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    TRIM16 tripartite motif containing 16 [ Homo sapiens (human) ]

    Gene ID: 10626, updated on 2-Nov-2024

    Summary

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    Official Symbol
    TRIM16provided by HGNC
    Official Full Name
    tripartite motif containing 16provided by HGNC
    Primary source
    HGNC:HGNC:17241
    See related
    Ensembl:ENSG00000221926 MIM:609505; AllianceGenome:HGNC:17241
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    EBBP
    Summary
    The protein encoded by this gene is a tripartite motif (TRIM) family member that contains two B box domains and a coiled-coiled region that are characteristic of the B box zinc finger protein family. While it lacks a RING domain found in other TRIM proteins, the encoded protein can homodimerize or heterodimerize with other TRIM proteins and has E3 ubiquitin ligase activity. This gene is also a tumor suppressor and is involved in secretory autophagy. [provided by RefSeq, Jan 2017]
    Expression
    Broad expression in esophagus (RPKM 47.9), placenta (RPKM 17.3) and 19 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See TRIM16 in Genome Data Viewer
    Location:
    17p12
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (15627966..15684311, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (15534188..15590551, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (15531280..15587625, complement)

    Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene TVP23C-CDRT4 readthrough Neighboring gene Sharpr-MPRA regulatory region 6604 Neighboring gene trans-golgi network vesicle protein 23 homolog C Neighboring gene peptidylprolyl isomerase A pseudogene 53 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:15439327-15439826 Neighboring gene NANOG hESC enhancer GRCh37_chr17:15443919-15444544 Neighboring gene proximal CMT1A-REP Neighboring gene F-box and WD repeat domain containing 10B Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr17:15495673-15496196 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:15546231-15546817 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:15545644-15546230 Neighboring gene H3K27ac hESC enhancer GRCh37_chr17:15547662-15548477 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11743 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:15554223-15555172 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:15562775-15563277 Neighboring gene ZNF286A-TBC1D26 readthrough (NMD candidate) Neighboring gene H3K27ac hESC enhancer GRCh37_chr17:15602763-15603374 Neighboring gene zinc finger protein 29, pseudogene Neighboring gene zinc finger protein 286A Neighboring gene ubiquitin conjugating enzyme E2 S pseudogene 1 Neighboring gene TBC1D26 antisense RNA 1 Neighboring gene TBC1 domain family member 26

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    Related articles in PubMed

    1. TRIM16 E121D variant affects the risk and prognosis of hepatocellular carcinoma by modulating the Wnt/β-catenin pathway. Li S, et al. Mol Carcinog, 2023 Nov. PMID 37477507
    2. Tripartite Motif 16 Inhibits the Migration and Invasion in Ovarian Cancer Cells. Tan H, et al. Oncol Res, 2017 Apr 14. PMID 27737724, Free PMC Article
    3. TRIM16 acts as an E3 ubiquitin ligase and can heterodimerize with other TRIM family members. Bell JL, et al. PLoS One, 2012. PMID 22629402, Free PMC Article
    4. Impaired TRIM16-Mediated Lysophagy in Chronic Obstructive Pulmonary Disease Pathogenesis. Araya J, et al. J Immunol, 2021 Jul 1. PMID 34135057
    5. TRIM16 inhibits neuroblastoma cell proliferation through cell cycle regulation and dynamic nuclear localization. Bell JL, et al. Cell Cycle, 2013 Mar 15. PMID 23422002, Free PMC Article

    See all (59) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. NFKBIZ regulates NFkappaB signaling pathway to mediate tumorigenesis and metastasis of hepatocellular carcinoma by direct interaction with TRIM16.
      Title: NFKBIZ regulates NFκB signaling pathway to mediate tumorigenesis and metastasis of hepatocellular carcinoma by direct interaction with TRIM16.
    2. TRIM16 E121D variant affects the risk and prognosis of hepatocellular carcinoma by modulating the Wnt/beta-catenin pathway.
      Title: TRIM16 E121D variant affects the risk and prognosis of hepatocellular carcinoma by modulating the Wnt/β-catenin pathway.
    3. Changes in the Expression of Long Non-Coding RNA SDMGC and Its Target Gene, TRIM16, in Patients with Gastric Cancer.
      Title: Changes in the Expression of Long Non-Coding RNA SDMGC and Its Target Gene, TRIM16, in Patients with Gastric Cancer.
    4. TRIM3 and TRIM16 as potential tumor suppressors in breast cancer patients.
      Title: TRIM3 and TRIM16 as potential tumor suppressors in breast cancer patients.
    5. CircPTK2 inhibits cell cisplatin (CDDP) resistance by targeting miR-942/TRIM16 axis in non-small cell lung cancer (NSCLC).
      Title: CircPTK2 inhibits cell cisplatin (CDDP) resistance by targeting miR-942/TRIM16 axis in non-small cell lung cancer (NSCLC).
    6. Prognostic Significance of Tripartite Motif Containing 16 Expression in Patients with Gastric Cancer.
      Title: Prognostic Significance of Tripartite Motif Containing 16 Expression in Patients with Gastric Cancer.
    7. Impaired TRIM16-Mediated Lysophagy in Chronic Obstructive Pulmonary Disease Pathogenesis.
      Title: Impaired TRIM16-Mediated Lysophagy in Chronic Obstructive Pulmonary Disease Pathogenesis.
    8. TRIM16 overexpression inhibits the metastasis of colorectal cancer through mediating Snail degradation.
      Title: TRIM16 overexpression inhibits the metastasis of colorectal cancer through mediating Snail degradation.
    9. Galectin-3 and TRIM16 coregulate osteogenic differentiation of human bone marrow-derived mesenchymal stem cells at least partly via enhancing autophagy.
      Title: Galectin-3 and TRIM16 coregulate osteogenic differentiation of human bone marrow-derived mesenchymal stem cells at least partly via enhancing autophagy.
    10. A thermosensitive, reactive oxygen species-responsive, MR409-encapsulated hydrogel ameliorates disc degeneration in rats by inhibiting the secretory autophagy pathway.
      Title: A thermosensitive, reactive oxygen species-responsive, MR409-encapsulated hydrogel ameliorates disc degeneration in rats by inhibiting the secretory autophagy pathway.
    Submit: New GeneRIF Correction See all GeneRIFs (28)

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • DKFZp434O1826

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables NACHT domain binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables interleukin-1 binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables transferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in positive regulation of DNA-templated transcription IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in positive regulation of interleukin-1 beta production IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of keratinocyte differentiation IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in positive regulation of retinoic acid receptor signaling pathway IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in response to growth hormone IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in response to organophosphorus IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in response to retinoic acid IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in PML body IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    		  
    located_in plasma membrane IDA
    Inferred from Direct Assay
    more info
    		  

    General protein information

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    Preferred Names
    tripartite motif-containing protein 16
    Names
    E3 ubiquitin-protein ligase TRIM16
    estrogen-responsive B box protein
    NP_001335048.1
    NP_001335049.1
    NP_001335050.1
    NP_001335051.1
    NP_001335053.1
    NP_001335054.1
    NP_001335055.1
    NP_006461.3

    NCBI Reference Sequences (RefSeq)

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    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001348119.1 → NP_001335048.1  tripartite motif-containing protein 16 isoform a

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (a). Variants 1, 2, and 3 all encode the same isoform (a).
      Source sequence(s)
      AC005324
      Consensus CDS
      CCDS11171.1
      UniProtKB/Swiss-Prot
      O95361, Q6IAL8, Q7Z6I2, Q96BE8, Q96J43
      UniProtKB/TrEMBL
      B2RB95, B3KMJ2
      Related
      ENSP00000497185.2, ENST00000649191.2
      Conserved Domains (3) summary
      cd12890
      Location:365 → 546
      SPRY_PRY_TRIM16; PRY/SPRY domain in tripartite motif-containing protein 16 (TRIM16)
      cd19839
      Location:75 → 122
      Bbox1_TRIM16; B-box-type 1 zinc finger found in tripartite motif-containing protein 16 (TRIM16) and similar proteins
      cl00034
      Location:129 → 173
      Bbox_SF; B-box-type zinc finger superfamily

    2. NM_001348120.1 → NP_001335049.1  tripartite motif-containing protein 16 isoform a

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2), as well as variants 1 and 3, encodes isoform a.
      Source sequence(s)
      AC005324
      Consensus CDS
      CCDS11171.1
      UniProtKB/Swiss-Prot
      O95361, Q6IAL8, Q7Z6I2, Q96BE8, Q96J43
      UniProtKB/TrEMBL
      B2RB95, B3KMJ2
      Conserved Domains (3) summary
      cd12890
      Location:365 → 546
      SPRY_PRY_TRIM16; PRY/SPRY domain in tripartite motif-containing protein 16 (TRIM16)
      cd19839
      Location:75 → 122
      Bbox1_TRIM16; B-box-type 1 zinc finger found in tripartite motif-containing protein 16 (TRIM16) and similar proteins
      cl00034
      Location:129 → 173
      Bbox_SF; B-box-type zinc finger superfamily

    3. NM_001348121.1 → NP_001335050.1  tripartite motif-containing protein 16 isoform b

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4), as well as variant 5, encodes isoform b.
      Source sequence(s)
      AC005324
      Consensus CDS
      CCDS86579.1
      UniProtKB/TrEMBL
      B3KP96, B4DE22
      Conserved Domains (1) summary
      cd12890
      Location:235 → 416
      SPRY_PRY_TRIM16; PRY/SPRY domain in tripartite motif-containing protein 16 (TRIM16)

    4. NM_001348122.1 → NP_001335051.1  tripartite motif-containing protein 16 isoform b

      Status: REVIEWED

      Description
      Transcript Variant: This variant (5), as well as variant 4, encodes isoform b.
      Source sequence(s)
      AC005324
      Consensus CDS
      CCDS86579.1
      UniProtKB/TrEMBL
      B3KP96, B4DE22
      Related
      ENSP00000399918.2, ENST00000416464.6
      Conserved Domains (1) summary
      cd12890
      Location:235 → 416
      SPRY_PRY_TRIM16; PRY/SPRY domain in tripartite motif-containing protein 16 (TRIM16)

    5. NM_001348124.1 → NP_001335053.1  tripartite motif-containing protein 16 isoform c

      Status: REVIEWED

      Description
      Transcript Variant: This variant (6), as well as variant 7, encodes isoform c.
      Source sequence(s)
      AC005324
      Consensus CDS
      CCDS86578.1
      UniProtKB/Swiss-Prot
      A0PK10, B2RUW6, B4DQK2, B4DWQ8, Q309B1
      Related
      ENSP00000462903.1, ENST00000577886.5
      Conserved Domains (1) summary
      cd12890
      Location:149 → 330
      SPRY_PRY_TRIM16; PRY/SPRY domain in tripartite motif-containing protein 16 (TRIM16)

    6. NM_001348125.1 → NP_001335054.1  tripartite motif-containing protein 16 isoform c

      Status: REVIEWED

      Description
      Transcript Variant: This variant (7), as well as variant 6, encodes isoform c.
      Source sequence(s)
      AC005324
      Consensus CDS
      CCDS86578.1
      UniProtKB/Swiss-Prot
      A0PK10, B2RUW6, B4DQK2, B4DWQ8, Q309B1
      Conserved Domains (1) summary
      cd12890
      Location:149 → 330
      SPRY_PRY_TRIM16; PRY/SPRY domain in tripartite motif-containing protein 16 (TRIM16)

    7. NM_001348126.1 → NP_001335055.1  tripartite motif-containing protein 16 isoform d

      Status: REVIEWED

      Source sequence(s)
      AC005324
      UniProtKB/TrEMBL
      B4DE22
      Conserved Domains (1) summary
      cd12890
      Location:203 → 384
      SPRY_PRY_TRIM16; PRY/SPRY domain in tripartite motif-containing protein 16 (TRIM16)

    8. NM_006470.4 → NP_006461.3  tripartite motif-containing protein 16 isoform a

      See identical proteins and their annotated locations for NP_006461.3

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3), as well as variants 1 and 2, encodes isoform a.
      Source sequence(s)
      AC005324, BC053514, DA709639
      Consensus CDS
      CCDS11171.1
      UniProtKB/Swiss-Prot
      O95361, Q6IAL8, Q7Z6I2, Q96BE8, Q96J43
      UniProtKB/TrEMBL
      B2RB95, B3KMJ2
      Related
      ENSP00000338989.7, ENST00000336708.11
      Conserved Domains (3) summary
      cd12890
      Location:365 → 546
      SPRY_PRY_TRIM16; PRY/SPRY domain in tripartite motif-containing protein 16 (TRIM16)
      cd19839
      Location:75 → 122
      Bbox1_TRIM16; B-box-type 1 zinc finger found in tripartite motif-containing protein 16 (TRIM16) and similar proteins
      cl00034
      Location:129 → 173
      Bbox_SF; B-box-type zinc finger superfamily

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000017.11 Reference GRCh38.p14 Primary Assembly

      Range
      15627966..15684311 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060941.1 Alternate T2T-CHM13v2.0

      Range
      15534188..15590551 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    O95361.3 GenPept UniProtKB/Swiss-Prot:O95361

    Gene LinkOut

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