM790321 BV184479 BG778568 BM013394 BG424431 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for TRIM16L (see all 9)    About this scheme

    ExUns: 1 ^ 2 ^ 3a · 3b ^ 4 ^ 5 ^ 6 ^ 7 ^ 8a · 8b · 8c ^ 9 ^ 10 ^ 11a · 11b · 11c ^ 12a · 12b · 12c ^ 13a · 13b · 13c
    SP1:                          -     -     -     -     -     -           -                                                               
    SP2:                                                  -     -           -           -                 -                                 
    SP3:                                                                    -           -                 -                                 
    SP4:                          -           -     -     -     -           -           -                                                   
    SP5:                                                                    -           -     -     -     -                                 


    ECgene alternative splicing isoforms for TRIM16L

    (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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    TRIM16L expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: ACTCTGGTTC
    TRIM16L Expression
    About this image

    TRIM16L Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    TRIM16L Protein Expression
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    (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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    This gene was present in the common ancestor of chordates.

    Orthologs for TRIM16L gene from Selected species (see all 6)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    lizard
    (Anolis carolinensis)
    Reptilia --
    Uncharacterized protein
    35(a)
    1 → many
    2(107734930-107753455)
    zebrafish
    (Danio rerio)
    Actinopterygii trim166
    tripartite motif-containing 16
    27(a)
    1 → many
    12(47709703-47754444) ENSDARG00000010673
            Species with no ortholog for TRIM16L

    ENSEMBL Gene Tree for TRIM16L (if available)
    TreeFam Gene Tree for TRIM16L (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for TRIM16L gene
    ENSG000002515372  TRIM252  TRIM292  TRIM472  TRIM162  TRIM652  
    2 SIMAP similar genes for TRIM16L using alignment to 7 protein entries:     TR16L_HUMAN (see all proteins):
    TRIM16    ERMAP

    Find genes that share paralogs with TRIM16L           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 TRIM16L (see all 252)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 17 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1435018331,2
    --18623548(+) AAGAAC/GAACAA 1 -- us2k10--------
    rs1510868031,2
    --18623551(+) AAGAAC/GAACAA 1 -- us2k10--------
    rs1869026971,2
    --18623562(+) CAACAA/TCAAAA 1 -- us2k10--------
    rs1913148091,2
    --18623566(+) AACAAA/CAACTT 1 -- us2k10--------
    rs1856065371,2
    --18623622(+) AACCCC/TCAGAC 1 -- us2k10--------
    rs129459841,2
    --18623683(+) gggggC/Gtcccg 1 -- us2k10--------
    rs1390359801,2
    --18623855(+) GAAGCC/GTCCAC 1 -- us2k10--------
    rs1456245251,2
    C--18623980(+) ATGGTA/GAAACC 1 -- us2k10--------
    rs1382186271,2
    --18624187(+) CCAAAA/GGGCTG 1 -- us2k10--------
    rs1495782321,2
    --18624234(+) AGTCCA/GTGGAG 1 -- us2k10--------

    HapMap Linkage Disequilibrium report for TRIM16L (18601311 - 18639431 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 8 variations for TRIM16L:    About this table    
    Variant IDTypeSubtypePubMed ID
    esv1199476CNV Deletion17803354
    esv2715724CNV Deletion23290073
    nsv112212CNV Loss16902084
    nsv833389CNV Gain17160897
    nsv523721CNV Gain19592680
    nsv907782CNV Gain21882294
    nsv9504CNV Gain+Loss18304495
    nsv499818OTHER Inversion21111241

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing TRIM16L
    DNA2.0 Custom Variant and Variant Library Synthesis for TRIM16L

    (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 TRIM16L gene integrated from 10 sources:
    (articles sorted by number of sources associating them with TRIM16L)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S.... Malek J. (Genome Res. 2004)
    2. Global identification of modular cullin-RING ligase substrates. (PubMed id 21963094)1 Emanuele M.J....Elledge S.J. (Cell 2011)
    3. DNA sequence of human chromosome 17 and analysis of rearrangement in the human lineage. (PubMed id 16625196)2 Zody M.C.... Nusbaum C. (Nature 2006)
    4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)2 Ota T.... Sugano S. (Nat. Genet. 2004)
    5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)
    6. (PubMed id )2 

    (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: 147166 HGNC: 32670 AceView: LOC147166 Ensembl:ENSG00000108448 euGenes: HUgn147166
    ECgene: TRIM16L H-InvDB: TRIM16L

    (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)
    About This Section

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    NameDescription
    PharmGKB entry for TRIM16L Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for TRIM16L gene:
    Search GeneIP for patents involving TRIM16L

    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, eBioscience, antibodies-online, 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 genOway)
    About This Section

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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 , 7 Oct 2014

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