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    RBM4B RNA binding motif protein 4B [ Homo sapiens (human) ]

    Gene ID: 83759, updated on 28-Oct-2024

    Summary

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    Official Symbol
    RBM4Bprovided by HGNC
    Official Full Name
    RNA binding motif protein 4Bprovided by HGNC
    Primary source
    HGNC:HGNC:28842
    See related
    Ensembl:ENSG00000173914 AllianceGenome:HGNC:28842
    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
    RBM30; RBM4L; ZCRB3B; ZCCHC15; ZCCHC21B
    Summary
    Enables RNA binding activity. Predicted to be involved in entrainment of circadian clock by photoperiod; mRNA splicing, via spliceosome; and regulation of gene expression. Predicted to act upstream of or within positive regulation of gene expression. Located in cytosol and nucleoplasm. Part of protein-containing complex. [provided by Alliance of Genome Resources, Oct 2024]
    Expression
    Ubiquitous expression in ovary (RPKM 14.9), endometrium (RPKM 13.1) and 25 other tissues See more
    Orthologs
    all
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    Genomic context

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    See RBM4B in Genome Data Viewer
    Location:
    11q13.2
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (66664998..66677887, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (66661244..66674135, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (66432469..66445358, complement)

    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 RNA binding motif protein 4 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 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

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues 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

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    Related articles in PubMed

    1. The LARK/RBM4a protein is highly expressed in cerebellum as compared to cerebrum. Pfuhl T, et al. Neurosci Lett, 2008 Oct 17. PMID 18708123
    2. A novel splicing regulator shares a nuclear import pathway with SR proteins. Lai MC, et al. EMBO J, 2003 Mar 17. PMID 12628928, Free PMC Article
    3. Physical interaction and functional coupling between ACDP4 and the intracellular ion chaperone COX11, an implication of the role of ACDP4 in essential metal ion transport and homeostasis. Guo D, et al. Mol Pain, 2005 Apr 19. PMID 15840172, Free PMC Article
    4. Large-scale genome-wide association analysis of bipolar disorder identifies a new susceptibility locus near ODZ4. Psychiatric GWAS Consortium Bipolar Disorder Working Group. Nat Genet, 2011 Sep 18. PMID 21926972, Free PMC Article
    5. Functional proteomic analysis of human nucleolus. Scherl A, et al. Mol Biol Cell, 2002 Nov. PMID 12429849, Free PMC Article

    See all (64) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    EBI GWAS Catalog

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

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC10871, DKFZp586F1322

    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 zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in circadian regulation of gene expression ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in circadian rhythm ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in entrainment of circadian clock by photoperiod ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of gene expression IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of translation ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    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 nucleolus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
    		  
    part_of protein-containing complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    RNA-binding protein 4B
    Names
    RNA-binding motif protein 30
    zinc finger CCHC-type and RNA binding motif 3B

    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_001286135.2 → NP_001273064.1  RNA-binding protein 4B isoform 2

      See identical proteins and their annotated locations for NP_001273064.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate exon in the 3' coding region, which results in a frameshift, compared to variant 1. The encoded isoform (2) has a distinct C-terminus and is shorter than isoform 1.
      Source sequence(s)
      BC004951, BQ428264
      Consensus CDS
      CCDS66144.1
      UniProtKB/TrEMBL
      E9PLB0, E9PM61
      Related
      ENSP00000435239.1, ENST00000531969.5
      Conserved Domains (1) summary
      cl17169
      Location:78 → 141
      RRM_SF; RNA recognition motif (RRM) superfamily

    2. NM_031492.4 → NP_113680.1  RNA-binding protein 4B isoform 1

      See identical proteins and their annotated locations for NP_113680.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      BC004951, BQ428264
      Consensus CDS
      CCDS8149.1
      UniProtKB/Swiss-Prot
      B3KT83, Q9BQ04
      Related
      ENSP00000310471.4, ENST00000310046.9
      Conserved Domains (4) summary
      PTZ00368
      Location:145 → 181
      PTZ00368; universal minicircle sequence binding protein (UMSBP); Provisional
      smart00343
      Location:161 → 176
      ZnF_C2HC; zinc finger
      cd12606
      Location:2 → 68
      RRM1_RBM4; RNA recognition motif 1 (RRM1) found in vertebrate RNA-binding protein 4 (RBM4)
      cd12607
      Location:78 → 144
      RRM2_RBM4; RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding protein 4 (RBM4)

    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_000011.10 Reference GRCh38.p14 Primary Assembly

      Range
      66664998..66677887 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011545297.4 → XP_011543599.1  RNA-binding protein 4B isoform X1

      See identical proteins and their annotated locations for XP_011543599.1

      UniProtKB/Swiss-Prot
      B3KT83, Q9BQ04
      Conserved Domains (4) summary
      PTZ00368
      Location:145 → 181
      PTZ00368; universal minicircle sequence binding protein (UMSBP); Provisional
      smart00343
      Location:161 → 176
      ZnF_C2HC; zinc finger
      cd12606
      Location:2 → 68
      RRM1_RBM4; RNA recognition motif 1 (RRM1) found in vertebrate RNA-binding protein 4 (RBM4)
      cd12607
      Location:78 → 144
      RRM2_RBM4; RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding protein 4 (RBM4)

    2. XM_017018402.3 → XP_016873891.1  RNA-binding protein 4B isoform X1

      UniProtKB/Swiss-Prot
      B3KT83, Q9BQ04
      Conserved Domains (4) summary
      PTZ00368
      Location:145 → 181
      PTZ00368; universal minicircle sequence binding protein (UMSBP); Provisional
      smart00343
      Location:161 → 176
      ZnF_C2HC; zinc finger
      cd12606
      Location:2 → 68
      RRM1_RBM4; RNA recognition motif 1 (RRM1) found in vertebrate RNA-binding protein 4 (RBM4)
      cd12607
      Location:78 → 144
      RRM2_RBM4; RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding protein 4 (RBM4)

    RNA

    1. XR_247214.4 RNA Sequence

    2. XR_247213.4 RNA Sequence

    3. XR_007062509.1 RNA Sequence

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060935.1 Alternate T2T-CHM13v2.0

      Range
      66661244..66674135 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054370145.1 → XP_054226120.1  RNA-binding protein 4B isoform X1

      UniProtKB/Swiss-Prot
      B3KT83, Q9BQ04

    2. XM_054370144.1 → XP_054226119.1  RNA-binding protein 4B isoform X1

      UniProtKB/Swiss-Prot
      B3KT83, Q9BQ04

    RNA

    1. XR_008488466.1 RNA Sequence

    2. XR_008488465.1 RNA Sequence

    3. XR_008488467.1 RNA Sequence

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9BQ04.1 GenPept UniProtKB/Swiss-Prot:Q9BQ04

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