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    trip12 thyroid hormone receptor interactor 12 [ Danio rerio (zebrafish) ]

    Gene ID: 564866, updated on 14-Nov-2024

    Summary

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    Official Symbol
    trip12provided by ZNC
    Official Full Name
    thyroid hormone receptor interactor 12provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-041111-262
    See related
    Ensembl:ENSDARG00000061397 AllianceGenome:ZFIN:ZDB-GENE-041111-262
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    im:7149446; si:ch211-272f3.4
    Summary
    Predicted to enable ubiquitin protein ligase activity. Predicted to be involved in several processes, including chromatin remodeling; protein polyubiquitination; and ubiquitin-dependent protein catabolic process. Predicted to act upstream of or within DNA repair. Predicted to be located in nucleoplasm. Is expressed in myotome. Human ortholog(s) of this gene implicated in Clark-Baraitser syndrome. Orthologous to human TRIP12 (thyroid hormone receptor interactor 12). [provided by Alliance of Genome Resources, Nov 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See trip12 in Genome Data Viewer
    Location:
    chromosome: 18
    Exon count:
    44
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 18 NC_007129.7 (41232713..41310976)
    105 previous assembly GRCz10 (GCF_000002035.5) 18 NC_007129.6 (41242518..41320784)

    Chromosome 18 - NC_007129.7Genomic Context describing neighboring genes Neighboring gene zinc finger and BTB domain containing 38 Neighboring gene F-box protein 36a Neighboring gene ventricular zone expressed PH domain-containing 1 Neighboring gene wu:fb55f04 Neighboring gene pentraxin 3, long a

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. Dhx38 is required for the maintenance and differentiation of erythro-myeloid progenitors and hematopoietic stem cells by alternative splicing. Tu J, et al. Development, 2022 Sep 1. PMID 35929537
    2. A Toolbox for Efficient Proximity-Dependent Biotinylation in Zebrafish Embryos. Rosenthal SM, et al. Mol Cell Proteomics, 2021. PMID 34332124, Free PMC Article
    3. 15000 unique zebrafish EST clusters and their future use in microarray for profiling gene expression patterns during embryogenesis. Lo J, et al. Genome Res, 2003 Mar. PMID 12618376, Free PMC Article
    4. Evolution of complexity in the zebrafish synapse proteome. Bayés À, et al. Nat Commun, 2017 Mar 2. PMID 28252024, Free PMC Article
    5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables transferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ubiquitin protein ligase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables ubiquitin protein ligase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ubiquitin protein ligase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables ubiquitin-protein 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 DNA damage response IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within DNA damage response IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within DNA repair IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in DNA repair-dependent chromatin remodeling ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in heterochromatin boundary formation ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in proteasome-mediated ubiquitin-dependent protein catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in protein polyubiquitination IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in protein polyubiquitination ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in protein ubiquitination IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of embryonic development ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    acts_upstream_of_or_within ubiquitin-dependent protein catabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in ubiquitin-dependent protein catabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in ubiquitin-dependent protein catabolic process ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    is_active_in nuclear speck IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    E3 ubiquitin-protein ligase TRIP12
    Names
    HECT-type E3 ubiquitin transferase TRIP12
    TR-interacting protein 12
    thyroid receptor-interacting protein 12
    NP_001334597.1
    XP_001919036.4
    XP_005159283.1
    XP_005159284.1
    XP_005159285.1
    XP_005159286.1
    XP_005159287.1
    XP_021323347.1
    XP_068070901.1

    NCBI Reference Sequences (RefSeq)

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    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_001347668.1 → NP_001334597.1  E3 ubiquitin-protein ligase TRIP12

      Status: VALIDATED

      Source sequence(s)
      BX255887, CU928079
      UniProtKB/Swiss-Prot
      A3KPN5, F1RCR6
      UniProtKB/TrEMBL
      A0A8M1P4D4, F1Q529
      Related
      ENSDARP00000082000.6, ENSDART00000087566.6
      Conserved Domains (4) summary
      cd00078
      Location:1651 → 2051
      HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...
      pfam02825
      Location:800 → 865
      WWE; WWE domain
      cl25709
      Location:480 → 671
      Arm_3; Atypical Arm repeat
      cl28033
      Location:59 → 440
      Herpes_ICP4_C; Herpesvirus ICP4-like protein C-terminal region

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007129.7 Reference GRCz11 Primary Assembly

      Range
      41232713..41310976
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005159226.5 → XP_005159283.1  E3 ubiquitin-protein ligase TRIP12 isoform X1

      See identical proteins and their annotated locations for XP_005159283.1

      UniProtKB/Swiss-Prot
      A3KPN5, F1RCR6
      UniProtKB/TrEMBL
      A0A8M2B655
      Conserved Domains (3) summary
      smart00119
      Location:1711 → 2090
      HECTc; Domain Homologous to E6-AP Carboxyl Terminus with
      cd00078
      Location:1693 → 2094
      HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...
      pfam02825
      Location:842 → 907
      WWE; WWE domain

    2. XM_005159229.5 → XP_005159286.1  E3 ubiquitin-protein ligase TRIP12 isoform X2

      UniProtKB/Swiss-Prot
      A3KPN5, F1RCR6
      UniProtKB/TrEMBL
      A0A8M2B5U3
      Conserved Domains (3) summary
      smart00119
      Location:1711 → 2089
      HECTc; Domain Homologous to E6-AP Carboxyl Terminus with
      cd00078
      Location:1693 → 2093
      HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...
      pfam02825
      Location:842 → 907
      WWE; WWE domain

    3. XM_005159230.5 → XP_005159287.1  E3 ubiquitin-protein ligase TRIP12 isoform X3

      See identical proteins and their annotated locations for XP_005159287.1

      UniProtKB/Swiss-Prot
      A3KPN5, F1RCR6
      UniProtKB/TrEMBL
      A0A8M2B5R0
      Conserved Domains (3) summary
      smart00119
      Location:1669 → 2048
      HECTc; Domain Homologous to E6-AP Carboxyl Terminus with
      cd00078
      Location:1651 → 2052
      HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...
      pfam02825
      Location:800 → 865
      WWE; WWE domain

    4. XM_021467672.2 → XP_021323347.1  E3 ubiquitin-protein ligase TRIP12 isoform X4

      UniProtKB/Swiss-Prot
      A3KPN5, F1RCR6
      UniProtKB/TrEMBL
      A0A8M1P4D4, F1Q529
      Conserved Domains (4) summary
      cd00078
      Location:1651 → 2051
      HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...
      pfam02825
      Location:800 → 865
      WWE; WWE domain
      cl25709
      Location:480 → 671
      Arm_3; Atypical Arm repeat
      cl28033
      Location:59 → 440
      Herpes_ICP4_C; Herpesvirus ICP4-like protein C-terminal region

    5. XM_005159228.4 → XP_005159285.1  E3 ubiquitin-protein ligase TRIP12 isoform X1

      See identical proteins and their annotated locations for XP_005159285.1

      UniProtKB/Swiss-Prot
      A3KPN5, F1RCR6
      UniProtKB/TrEMBL
      A0A8M2B655
      Conserved Domains (3) summary
      smart00119
      Location:1711 → 2090
      HECTc; Domain Homologous to E6-AP Carboxyl Terminus with
      cd00078
      Location:1693 → 2094
      HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...
      pfam02825
      Location:842 → 907
      WWE; WWE domain

    6. XM_068214800.1 → XP_068070901.1  E3 ubiquitin-protein ligase TRIP12 isoform X2

    7. XM_001919001.7 → XP_001919036.4  E3 ubiquitin-protein ligase TRIP12 isoform X3

      See identical proteins and their annotated locations for XP_001919036.4

      UniProtKB/Swiss-Prot
      A3KPN5, F1RCR6
      UniProtKB/TrEMBL
      A0A8M2B5R0
      Conserved Domains (3) summary
      smart00119
      Location:1669 → 2048
      HECTc; Domain Homologous to E6-AP Carboxyl Terminus with
      cd00078
      Location:1651 → 2052
      HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...
      pfam02825
      Location:800 → 865
      WWE; WWE domain

    8. XM_005159227.5 → XP_005159284.1  E3 ubiquitin-protein ligase TRIP12 isoform X1

      See identical proteins and their annotated locations for XP_005159284.1

      UniProtKB/Swiss-Prot
      A3KPN5, F1RCR6
      UniProtKB/TrEMBL
      A0A8M2B655
      Conserved Domains (3) summary
      smart00119
      Location:1711 → 2090
      HECTc; Domain Homologous to E6-AP Carboxyl Terminus with
      cd00078
      Location:1693 → 2094
      HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...
      pfam02825
      Location:842 → 907
      WWE; WWE domain

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018395046.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      51534..112954
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    F1RCR6.1 GenPept UniProtKB/Swiss-Prot:F1RCR6

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.