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RBM3 RNA binding motif protein 3 [ Homo sapiens (human) ]

Gene ID: 5935, updated on 27-Nov-2024

Summary

Official Symbol
RBM3provided by HGNC
Official Full Name
RNA binding motif protein 3provided by HGNC
Primary source
HGNC:HGNC:9900
See related
Ensembl:ENSG00000102317 MIM:300027; AllianceGenome:HGNC:9900
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
RNPL; IS1-RNPL
Summary
This gene is a member of the glycine-rich RNA-binding protein family and encodes a protein with one RNA recognition motif (RRM) domain. Expression of this gene is induced by cold shock and low oxygen tension. A pseudogene exists on chromosome 1. Multiple alternatively spliced transcript variants that are predicted to encode different isoforms have been characterized although some of these variants fit nonsense-mediated decay (NMD) criteria. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in bone marrow (RPKM 49.3), fat (RPKM 41.3) and 25 other tissues See more
Orthologs
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Genomic context

See RBM3 in Genome Data Viewer
Location:
Xp11.23
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) X NC_000023.11 (48574484..48581162)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) X NC_060947.1 (47983492..47990170)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) X NC_000023.10 (48432872..48439550)

Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20816 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20817 Neighboring gene CRISPRi-validated cis-regulatory element chrX.929 Neighboring gene EBP cholestenol delta-isomerase Neighboring gene H3K27ac hESC enhancer GRCh37_chrX:48397756-48398256 Neighboring gene H3K27ac hESC enhancer GRCh37_chrX:48398257-48398757 Neighboring gene TBC1 domain family member 25 Neighboring gene ReSE screen-validated silencer GRCh37_chrX:48426332-48426532 Neighboring gene CRISPRi-FlowFISH-validated PLP2 regulatory element 4 Neighboring gene ReSE screen-validated silencer GRCh37_chrX:48436957-48437166 Neighboring gene MRPL32 pseudogene 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29604 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29605 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29606 Neighboring gene WD repeat domain 13 Neighboring gene Sharpr-MPRA regulatory region 1547

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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables RNA binding HDA PubMed 
enables RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables ribosomal large subunit binding IBA
Inferred from Biological aspect of Ancestor
more info
 
Process Evidence Code Pubs
involved_in RNA processing TAS
Traceable Author Statement
more info
PubMed 
involved_in positive regulation of mRNA splicing, via spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in positive regulation of translation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in regulation of translation IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in regulation of translation ISS
Inferred from Sequence or Structural Similarity
more info
 
Component Evidence Code Pubs
located_in cytoplasm ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in dendrite ISS
Inferred from Sequence or Structural Similarity
more info
 
part_of large ribosomal subunit ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
 
located_in nucleus ISS
Inferred from Sequence or Structural Similarity
more info
 
part_of spliceosomal complex IBA
Inferred from Biological aspect of Ancestor
more info
 

General protein information

Preferred Names
RNA-binding protein 3
Names
RNA binding motif (RNP1, RRM) protein 3

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_006743.5NP_006734.1  RNA-binding protein 3

    See identical proteins and their annotated locations for NP_006734.1

    Status: REVIEWED

    Source sequence(s)
    AC115618, BC006825
    Consensus CDS
    CCDS14301.1
    UniProtKB/Swiss-Prot
    P98179
    Related
    ENSP00000365950.3, ENST00000376759.8
    Conserved Domains (1) summary
    cd12449
    Location:685
    RRM_CIRBP_RBM3; RNA recognition motif (RRM) found in cold inducible RNA binding protein (CIRBP), RNA binding motif protein 3 (RBM3) and similar proteins

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_000023.11 Reference GRCh38.p14 Primary Assembly

    Range
    48574484..48581162
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060947.1 Alternate T2T-CHM13v2.0

    Range
    47983492..47990170
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001017430.1: Suppressed sequence

    Description
    NM_001017430.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.
  2. NM_001017431.1: Suppressed sequence

    Description
    NM_001017431.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.