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

Gene ID: 10181, updated on 7-Oct-2019

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
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

Genomic context

See RBM5 in Genome Data Viewer
Location:
3p21.31
Exon count:
25
Annotation release Status Assembly Chr Location
109.20190905 current GRCh38.p13 (GCF_000001405.39) 3 NC_000003.12 (50088919..50119021)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (50126341..50156397)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102724438 Neighboring gene MON1 homolog A, secretory trafficking associated Neighboring gene RNA binding motif protein 6 Neighboring gene RBM5 antisense RNA 1 Neighboring gene SEMA3F antisense RNA 1 Neighboring gene basic proline-rich protein-like Neighboring gene semaphorin 3F Neighboring gene G protein subunit alpha transducin 1

Genomic regions, transcripts, and products

Expression

  • Project title: 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?

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 BioSystems

  • Gene Expression, organism-specific biosystem (from REACTOME)
    Gene Expression, organism-specific biosystemGene Expression covers the pathways by which genomic DNA is transcribed to yield RNA, the regulation of these transcription processes, and the pathways by which newly-made RNA Transcripts are process...
  • Processing of Capped Intron-Containing Pre-mRNA, organism-specific biosystem (from REACTOME)
    Processing of Capped Intron-Containing Pre-mRNA, organism-specific biosystemCo-transcriptional pre-mRNA splicing is not obligatory. Pre-mRNA splicing begins co-transcriptionally and often continues post-transcriptionally. Human genes contain an average of nine introns per ge...
  • mRNA Processing, organism-specific biosystem (from WikiPathways)
    mRNA Processing, organism-specific biosystemThis process describes the conversion of precursor messenger RNA into mature messenger RNA (mRNA). The pre-mRNA molecule undergoes three main modifications. These modifications are 5' capping, 3' po...
  • mRNA Splicing, organism-specific biosystem (from REACTOME)
    mRNA Splicing, organism-specific biosystemThe process in which excision of introns from the primary transcript of messenger RNA (mRNA) is followed by ligation of the two exon termini exposed by removal of each intron, is called mRNA splicing...
  • mRNA Splicing - Major Pathway, organism-specific biosystem (from REACTOME)
    mRNA Splicing - Major Pathway, organism-specific biosystemThe splicing of pre-mRNA occurs within a large, very dynamic complex, designated the 'spliceosome'. The 50-60S spliceosomes are estimated to be 40-60 nm in diameter, and have molecular weights in the...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ39876

Gene Ontology Provided by GOA

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

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
    P52756
    UniProtKB/TrEMBL
    A0A024R2U6
    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: Homo sapiens Annotation Release 109 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000003.12 Reference GRCh38.p13 Primary Assembly

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

mRNA and Protein(s)

  1. XM_011533262.2XP_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_006712917.2XP_006712980.1  RNA-binding protein 5 isoform X2

    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_011533261.2XP_011531563.1  RNA-binding protein 5 isoform X4

    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
  4. XM_017005504.2XP_016860993.1  RNA-binding protein 5 isoform X5

  5. XM_024453289.1XP_024309057.1  RNA-binding protein 5 isoform X6

    Conserved Domains (3) summary
    cd16168
    Location:208263
    OCRE_RBM5; OCRE domain found in RNA-binding protein 5 (RBM5) and similar proteins
    pfam01585
    Location:496540
    G-patch; G-patch domain
    cl17169
    Location:167
    RRM_SF; RNA recognition motif (RRM) superfamily
  6. XM_017005503.1XP_016860992.1  RNA-binding protein 5 isoform X1

    UniProtKB/Swiss-Prot
    P52756
    UniProtKB/TrEMBL
    A0A024R2U6
    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
  7. XM_024453290.1XP_024309058.1  RNA-binding protein 5 isoform X7

    Conserved Domains (4) summary
    cd16074
    Location:178184
    OCRE; OCRE repeat 4 [structural motif]
    cl23757
    Location:176204
    OCRE; OCRE domain
    pfam01585
    Location:437481
    G-patch; G-patch domain
    cl17169
    Location:167
    RRM_SF; RNA recognition motif (RRM) superfamily
  8. XM_017005505.1XP_016860994.1  RNA-binding protein 5 isoform X6

    Conserved Domains (3) summary
    cd16168
    Location:208263
    OCRE_RBM5; OCRE domain found in RNA-binding protein 5 (RBM5) and similar proteins
    pfam01585
    Location:496540
    G-patch; G-patch domain
    cl17169
    Location:167
    RRM_SF; RNA recognition motif (RRM) superfamily

RNA

  1. XR_427245.2 RNA Sequence

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