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    RBM15B RNA binding motif protein 15B [ Homo sapiens (human) ]

    Gene ID: 29890, updated on 17-Jun-2024

    Summary

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    Official Symbol
    RBM15Bprovided by HGNC
    Official Full Name
    RNA binding motif protein 15Bprovided by HGNC
    Primary source
    HGNC:HGNC:24303
    See related
    Ensembl:ENSG00000259956 MIM:612602; AllianceGenome:HGNC:24303
    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
    OTT3; HsOTT3; HUMAGCGB
    Summary
    Members of the SPEN (Split-end) family of proteins, including RBM15B, have repressor function in several signaling pathways and may bind to RNA through interaction with spliceosome components (Hiriart et al., 2005 [PubMed 16129689]).[supplied by OMIM, Feb 2009]
    Orthologs
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    Genomic context

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    See RBM15B in Genome Data Viewer
    Location:
    3p21.2
    Exon count:
    1
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (51391285..51397908)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (51421702..51428325)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (51428716..51435339)

    Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene dedicator of cytokinesis 3 Neighboring gene NANOG hESC enhancer GRCh37_chr3:50928312-50928861 Neighboring gene Sharpr-MPRA regulatory region 894 Neighboring gene ST13, Hsp70 interacting protein pseudogene 14 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14407 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr3:51263456-51264655 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19916 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:51377300-51378184 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19917 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14408 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19918 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14409 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:51430225-51430730 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14410 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14411 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:51430731-51431238 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14412 Neighboring gene DDB1 and CUL4 associated factor 1 Neighboring gene mesencephalic astrocyte derived neurotrophic factor Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19919 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14413 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14414 Neighboring gene uncharacterized LOC105377085 Neighboring gene Sharpr-MPRA regulatory region 10823 Neighboring gene Sharpr-MPRA regulatory region 62 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19920 Neighboring gene NANOG hESC enhancer GRCh37_chr3:51578193-51578834 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:51581873-51582372 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:51589128-51590066 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:51617110-51617895 Neighboring gene ReSE screen-validated silencer GRCh37_chr3:51627487-51627690 Neighboring gene RAD54 like 2 Neighboring gene RNA, U6atac small nuclear 29, pseudogene

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. N(6)-Methyladenosine regulator RBM15B acts as an independent prognostic biomarker and its clinical significance in uveal melanoma. Wang T, et al. Front Immunol, 2022. PMID 36003405, Free PMC Article
    2. BAP1 expression is prognostic in breast and uveal melanoma but not colon cancer and is highly positively correlated with RBM15B and USP19. Shahriyari L, et al. PLoS One, 2019. PMID 30716094, Free PMC Article
    3. Kaposi's sarcoma-associated herpesvirus ORF57 interacts with cellular RNA export cofactors RBM15 and OTT3 to promote expression of viral ORF59. Majerciak V, et al. J Virol, 2011 Feb. PMID 21106733, Free PMC Article
    4. Interaction of the Epstein-Barr virus mRNA export factor EB2 with human Spen proteins SHARP, OTT1, and a novel member of the family, OTT3, links Spen proteins with splicing regulation and mRNA export. Hiriart E, et al. J Biol Chem, 2005 Nov 4. PMID 16129689
    5. m(6)A RNA methylation promotes XIST-mediated transcriptional repression. Patil DP, et al. Nature, 2016 Sep 15. PMID 27602518, Free PMC Article

    See all (58) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. N(6)-Methyladenosine regulator RBM15B acts as an independent prognostic biomarker and its clinical significance in uveal melanoma.
      Title: N(6)-Methyladenosine regulator RBM15B acts as an independent prognostic biomarker and its clinical significance in uveal melanoma.
    2. BAP1 is highly positively correlated with RBM15B and USP19 expression in invasive breast carcinoma, UM, and colon adenocarcinoma
      Title: BAP1 expression is prognostic in breast and uveal melanoma but not colon cancer and is highly positively correlated with RBM15B and USP19.
    3. HHV-8 ORF57 interacts with RBM15 and OTT3 to promote expression of viral intronless genes.
      Title: Kaposi's sarcoma-associated herpesvirus ORF57 interacts with cellular RNA export cofactors RBM15 and OTT3 to promote expression of viral ORF59.
    4. The RNA-binding motif protein 15B (RBM15B/OTT3) acts as cofactor of the nuclear export receptor NXF1.
      Title: The RNA-binding motif protein 15B (RBM15B/OTT3) acts as cofactor of the nuclear export receptor NXF1.
    Submit: New GeneRIF Correction

    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

    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

    HIV-1 interactions

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    Protein interactions

    Protein Gene Interaction Pubs
    Pr55(Gag) gag NXF1 upregulates the OTT3-mediated Gag expression from pNLgag-RTE, suggesting cooperation between OTT3 and NXF1 PubMed
    integrase gag-pol Analysis of HIV-1 proviral integration sites in antiretroviral treatment patients indicates that RBM15B gene favors HIV-1 integration for expansion and persistence of infected cells, suggesting HIV-1 IN interacts with RBM15B PubMed

    Go to the HIV-1, Human Interaction Database

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA binding HDA PubMed 
    enables RNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables RNA binding NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in RNA methylation IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in RNA splicing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in dosage compensation by inactivation of X chromosome IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in mRNA export from nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    NOT involved_in negative regulation of DNA-templated transcription IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    NOT involved_in nucleocytoplasmic transport IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in regulation of alternative mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of alternative mRNA splicing, via spliceosome IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of RNA N6-methyladenosine methyltransferase complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nuclear envelope IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nuclear speck IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    NOT located_in nucleolus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    putative RNA-binding protein 15B
    Names
    chromosome 3p21.1 gene sequence
    huOTT3
    one twenty two protein 3

    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_013286.5 → NP_037418.3  putative RNA-binding protein 15B

      See identical proteins and their annotated locations for NP_037418.3

      Status: VALIDATED

      Source sequence(s)
      AC092037, BM980577
      Consensus CDS
      CCDS33764.1
      UniProtKB/Swiss-Prot
      A4QPG7, Q6QE19, Q8NDT2, Q9BV96
      Related
      ENSP00000454545.1, ENST00000563281.2
      Conserved Domains (5) summary
      cd12554
      Location:137 → 218
      RRM1_RBM15B; RNA recognition motif 1 in putative RNA binding motif protein 15B (RBM15B) from vertebrate
      cd12556
      Location:329 → 413
      RRM2_RBM15B; RNA recognition motif 2 in putative RNA binding motif protein 15B (RBM15B) from vertebrate
      cd12558
      Location:416 → 491
      RRM3_RBM15B; RNA recognition motif 3 in putative RNA-binding protein 15B (RBM15B) from vertebrate
      pfam07744
      Location:712 → 887
      SPOC; SPOC domain
      cl25887
      Location:529 → 639
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]

    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_000003.12 Reference GRCh38.p14 Primary Assembly

      Range
      51391285..51397908
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060927.1 Alternate T2T-CHM13v2.0

      Range
      51421702..51428325
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8NDT2.3 GenPept UniProtKB/Swiss-Prot:Q8NDT2

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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