U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

RBM42 RNA binding motif protein 42 [ Homo sapiens (human) ]

Gene ID: 79171, updated on 5-Mar-2024

Summary

Official Symbol
RBM42provided by HGNC
Official Full Name
RNA binding motif protein 42provided by HGNC
Primary source
HGNC:HGNC:28117
See related
Ensembl:ENSG00000126254 MIM:613232; AllianceGenome:HGNC:28117
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
Summary
Enables RNA binding activity. Predicted to act upstream of or within negative regulation of mRNA splicing, via spliceosome. Predicted to be located in cytoplasm and nucleus. Predicted to be part of ribonucleoprotein complex. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in fat (RPKM 19.0), spleen (RPKM 16.6) and 25 other tissues See more
Orthologs
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

See RBM42 in Genome Data Viewer
Location:
19q13.12
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (35629036..35637685)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (38173991..38182639)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (36119938..36128587)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene HAUS5 divergent transcript Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:36103371-36103926 Neighboring gene HAUS augmin like complex subunit 5 Neighboring gene tRNA-undetermined (NNN) 10-1 Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:36118908-36119435 Neighboring gene Sharpr-MPRA regulatory region 5913 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:36132803-36133518 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10530 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10531 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14489 Neighboring gene ETS variant transcription factor 2 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14490 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14491 Neighboring gene cytochrome c oxidase subunit 6B1

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

Bibliography

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Rev rev HIV-1 Rev interacting protein, RNA binding motif protein 42 (RBM42), is identified by the in-vitro binding experiments involving cytosolic or nuclear extracts from HeLa cells PubMed

Go to the HIV-1, Human Interaction Database

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Clone Names

  • MGC10433

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables RNA binding HDA PubMed 
enables mRNA binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in mRNA splicing, via spliceosome NAS
Non-traceable Author Statement
more info
PubMed 
involved_in negative regulation of mRNA splicing, via spliceosome IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
part_of U4/U6 x U5 tri-snRNP complex IPI
Inferred from Physical Interaction
more info
PubMed 
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
 
located_in nucleoplasm TAS
Traceable Author Statement
more info
 
located_in nucleus NAS
Non-traceable Author Statement
more info
PubMed 

NCBI Reference Sequences (RefSeq)

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_001319113.2NP_001306042.1  RNA-binding protein 42 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an in-frame exon and uses an alternate in-frame splice site in the 5' coding region, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
    Source sequence(s)
    BC002868, HY031737
    UniProtKB/TrEMBL
    K7EP90
    Related
    ENSP00000466044.1, ENST00000588161.5
    Conserved Domains (1) summary
    cd12383
    Location:346428
    RRM_RBM42; RNA recognition motif in RNA-binding protein 42 (RBM42) and similar proteins
  2. NM_024321.5NP_077297.2  RNA-binding protein 42 isoform 1

    See identical proteins and their annotated locations for NP_077297.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    BC004204, HY031737
    Consensus CDS
    CCDS12468.1
    UniProtKB/Swiss-Prot
    O00320, Q8N5R7, Q9BTD8, Q9BU66
    UniProtKB/TrEMBL
    K7EP90
    Related
    ENSP00000262633.3, ENST00000262633.9
    Conserved Domains (1) summary
    cd12383
    Location:375457
    RRM_RBM42; RNA recognition motif (RRM) found in RNA-binding protein 42 (RBM42) and similar proteins

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_000019.10 Reference GRCh38.p14 Primary Assembly

    Range
    35629036..35637685
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060943.1 Alternate T2T-CHM13v2.0

    Range
    38173991..38182639
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)