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TRIM42 tripartite motif containing 42 [ Homo sapiens (human) ]

Gene ID: 287015, updated on 11-Jun-2021

Summary

Official Symbol
TRIM42provided by HGNC
Official Full Name
tripartite motif containing 42provided by HGNC
Primary source
HGNC:HGNC:19014
See related
Ensembl:ENSG00000155890
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
T4A1; PPP1R40
Summary
This gene encodes a member of the tripartite motif (TRIM) family. The TRIM motif includes three zinc-binding domains, namely a RING, a B-box type 1 and a B-box type 2, and a coiled-coil region. [provided by RefSeq, Jul 2008]
Expression
Restricted expression toward testis (RPKM 9.8) See more
Orthologs
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Genomic context

See TRIM42 in Genome Data Viewer
Location:
3q23
Exon count:
7
Annotation release Status Assembly Chr Location
109.20210514 current GRCh38.p13 (GCF_000001405.39) 3 NC_000003.12 (140678053..140701150)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (140396906..140419992)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene calsyntenin 2 Neighboring gene CLSTN2 antisense RNA 1 Neighboring gene uncharacterized LOC102724068 Neighboring gene ribosomal protein L23a pseudogene 41 Neighboring gene solute carrier family 25 member 36

Genomic regions, transcripts, and products

Expression

  • 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

Phenotypes

Associated conditions

Description Tests
Genome-wide association study for refractive astigmatism reveals genetic co-determination with spherical equivalent refractive error: the CREAM consortium.
GeneReviews: Not available
Genome-wide association study of bipolar disorder accounting for effect of body mass index identifies a new risk allele in TCF7L2.
GeneReviews: Not available

HIV-1 interactions

Replication interactions

Interaction Pubs
Knockdown of tripartite motif containing 42 (TRIM42) by siRNA inhibits HIV-1 replication in HeLa P4/R5 cells PubMed

Go to the HIV-1, Human Interaction Database

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Homology

Clone Names

  • FLJ40097, MGC163346

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
tripartite motif-containing protein 42
Names
protein phosphatase 1, regulatory subunit 40

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_152616.5NP_689829.3  tripartite motif-containing protein 42

    See identical proteins and their annotated locations for NP_689829.3

    Status: REVIEWED

    Source sequence(s)
    AC026324, AF521868, BX093220, DC397052
    Consensus CDS
    CCDS3113.1
    UniProtKB/Swiss-Prot
    Q8IWZ5
    Related
    ENSP00000286349.3, ENST00000286349.4
    Conserved Domains (3) summary
    cd00063
    Location:612698
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam00643
    Location:285326
    zf-B_box; B-box zinc finger
    cl23765
    Location:369452
    iSH2_PI3K_IA_R; Inter-Src homology 2 (iSH2) helical domain of Class IA Phosphoinositide 3-kinase Regulatory subunits

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210514

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000003.12 Reference GRCh38.p13 Primary Assembly

    Range
    140678053..140701150
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011512740.3XP_011511042.1  tripartite motif-containing protein 42 isoform X1

    Conserved Domains (3) summary
    cd00063
    Location:612692
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam00643
    Location:285326
    zf-B_box; B-box zinc finger
    cl23765
    Location:369452
    iSH2_PI3K_IA_R; Inter-Src homology 2 (iSH2) helical domain of Class IA Phosphoinositide 3-kinase Regulatory subunits

RNA

  1. XR_001740121.2 RNA Sequence

  2. XR_001740122.2 RNA Sequence

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