U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination
    • Showing Current items.

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

    Gene ID: 5936, updated on 10-Mar-2024

    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; AllianceGenome:HGNC:9901
    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
    Summary
    Enables RNA binding activity and cyclin binding activity. Involved in several processes, including IRES-dependent translational initiation of linear mRNA; negative regulation of translation; and regulation of alternative mRNA splicing, via spliceosome. Located in cytoplasmic stress granule; cytosol; and nuclear lumen. [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in lymph node (RPKM 17.5), ovary (RPKM 17.2) and 25 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Location:
    11q13.2
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (66638703..66668380)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (66634947..66664627)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (66406174..66435851)

    Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5053 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:66384051-66384984 Neighboring gene RBM14-RBM4 readthrough Neighboring gene RNA, U4 small nuclear 39, pseudogene Neighboring gene hESC enhancers GRCh37_chr11:66405625-66406338 and GRCh37_chr11:66406339-66407050 Neighboring gene RNA binding motif protein 14 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:66410755-66411278 Neighboring gene MPRA-validated peak1306 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3599 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3600 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:66453249-66453749 Neighboring gene RNA binding motif protein 4B Neighboring gene H3K27ac hESC enhancer GRCh37_chr11:66462288-66462788 Neighboring gene spectrin beta, non-erythrocytic 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:66487347-66488304 Neighboring gene RNA, 7SL, cytoplasmic 12, pseudogene Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:66511467-66511967 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3601 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5056 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3602 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5057 Neighboring gene TOP6B like initiator of meiotic double strand breaks Neighboring gene fragile site, folic acid type, rare, fra(11)(q13.3) Neighboring gene complement C1q binding protein pseudogene 2

    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

    EBI GWAS Catalog

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

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • FLJ36727, MGC75138, DKFZp547K0918

    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 RNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables cyclin binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables mRNA 3'-UTR binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables mRNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables miRNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables pre-mRNA intronic binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables pre-mRNA intronic pyrimidine-rich binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    involved_in IRES-dependent translational initiation of linear mRNA IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in RNA processing TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in cap-independent translational initiation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in circadian regulation of gene expression IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in circadian regulation of translation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in enteroendocrine cell differentiation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in entrainment of circadian clock by photoperiod ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in insulin secretion involved in cellular response to glucose stimulus IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in miRNA-mediated gene silencing by inhibition of translation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in negative regulation of translation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in negative regulation of translation in response to stress IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in negative regulation of translational initiation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in pancreas development IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of muscle cell differentiation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of translation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in regulation of alternative mRNA splicing, via spliceosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in regulation of insulin receptor signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in regulation of nucleocytoplasmic transport IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in response to arsenic-containing substance IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytoplasmic stress granule IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
     
    is_active_in nuclear speck IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nuclear speck IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleolus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in perinuclear region of cytoplasm IEA
    Inferred from Electronic Annotation
    more info
     

    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)

    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_001198843.2NP_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)
      BC064960, DC366746
      Consensus CDS
      CCDS55776.1
      UniProtKB/TrEMBL
      E9PM61
      Related
      ENSP00000381680.4, ENST00000398692.8
      Conserved Domains (1) summary
      cl17169
      Location:78138
      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/TrEMBL
      U3KQD5
      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
      B3KUN0, B4E1U0, E7EQS3, O02916, Q4VC48, Q6P1P2, Q8WU85, Q9BWF3
      UniProtKB/TrEMBL
      A8K9U0
      Related
      ENSP00000309166.8, ENST00000310092.12
      Conserved Domains (4) summary
      PTZ00368
      Location:145181
      PTZ00368; universal minicircle sequence binding protein (UMSBP); Provisional
      smart00343
      Location:161176
      ZnF_C2HC; zinc finger
      cd12606
      Location:268
      RRM1_RBM4; RNA recognition motif 1 (RRM1) found in vertebrate RNA-binding protein 4 (RBM4)
      cd12607
      Location:78144
      RRM2_RBM4; RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding protein 4 (RBM4)

    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
      66638703..66668380
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060935.1 Alternate T2T-CHM13v2.0

      Range
      66634947..66664627
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)