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    RBM5 RNA binding motif protein 5 [ Homo sapiens (human) ]

    Gene ID: 10181, updated on 2-Nov-2024

    Summary

    Official Symbol
    RBM5provided by HGNC
    Official Full Name
    RNA binding motif protein 5provided by HGNC
    Primary source
    HGNC:HGNC:9902
    See related
    Ensembl:ENSG00000003756 MIM:606884; AllianceGenome:HGNC:9902
    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
    G15; H37; RMB5; LUCA15; LUCA-15
    Summary
    This gene is a candidate tumor suppressor gene which encodes a nuclear RNA binding protein that is a component of the spliceosome A complex. The encoded protein plays a role in the induction of cell cycle arrest and apoptosis through pre-mRNA splicing of multiple target genes including the tumor suppressor protein p53. This gene is located within the tumor suppressor region 3p21.3, and may play a role in the inhibition of tumor transformation and progression of several malignancies including lung cancer. [provided by RefSeq, Oct 2011]
    Expression
    Ubiquitous expression in skin (RPKM 32.9), endometrium (RPKM 30.9) and 25 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See RBM5 in Genome Data Viewer
    Location:
    3p21.31
    Exon count:
    25
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (50088919..50119021)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (50118235..50148343)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (50126352..50156454)

    Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:49949147-49949724 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14377 Neighboring gene MON1 homolog A, secretory trafficking associated Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:49977213-49977735 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:49977736-49978257 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14379 Neighboring gene RNA binding motif protein 6 Neighboring gene NANOG hESC enhancer GRCh37_chr3:50050258-50050926 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:50119658-50120158 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr3:50120996-50121560 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:50126209-50126800 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:50126801-50127391 Neighboring gene MPRA-validated peak4650 silencer Neighboring gene RBM5 antisense RNA 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:50157731-50158609 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:50158610-50159487 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:50160473-50160973 Neighboring gene SEMA3F antisense RNA 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:50162997-50163986 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:50170449-50170950 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:50172709-50173300 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:50177671-50178232 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:50178233-50178794 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:50188081-50188752 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14380 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14381 Neighboring gene basic proline-rich protein-like Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14382 Neighboring gene Sharpr-MPRA regulatory region 10077 Neighboring gene ReSE screen-validated silencer GRCh37_chr3:50207171-50207381 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:50207797-50208770 Neighboring gene semaphorin 3F Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:50230799-50231315 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:50231316-50231832 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:50231833-50232348 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:50232401-50232932 Neighboring gene G protein subunit alpha transducin 1

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    EBI GWAS Catalog

    Description
    Discovery and refinement of loci associated with lipid levels.
    EBI GWAS Catalog

    HIV-1 interactions

    Replication interactions

    Interaction Pubs
    Knockdown of RNA binding motif protein 5 (RBM5) by siRNA inhibits the early stages of HIV-1 replication in 293T cells infected with VSV-G pseudotyped HIV-1 PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Interactions

    General gene information

    Clone Names

    • FLJ39876

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables DNA binding PubMed 
    enables RNA binding PubMed 
    enables RNA binding  
    enables mRNA binding PubMed 
    enables metal ion binding  
    enables protein binding PubMed 
    Component Evidence Code Pubs
    located_in nucleoplasm  
    located_in nucleoplasm  
    is_active_in nucleus  
    located_in nucleus PubMed 
    part_of spliceosomal complex PubMed 

    General protein information

    Preferred Names
    RNA-binding protein 5
    Names
    putative tumor suppressor LUCA15
    renal carcinoma antigen NY-REN-9

    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.

    Genomic

    1. NG_030403.1 RefSeqGene

      Range
      5012..35114
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_005778.4NP_005769.1  RNA-binding protein 5

      See identical proteins and their annotated locations for NP_005769.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and is protein coding.
      Source sequence(s)
      AC104450, AF091263, BM985111, CN293007, DA776815, DB080737
      Consensus CDS
      CCDS2810.1
      UniProtKB/Swiss-Prot
      B2RA45, B4DM16, B4DMF9, B4DZ63, P52756, Q93021, Q9BU14, Q9HDA6, Q9UKY8, Q9UL24
      Related
      ENSP00000343054.3, ENST00000347869.8
      Conserved Domains (7) summary
      COG0724
      Location:40181
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12752
      Location:93179
      RRM1_RBM5; RNA recognition motif 1 in vertebrate RNA-binding protein 5 (RBM5)
      cd12755
      Location:229314
      RRM2_RBM5; RNA recognition motif 2 in vertebrate RNA-binding protein 5 (RBM5)
      sd00025
      Location:185204
      zf-RanBP2; RanBP2-type Zn finger [structural motif]
      pfam00641
      Location:181210
      zf-RanBP; Zn-finger in Ran binding protein and others
      pfam01585
      Location:743787
      G-patch; G-patch domain
      cd16168
      Location:455510
      OCRE_RBM5; OCRE domain found in RNA-binding protein 5 (RBM5) and similar proteins

    RNA

    1. NR_036627.3 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) lacks an internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AC104450, AK297249, AU129811, BM985111, BX441555, DB080737, DR762951

    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_000003.12 Reference GRCh38.p14 Primary Assembly

      Range
      50088919..50119021
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011533262.3XP_011531564.1  RNA-binding protein 5 isoform X3

      Conserved Domains (7) summary
      COG0724
      Location:40181
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12752
      Location:93179
      RRM1_RBM5; RNA recognition motif 1 in vertebrate RNA-binding protein 5 (RBM5)
      cd12755
      Location:229314
      RRM2_RBM5; RNA recognition motif 2 in vertebrate RNA-binding protein 5 (RBM5)
      sd00025
      Location:185204
      zf-RanBP2; RanBP2-type Zn finger [structural motif]
      pfam00641
      Location:181210
      zf-RanBP; Zn-finger in Ran binding protein and others
      pfam01585
      Location:669713
      G-patch; G-patch domain
      cd16168
      Location:455510
      OCRE_RBM5; OCRE domain found in RNA-binding protein 5 (RBM5) and similar proteins
    2. XM_006712917.3XP_006712980.1  RNA-binding protein 5 isoform X1

      Conserved Domains (8) summary
      COG0724
      Location:40181
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12752
      Location:93179
      RRM1_RBM5; RNA recognition motif 1 in vertebrate RNA-binding protein 5 (RBM5)
      cd12755
      Location:229314
      RRM2_RBM5; RNA recognition motif 2 in vertebrate RNA-binding protein 5 (RBM5)
      sd00025
      Location:185204
      zf-RanBP2; RanBP2-type Zn finger [structural motif]
      pfam00641
      Location:181210
      zf-RanBP; Zn-finger in Ran binding protein and others
      pfam01585
      Location:684728
      G-patch; G-patch domain
      cd16074
      Location:425431
      OCRE; OCRE repeat 4 [structural motif]
      cl23757
      Location:423451
      OCRE; OCRE domain
    3. XM_047447138.1XP_047303094.1  RNA-binding protein 5 isoform X4

    4. XM_011533261.3XP_011531563.1  RNA-binding protein 5 isoform X2

      Conserved Domains (4) summary
      COG0724
      Location:40181
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12752
      Location:93179
      RRM1_RBM5; RNA recognition motif 1 in vertebrate RNA-binding protein 5 (RBM5)
      pfam01585
      Location:669713
      G-patch; G-patch domain
      cd16168
      Location:381436
      OCRE_RBM5; OCRE domain found in RNA-binding protein 5 (RBM5) and similar proteins
    5. XM_017005504.3XP_016860993.1  RNA-binding protein 5 isoform X5

      Conserved Domains (4) summary
      smart00443
      Location:608654
      G_patch; glycine rich nucleic binding domain
      smart00360
      Location:99171
      RRM; RNA recognition motif
      cd16074
      Location:351357
      OCRE; OCRE repeat 4 [structural motif]
      cl23757
      Location:349377
      OCRE; OCRE domain
    6. XM_047447140.1XP_047303096.1  RNA-binding protein 5 isoform X7

    7. XM_047447139.1XP_047303095.1  RNA-binding protein 5 isoform X6

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060927.1 Alternate T2T-CHM13v2.0

      Range
      50118235..50148343
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054344846.1XP_054200821.1  RNA-binding protein 5 isoform X3

    2. XM_054344844.1XP_054200819.1  RNA-binding protein 5 isoform X1

    3. XM_054344847.1XP_054200822.1  RNA-binding protein 5 isoform X4

    4. XM_054344845.1XP_054200820.1  RNA-binding protein 5 isoform X2

    5. XM_054344848.1XP_054200823.1  RNA-binding protein 5 isoform X5

    6. XM_054344850.1XP_054200825.1  RNA-binding protein 5 isoform X7

    7. XM_054344849.1XP_054200824.1  RNA-binding protein 5 isoform X6

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