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    TRIM49C tripartite motif containing 49C [ Homo sapiens (human) ]

    Gene ID: 642612, updated on 27-Dec-2024

    Summary

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    Official Symbol
    TRIM49Cprovided by HGNC
    Official Full Name
    tripartite motif containing 49Cprovided by HGNC
    Primary source
    HGNC:HGNC:38877
    See related
    Ensembl:ENSG00000204449 AllianceGenome:HGNC:38877
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    TRIM49L2
    Summary
    Predicted to enable ubiquitin protein ligase activity. Predicted to be involved in innate immune response and regulation of gene expression. Predicted to be active in cytoplasm. [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Low expression observed in reference dataset See more
    Orthologs
    all
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    Genomic context

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    See TRIM49C in Genome Data Viewer
    Location:
    11q14.3
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (90031106..90073531)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (89951193..89993609)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (89764274..89775193)

    Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene tripartite motif containing 53A, pseudogene Neighboring gene tripartite motif containing 64B pseudogene Neighboring gene ANKRD33B pseudogene 10 Neighboring gene tripartite motif containing 64E, pseudogene Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:89828635-89829290 Neighboring gene upstream binding transcription factor like 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:89837329-89837830 Neighboring gene small nucleolar RNA SNORD56

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 2018

    Bibliography

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    Related articles in PubMed

    1. Identification of a genomic reservoir for new TRIM genes in primate genomes. Han K, et al. PLoS Genet, 2011 Dec. PMID 22144910, Free PMC Article
    2. Human chromosome 11 DNA sequence and analysis including novel gene identification. Taylor TD, et al. Nature, 2006 Mar 23. PMID 16554811
    3. Generation and annotation of the DNA sequences of human chromosomes 2 and 4. Hillier LW, et al. Nature, 2005 Apr 7. PMID 15815621
    4. Integrative oncogene-dependency mapping identifies RIT1 vulnerabilities and synergies in lung cancer. Vichas A, et al. Nat Commun, 2021 Aug 9. PMID 34373451, Free PMC Article
    5. A reference map of the human binary protein interactome. Luck K, et al. Nature, 2020 Apr. PMID 32296183, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Phenotypes

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    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)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC161748

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables ubiquitin protein ligase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in innate immune response IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of gene expression IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    tripartite motif-containing protein 49C
    Names
    Tripartite motif-containing protein LOC642612
    tripartite motif containing 49-like 2
    tripartite motif-containing protein 43B
    tripartite motif-containing protein 49-like protein 2

    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_001195234.1 → NP_001182163.1  tripartite motif-containing protein 49C

      See identical proteins and their annotated locations for NP_001182163.1

      Status: VALIDATED

      Source sequence(s)
      AP004607
      Consensus CDS
      CCDS53694.1
      UniProtKB/Swiss-Prot
      A0AVR7, A0AVR9, P0CI26, Q6DJV1, Q9NS80
      Related
      ENSP00000388299.1, ENST00000448984.1
      Conserved Domains (2) summary
      cl02614
      Location:285 → 448
      SPRY; SPRY domain
      cl17238
      Location:15 → 45
      RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...

    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_000011.10 Reference GRCh38.p14 Primary Assembly

      Range
      90031106..90073531
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017018126.2 → XP_016873615.1  tripartite motif-containing protein 49C isoform X1

    2. XM_024448656.2 → XP_024304424.1  tripartite motif-containing protein 49C isoform X2

      Conserved Domains (2) summary
      cd16603
      Location:12 → 57
      RING-HC_TRIM43_like_C-IV; RING finger, HC subclass, found in tripartite motif-containing proteins TRIM43, TRIM48, TRIM49, TRIM51, TRIM64, TRIM77 and similar proteins
      cl02614
      Location:285 → 441
      SPRY; SPRY domain

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060935.1 Alternate T2T-CHM13v2.0

      Range
      89951193..89993609
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054369639.1 → XP_054225614.1  tripartite motif-containing protein 49C isoform X1

    2. XM_054369640.1 → XP_054225615.1  tripartite motif-containing protein 49C isoform X2

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P0CI26.1 GenPept UniProtKB/Swiss-Prot:P0CI26

    Gene LinkOut

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

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