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

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

    Summary

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    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
    mouse all
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    Genomic context

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    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

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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 apoptosis modulator and tumour suppressor protein RBM5 is a phosphoprotein. Shu Y, et al. Cell Biochem Funct, 2007 Nov-Dec. PMID 16927403
    2. The 3p21.3 tumor suppressor RBM5 resensitizes cisplatin-resistant human non-small cell lung cancer cells to cisplatin. Li P, et al. Cancer Epidemiol, 2012 Oct. PMID 22609235
    3. Solution structure of the second RRM domain of RBM5 and its unusual binding characters for different RNA targets. Song Z, et al. Biochemistry, 2012 Aug 21. PMID 22839758
    4. The tumor suppressor gene RBM5 inhibits lung adenocarcinoma cell growth and induces apoptosis. Shao C, et al. World J Surg Oncol, 2012 Aug 6. PMID 22866867, Free PMC Article
    5. RBM5/H37 tumor suppressor, located at the lung cancer hot spot 3p21.3, alters expression of genes involved in metastasis. Oh JJ, et al. Lung Cancer, 2010 Dec. PMID 20338664

    See all (132) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. FTO blocks RNA translational activity via the loss of N6-methyladenosine methylation at 5' UTR regulated by RBM5 in cisplatin-resistant NSCLC.
      Title: FTO blocks RNA translational activity via the loss of N6-methyladenosine methylation at 5' UTR regulated by RBM5 in cisplatin-resistant NSCLC.
    2. ZNF554 Inhibits Endometrial Cancer Progression via Regulating RBM5 and Inactivating WNT/beta-Catenin Signaling Pathway.
      Title: ZNF554 Inhibits Endometrial Cancer Progression via Regulating RBM5 and Inactivating WNT/β-Catenin Signaling Pathway.
    3. CHIP suppresses the proliferation and migration of A549 cells by mediating the ubiquitination of eIF2alpha and upregulation of tumor suppressor RBM5.
      Title: CHIP suppresses the proliferation and migration of A549 cells by mediating the ubiquitination of eIF2α and upregulation of tumor suppressor RBM5.
    4. RNA-binding protein RBM5 plays an essential role in acute myeloid leukemia by activating the oncogenic protein HOXA9.
      Title: RNA-binding protein RBM5 plays an essential role in acute myeloid leukemia by activating the oncogenic protein HOXA9.
    5. Elucidating the role of RBM5 in osteoclastogenesis: a novel potential therapeutic target for osteoporosis.
      Title: Elucidating the role of RBM5 in osteoclastogenesis: a novel potential therapeutic target for osteoporosis.
    6. RNA-binding protein PUM2 promotes T-cell acute lymphoblastic leukemia via competitively binding to RBM5 3'UTR with miR-28-5p.
      Title: RNA-binding protein PUM2 promotes T-cell acute lymphoblastic leukemia via competitively binding to RBM5 3'UTR with miR-28-5p.
    7. A bacterial virulence factor interacts with the splicing factor RBM5 and stimulates formation of nuclear RBM5 granules.
      Title: A bacterial virulence factor interacts with the splicing factor RBM5 and stimulates formation of nuclear RBM5 granules.
    8. A de novo paradigm for male infertility.
      Title: A de novo paradigm for male infertility.
    9. Circular circPSMC3 inhibits hepatocellular carcinoma migration and invasion by upregulating RBM5.
      Title: Circular circPSMC3 inhibits hepatocellular carcinoma migration and invasion by upregulating RBM5.
    10. RBM5 Acts as Tumor Suppressor in Medulloblastoma through Regulating Wnt/beta-Catenin Signaling.
      Title: RBM5 Acts as Tumor Suppressor in Medulloblastoma through Regulating Wnt/β-Catenin Signaling.
    Submit: New GeneRIF Correction See all GeneRIFs (44)

    Phenotypes

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    Review eQTL and phenotype association data in this region using PheGenI

    EBI GWAS Catalog

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

    Variation

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    See Variation Viewer (GRCh37.p13)

    HIV-1 interactions

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    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

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • FLJ39876

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables DNA binding TAS
    Traceable Author Statement
    more info
    		 PubMed 
    enables RNA binding HDA PubMed 
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables mRNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in RNA processing TAS
    Traceable Author Statement
    more info
    		 PubMed 
    involved_in apoptotic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in negative regulation of cell population proliferation TAS
    Traceable Author Statement
    more info
    		 PubMed 
    involved_in positive regulation of apoptotic process IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in positive regulation of apoptotic process TAS
    Traceable Author Statement
    more info
    		 PubMed 
    involved_in regulation of alternative mRNA splicing, via spliceosome IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in spliceosomal complex assembly IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
    		  
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of spliceosomal complex TAS
    Traceable Author Statement
    more info
    		 PubMed 

    General protein information

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

    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.

    Genomic

    1. NG_030403.1 RefSeqGene

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

    mRNA and Protein(s)

    1. NM_005778.4 → NP_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:40 → 181
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12752
      Location:93 → 179
      RRM1_RBM5; RNA recognition motif 1 in vertebrate RNA-binding protein 5 (RBM5)
      cd12755
      Location:229 → 314
      RRM2_RBM5; RNA recognition motif 2 in vertebrate RNA-binding protein 5 (RBM5)
      sd00025
      Location:185 → 204
      zf-RanBP2; RanBP2-type Zn finger [structural motif]
      pfam00641
      Location:181 → 210
      zf-RanBP; Zn-finger in Ran binding protein and others
      pfam01585
      Location:743 → 787
      G-patch; G-patch domain
      cd16168
      Location:455 → 510
      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_011533262.3 → XP_011531564.1  RNA-binding protein 5 isoform X3

      Conserved Domains (7) summary
      COG0724
      Location:40 → 181
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12752
      Location:93 → 179
      RRM1_RBM5; RNA recognition motif 1 in vertebrate RNA-binding protein 5 (RBM5)
      cd12755
      Location:229 → 314
      RRM2_RBM5; RNA recognition motif 2 in vertebrate RNA-binding protein 5 (RBM5)
      sd00025
      Location:185 → 204
      zf-RanBP2; RanBP2-type Zn finger [structural motif]
      pfam00641
      Location:181 → 210
      zf-RanBP; Zn-finger in Ran binding protein and others
      pfam01585
      Location:669 → 713
      G-patch; G-patch domain
      cd16168
      Location:455 → 510
      OCRE_RBM5; OCRE domain found in RNA-binding protein 5 (RBM5) and similar proteins

    2. XM_006712917.3 → XP_006712980.1  RNA-binding protein 5 isoform X1

      Conserved Domains (8) summary
      COG0724
      Location:40 → 181
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12752
      Location:93 → 179
      RRM1_RBM5; RNA recognition motif 1 in vertebrate RNA-binding protein 5 (RBM5)
      cd12755
      Location:229 → 314
      RRM2_RBM5; RNA recognition motif 2 in vertebrate RNA-binding protein 5 (RBM5)
      sd00025
      Location:185 → 204
      zf-RanBP2; RanBP2-type Zn finger [structural motif]
      pfam00641
      Location:181 → 210
      zf-RanBP; Zn-finger in Ran binding protein and others
      pfam01585
      Location:684 → 728
      G-patch; G-patch domain
      cd16074
      Location:425 → 431
      OCRE; OCRE repeat 4 [structural motif]
      cl23757
      Location:423 → 451
      OCRE; OCRE domain

    3. XM_047447138.1 → XP_047303094.1  RNA-binding protein 5 isoform X4

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

      Conserved Domains (4) summary
      COG0724
      Location:40 → 181
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12752
      Location:93 → 179
      RRM1_RBM5; RNA recognition motif 1 in vertebrate RNA-binding protein 5 (RBM5)
      pfam01585
      Location:669 → 713
      G-patch; G-patch domain
      cd16168
      Location:381 → 436
      OCRE_RBM5; OCRE domain found in RNA-binding protein 5 (RBM5) and similar proteins

    5. XM_017005504.3 → XP_016860993.1  RNA-binding protein 5 isoform X5

      Conserved Domains (4) summary
      smart00443
      Location:608 → 654
      G_patch; glycine rich nucleic binding domain
      smart00360
      Location:99 → 171
      RRM; RNA recognition motif
      cd16074
      Location:351 → 357
      OCRE; OCRE repeat 4 [structural motif]
      cl23757
      Location:349 → 377
      OCRE; OCRE domain

    6. XM_047447140.1 → XP_047303096.1  RNA-binding protein 5 isoform X7

    7. XM_047447139.1 → XP_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_054344846.1 → XP_054200821.1  RNA-binding protein 5 isoform X3

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

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

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

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

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

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

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P52756.2 GenPept UniProtKB/Swiss-Prot:P52756

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