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

Gene ID: 642612, updated on 5-Mar-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; protein ubiquitination; and regulation of gene expression. Predicted to be active in cytoplasm. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Low expression observed in reference dataset See more
Orthologs
all
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Genomic context

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Location:
11q14.3
Exon count:
11
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (90031106..90073531)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (89951193..89993609)
105.20220307 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: 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. 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)

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

  • 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 protein ubiquitination 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_2023_10

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

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