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RBM4 RNA binding motif protein 4 [ Homo sapiens (human) ]

Gene ID: 5936, updated on 5-Jul-2020

Summary

Official Symbol
RBM4provided by HGNC
Official Full Name
RNA binding motif protein 4provided by HGNC
Primary source
HGNC:HGNC:9901
See related
Ensembl:ENSG00000173933 MIM:602571
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
LARK; RBM4A; ZCRB3A; ZCCHC21
Expression
Ubiquitous expression in lymph node (RPKM 17.5), ovary (RPKM 17.2) and 25 other tissues See more
Orthologs

Genomic context

See RBM4 in Genome Data Viewer
Location:
11q13.2
Exon count:
5
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 11 NC_000011.10 (66638617..66668380)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (66406088..66435856)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene RBM14-RBM4 readthrough Neighboring gene RNA, U4 small nuclear 39, pseudogene Neighboring gene RNA binding motif protein 14 Neighboring gene RNA binding motif protein 4B Neighboring gene spectrin beta, non-erythrocytic 2 Neighboring gene RNA, 7SL, cytoplasmic 12, pseudogene Neighboring gene chromosome 11 open reading frame 80 Neighboring gene fragile site, folic acid type, rare, fra(11)(q13.3)

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?

Phenotypes

NHGRI GWAS Catalog

Description
Large-scale genome-wide association analysis of bipolar disorder identifies a new susceptibility locus near ODZ4.
NHGRI GWA Catalog

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ36727, MGC75138, DKFZp547K0918

Gene Ontology Provided by GOA

Function Evidence Code Pubs
RNA binding HDA PubMed 
RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
RNA binding IDA
Inferred from Direct Assay
more info
PubMed 
cyclin binding IPI
Inferred from Physical Interaction
more info
PubMed 
mRNA 3'-UTR binding ISS
Inferred from Sequence or Structural Similarity
more info
 
mRNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
mRNA binding IDA
Inferred from Direct Assay
more info
PubMed 
miRNA binding IDA
Inferred from Direct Assay
more info
PubMed 
pre-mRNA intronic binding IDA
Inferred from Direct Assay
more info
PubMed 
pre-mRNA intronic pyrimidine-rich binding IDA
Inferred from Direct Assay
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
IRES-dependent translational initiation of linear mRNA IDA
Inferred from Direct Assay
more info
PubMed 
RNA processing TAS
Traceable Author Statement
more info
PubMed 
cap-independent translational initiation IDA
Inferred from Direct Assay
more info
PubMed 
cell differentiation IEA
Inferred from Electronic Annotation
more info
 
circadian regulation of translation ISS
Inferred from Sequence or Structural Similarity
more info
 
entrainment of circadian clock by photoperiod ISS
Inferred from Sequence or Structural Similarity
more info
 
mRNA cis splicing, via spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
miRNA mediated inhibition of translation IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of translation IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of translation in response to stress IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of translational initiation IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of muscle cell differentiation IDA
Inferred from Direct Assay
more info
PubMed 
regulation of alternative mRNA splicing, via spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of alternative mRNA splicing, via spliceosome IDA
Inferred from Direct Assay
more info
PubMed 
regulation of nucleocytoplasmic transport IDA
Inferred from Direct Assay
more info
PubMed 
response to arsenic-containing substance IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
cytoplasmic stress granule IDA
Inferred from Direct Assay
more info
PubMed 
cytosol IDA
Inferred from Direct Assay
more info
 
nuclear speck IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nuclear speck IDA
Inferred from Direct Assay
more info
PubMed 
nucleolus IDA
Inferred from Direct Assay
more info
PubMed 
nucleoplasm IDA
Inferred from Direct Assay
more info
PubMed 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
RNA-binding protein 4
Names
RNA-binding motif protein 4a
lark homolog
transcriptional coactivator CoAZ
zinc finger CCHC-type and RNA binding motif 3A

NCBI Reference Sequences (RefSeq)

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_001198843.1NP_001185772.1  RNA-binding protein 4 isoform 2

    See identical proteins and their annotated locations for NP_001185772.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate exon that results in a frameshift in the 3' coding region, compared to variant 1. The encoded isoform (2) has a distinct and shorter C-terminus, compared to isoform 1.
    Source sequence(s)
    AW575232, BC064960, DC366746
    Consensus CDS
    CCDS55776.1
    UniProtKB/Swiss-Prot
    Q9BWF3
    Related
    ENSP00000381680.4, ENST00000398692.8
    Conserved Domains (1) summary
    cl17169
    Location:268
    RRM_SF; RNA recognition motif (RRM) superfamily
  2. NM_001198844.2NP_001185773.1  RNA-binding protein 4 isoform 3

    See identical proteins and their annotated locations for NP_001185773.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 3' coding region and 3' UTR, compared to variant 1. The encoded isoform (3) has a distinct and shorter C-terminus, compared to isoform 1.
    Source sequence(s)
    AK303984, AP001157, CB242056
    Consensus CDS
    CCDS55777.1
    UniProtKB/Swiss-Prot
    Q9BWF3
    Related
    ENSP00000413497.3, ENST00000396053.9
    Conserved Domains (2) summary
    cd12606
    Location:268
    RRM1_RBM4; RNA recognition motif 1 in vertebrate RNA-binding protein 4 (RBM4)
    cl17169
    Location:78143
    RRM_SF; RNA recognition motif (RRM) superfamily
  3. NM_002896.4NP_002887.2  RNA-binding protein 4 isoform 1

    See identical proteins and their annotated locations for NP_002887.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    BC032735, DC366746
    Consensus CDS
    CCDS41676.1
    UniProtKB/Swiss-Prot
    Q9BWF3
    Related
    ENSP00000309166.7, ENST00000310092.11
    Conserved Domains (3) summary
    cd12606
    Location:268
    RRM1_RBM4; RNA recognition motif 1 in vertebrate RNA-binding protein 4 (RBM4)
    cd12607
    Location:78144
    RRM2_RBM4; RNA recognition motif 2 in vertebrate RNA-binding protein 4 (RBM4)
    cl26705
    Location:154182
    AIR1; Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000011.10 Reference GRCh38.p13 Primary Assembly

    Range
    66638617..66668380
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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