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    RBM23 RNA binding motif protein 23 [ Homo sapiens (human) ]

    Gene ID: 55147, updated on 2-Nov-2024

    Summary

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    Official Symbol
    RBM23provided by HGNC
    Official Full Name
    RNA binding motif protein 23provided by HGNC
    Primary source
    HGNC:HGNC:20155
    See related
    Ensembl:ENSG00000100461 AllianceGenome:HGNC:20155
    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
    PP239; RNPC4; CAPERbeta
    Summary
    This gene encodes a member of the U2AF-like family of RNA binding proteins. This protein interacts with some steroid nuclear receptors, localizes to the promoter of a steroid- responsive gene, and increases transcription of steroid-responsive transcriptional reporters in a hormone-dependent manner. It is also implicated in the steroid receptor-dependent regulation of alternative splicing. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2008]
    Expression
    Ubiquitous expression in thyroid (RPKM 14.7), ovary (RPKM 12.8) and 25 other tissues See more
    Orthologs
    all
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    Genomic context

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    See RBM23 in Genome Data Viewer
    Location:
    14q11.2
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 14 NC_000014.9 (22893204..22919149, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 14 NC_060938.1 (17091268..17117229, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 14 NC_000014.8 (23362413..23388358, complement)

    Chromosome 14 - NC_000014.9Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5592 Neighboring gene LDL receptor related protein 10 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:23352144-23352682 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:23352683-23353220 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5593 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5594 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8149 Neighboring gene RRAD and GEM like GTPase 2 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr14:23368929-23369666 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8150 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:23386410-23387174 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8151 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8152 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8153 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5595 Neighboring gene PRMT5 antisense RNA 1 Neighboring gene uncharacterized LOC124903285 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr14:23395171-23396370 Neighboring gene protein arginine methyltransferase 5

    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. RBM23 Drives Hepatocellular Carcinoma by Activating NF-κB Signaling Pathway. Han H, et al. Biomed Res Int, 2021. PMID 33791378, Free PMC Article
    2. Proximity Labeling, Quantitative Proteomics, and Biochemical Studies Revealed the Molecular Mechanism for the Inhibitory Effect of Indisulam on the Proliferation of Gastric Cancer Cells. Lu J, et al. J Proteome Res, 2021 Sep 3. PMID 34420308
    3. Steroid hormone receptor coactivation and alternative RNA splicing by U2AF65-related proteins CAPERalpha and CAPERbeta. Dowhan DH, et al. Mol Cell, 2005 Feb 4. PMID 15694343
    4. Structural complementarity facilitates E7820-mediated degradation of RBM39 by DCAF15. Faust TB, et al. Nat Chem Biol, 2020 Jan. PMID 31686031, Free PMC Article
    5. The Brd4 extraterminal domain confers transcription activation independent of pTEFb by recruiting multiple proteins, including NSD3. Rahman S, et al. Mol Cell Biol, 2011 Jul. PMID 21555454, Free PMC Article

    See all (41) 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

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC4458, FLJ10482

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables U1 snRNP 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 splicing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of DNA-templated transcription IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in regulation of mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of mRNA splicing, via spliceosome IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in membrane HDA PubMed 
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    probable RNA-binding protein 23
    Names
    CAPER beta
    RNA-binding region (RNP1, RRM) containing 4
    RNA-binding region-containing protein 4
    coactivator of activating protein-1 and estrogen recep- tors beta
    splicing factor SF2

    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_001077351.2 → NP_001070819.1  probable RNA-binding protein 23 isoform 1

      See identical proteins and their annotated locations for NP_001070819.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) encodes isoform 1.
      Source sequence(s)
      AL135998, BC106012, BX161440, CK003276
      Consensus CDS
      CCDS41921.1
      UniProtKB/Swiss-Prot
      D3DS32, Q86U06, Q8ND16, Q8TB88, Q8WY40, Q9BUJ1, Q9NVV7
      UniProtKB/TrEMBL
      A0A0S2Z5D9, B2RDP1
      Related
      ENSP00000352956.3, ENST00000359890.8
      Conserved Domains (1) summary
      TIGR01622
      Location:99 → 438
      SF-CC1; splicing factor, CC1-like family

    2. NM_001077352.2 → NP_001070820.1  probable RNA-binding protein 23 isoform 3

      See identical proteins and their annotated locations for NP_001070820.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) lacks two alternate in-frame exons, compared to variant 1. The resulting protein (isoform 3) is shorter than isoform 1.
      Source sequence(s)
      AK001344, AL132780, AL135998, BC106012, CK003276
      Consensus CDS
      CCDS41919.1
      UniProtKB/TrEMBL
      A0A0S2Z5I1, B2RDP1
      Related
      ENSP00000339220.5, ENST00000346528.9
      Conserved Domains (3) summary
      cd12284
      Location:231 → 303
      RRM2_RBM23_RBM39; RNA recognition motif 2 in vertebrate RNA-binding protein RBM23, RBM39 and similar proteins
      cd12537
      Location:131 → 215
      RRM1_RBM23; RNA recognition motif 1 in vertebrate probable RNA-binding protein 23 (RBM23)
      pfam15519
      Location:324 → 404
      RBM39linker; linker between RRM2 and RRM3 domains in RBM39 protein

    3. NM_001308044.2 → NP_001294973.1  probable RNA-binding protein 23 isoform 4

      See identical proteins and their annotated locations for NP_001294973.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) differs in the 5' UTR and lacks two exons in the 5' coding region, which results in use of a downstream start codon compared to variant 1. It encodes isoform 4, which has a shorter N-terminus compared to isoform 1.
      Source sequence(s)
      AA987387, AK303668, AL135998, BX161440, DC363343
      Consensus CDS
      CCDS76658.1
      UniProtKB/TrEMBL
      G3XAP0
      Related
      ENSP00000438504.2, ENST00000542016.6
      Conserved Domains (1) summary
      TIGR01622
      Location:1 → 268
      SF-CC1; splicing factor, CC1-like family

    4. NM_001352762.2 → NP_001339691.1  probable RNA-binding protein 23 isoform 4

      Status: REVIEWED

      Source sequence(s)
      AL132780, AL135998
      Consensus CDS
      CCDS76658.1
      UniProtKB/TrEMBL
      G3XAP0
      Conserved Domains (1) summary
      TIGR01622
      Location:1 → 268
      SF-CC1; splicing factor, CC1-like family

    5. NM_001352763.2 → NP_001339692.1  probable RNA-binding protein 23 isoform 1

      Status: REVIEWED

      Source sequence(s)
      AL132780, AL135998
      Consensus CDS
      CCDS41921.1
      UniProtKB/Swiss-Prot
      D3DS32, Q86U06, Q8ND16, Q8TB88, Q8WY40, Q9BUJ1, Q9NVV7
      UniProtKB/TrEMBL
      A0A0S2Z5D9, B2RDP1
      Conserved Domains (1) summary
      TIGR01622
      Location:99 → 438
      SF-CC1; splicing factor, CC1-like family

    6. NM_001352764.2 → NP_001339693.1  probable RNA-binding protein 23 isoform 5

      Status: REVIEWED

      Source sequence(s)
      AL132780, AL135998
      UniProtKB/TrEMBL
      B2RDP1
      Conserved Domains (1) summary
      cl25887
      Location:143 → 482
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]

    7. NM_001352765.2 → NP_001339694.1  probable RNA-binding protein 23 isoform 2

      Status: REVIEWED

      Source sequence(s)
      AL132780, AL135998
      Consensus CDS
      CCDS41920.1
      UniProtKB/TrEMBL
      A0A0S2Z5J3, B2RDP1
      Conserved Domains (1) summary
      cl25887
      Location:69 → 422
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]

    8. NM_001352766.2 → NP_001339695.1  probable RNA-binding protein 23 isoform 1

      Status: REVIEWED

      Source sequence(s)
      AL132780, AL135998
      Consensus CDS
      CCDS41921.1
      UniProtKB/Swiss-Prot
      D3DS32, Q86U06, Q8ND16, Q8TB88, Q8WY40, Q9BUJ1, Q9NVV7
      UniProtKB/TrEMBL
      A0A0S2Z5D9, B2RDP1
      Conserved Domains (1) summary
      TIGR01622
      Location:99 → 438
      SF-CC1; splicing factor, CC1-like family

    9. NM_018107.5 → NP_060577.3  probable RNA-binding protein 23 isoform 2

      See identical proteins and their annotated locations for NP_060577.3

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) lacks an alternate in-frame exon, compared to variant 1. The resulting protein (isoform 2) is shorter than isoform 1.
      Source sequence(s)
      AL135998, BC024208, BC106012, CK003276
      Consensus CDS
      CCDS41920.1
      UniProtKB/TrEMBL
      A0A0S2Z5J3, B2RDP1
      Related
      ENSP00000382806.2, ENST00000399922.6
      Conserved Domains (1) summary
      cl25887
      Location:69 → 422
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]

    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_000014.9 Reference GRCh38.p14 Primary Assembly

      Range
      22893204..22919149 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011536906.2 → XP_011535208.1  probable RNA-binding protein 23 isoform X8

      See identical proteins and their annotated locations for XP_011535208.1

      UniProtKB/TrEMBL
      G3XAP0
      Conserved Domains (1) summary
      TIGR01622
      Location:1 → 268
      SF-CC1; splicing factor, CC1-like family

    2. XM_011536903.2 → XP_011535205.1  probable RNA-binding protein 23 isoform X8

      See identical proteins and their annotated locations for XP_011535205.1

      UniProtKB/TrEMBL
      G3XAP0
      Conserved Domains (1) summary
      TIGR01622
      Location:1 → 268
      SF-CC1; splicing factor, CC1-like family

    3. XM_011536902.2 → XP_011535204.1  probable RNA-binding protein 23 isoform X8

      See identical proteins and their annotated locations for XP_011535204.1

      UniProtKB/TrEMBL
      G3XAP0
      Conserved Domains (1) summary
      TIGR01622
      Location:1 → 268
      SF-CC1; splicing factor, CC1-like family

    4. XM_011536895.4 → XP_011535197.1  probable RNA-binding protein 23 isoform X4

      See identical proteins and their annotated locations for XP_011535197.1

      UniProtKB/TrEMBL
      B2RDP1
      Conserved Domains (4) summary
      cd12284
      Location:275 → 347
      RRM2_RBM23_RBM39; RNA recognition motif 2 in vertebrate RNA-binding protein RBM23, RBM39 and similar proteins
      cd12537
      Location:175 → 259
      RRM1_RBM23; RNA recognition motif 1 in vertebrate probable RNA-binding protein 23 (RBM23)
      pfam13900
      Location:6 → 41
      GVQW; Putative domain of unknown function
      pfam15519
      Location:368 → 448
      RBM39linker; linker between RRM2 and RRM3 domains in RBM39 protein

    5. XM_011536892.3 → XP_011535194.1  probable RNA-binding protein 23 isoform X1

      See identical proteins and their annotated locations for XP_011535194.1

      UniProtKB/TrEMBL
      B2RDP1
      Conserved Domains (1) summary
      TIGR01622
      Location:113 → 466
      SF-CC1; splicing factor, CC1-like family

    6. XM_011536894.3 → XP_011535196.1  probable RNA-binding protein 23 isoform X3

      UniProtKB/TrEMBL
      B2RDP1
      Conserved Domains (4) summary
      cd12284
      Location:291 → 363
      RRM2_RBM23_RBM39; RNA recognition motif 2 in vertebrate RNA-binding protein RBM23, RBM39 and similar proteins
      cd12537
      Location:191 → 275
      RRM1_RBM23; RNA recognition motif 1 in vertebrate probable RNA-binding protein 23 (RBM23)
      pfam13900
      Location:6 → 41
      GVQW; Putative domain of unknown function
      pfam15519
      Location:384 → 464
      RBM39linker; linker between RRM2 and RRM3 domains in RBM39 protein

    7. XM_011536897.3 → XP_011535199.1  probable RNA-binding protein 23 isoform X6

      UniProtKB/TrEMBL
      B2RDP1
      Conserved Domains (3) summary
      cd12284
      Location:267 → 339
      RRM2_RBM23_RBM39; RNA recognition motif 2 in vertebrate RNA-binding protein RBM23, RBM39 and similar proteins
      cd12537
      Location:167 → 251
      RRM1_RBM23; RNA recognition motif 1 in vertebrate probable RNA-binding protein 23 (RBM23)
      pfam15519
      Location:360 → 440
      RBM39linker; linker between RRM2 and RRM3 domains in RBM39 protein

    8. XM_047431521.1 → XP_047287477.1  probable RNA-binding protein 23 isoform X8

      UniProtKB/TrEMBL
      G3XAP0

    9. XM_011536896.3 → XP_011535198.1  probable RNA-binding protein 23 isoform X5

      See identical proteins and their annotated locations for XP_011535198.1

      UniProtKB/TrEMBL
      B2RDP1
      Conserved Domains (4) summary
      cd12284
      Location:275 → 347
      RRM2_RBM23_RBM39; RNA recognition motif 2 in vertebrate RNA-binding protein RBM23, RBM39 and similar proteins
      cd12537
      Location:175 → 259
      RRM1_RBM23; RNA recognition motif 1 in vertebrate probable RNA-binding protein 23 (RBM23)
      pfam13900
      Location:6 → 41
      GVQW; Putative domain of unknown function
      pfam15519
      Location:368 → 448
      RBM39linker; linker between RRM2 and RRM3 domains in RBM39 protein

    10. XM_011536893.4 → XP_011535195.1  probable RNA-binding protein 23 isoform X2

      See identical proteins and their annotated locations for XP_011535195.1

      UniProtKB/TrEMBL
      B2RDP1
      Conserved Domains (1) summary
      TIGR01622
      Location:113 → 466
      SF-CC1; splicing factor, CC1-like family

    11. XM_024449644.2 → XP_024305412.1  probable RNA-binding protein 23 isoform X7

      UniProtKB/TrEMBL
      B3KWQ8
      Conserved Domains (1) summary
      cl25887
      Location:143 → 356
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060938.1 Alternate T2T-CHM13v2.0

      Range
      17091268..17117229 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054376291.1 → XP_054232266.1  probable RNA-binding protein 23 isoform X8

      UniProtKB/TrEMBL
      B7Z8M4

    2. XM_054376290.1 → XP_054232265.1  probable RNA-binding protein 23 isoform X8

      UniProtKB/TrEMBL
      B7Z8M4

    3. XM_054376293.1 → XP_054232268.1  probable RNA-binding protein 23 isoform X8

      UniProtKB/TrEMBL
      B7Z8M4

    4. XM_054376287.1 → XP_054232262.1  probable RNA-binding protein 23 isoform X4

    5. XM_054376284.1 → XP_054232259.1  probable RNA-binding protein 23 isoform X1

    6. XM_054376286.1 → XP_054232261.1  probable RNA-binding protein 23 isoform X3

    7. XM_054376292.1 → XP_054232267.1  probable RNA-binding protein 23 isoform X8

      UniProtKB/TrEMBL
      B7Z8M4

    8. XM_054376288.1 → XP_054232263.1  probable RNA-binding protein 23 isoform X5

    9. XM_054376285.1 → XP_054232260.1  probable RNA-binding protein 23 isoform X2

    10. XM_054376289.1 → XP_054232264.1  probable RNA-binding protein 23 isoform X7

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q86U06.1 GenPept UniProtKB/Swiss-Prot:Q86U06

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