Free for academic non-profit institutions. Other users need a Commercial license

Aliases for RBM5 Gene

Aliases for RBM5 Gene

  • RNA Binding Motif Protein 5 2 3 5
  • Putative Tumor Suppressor LUCA15 3 4
  • Renal Carcinoma Antigen NY-REN-9 3 4
  • RNA-Binding Motif Protein 5 4
  • RNA-Binding Protein 5 3
  • Protein G15 4
  • LUCA15 3
  • RMB5 3
  • G15 3
  • H37 3

External Ids for RBM5 Gene

Previous GeneCards Identifiers for RBM5 Gene

  • GC03M049830
  • GC03M050000
  • GC03P049980
  • GC03P050085

Summaries for RBM5 Gene

Entrez Gene Summary for RBM5 Gene

  • 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]

GeneCards Summary for RBM5 Gene

RBM5 (RNA Binding Motif Protein 5) is a Protein Coding gene. Diseases associated with RBM5 include Lung Cancer. Among its related pathways are mRNA Splicing - Major Pathway and Gene Expression. Gene Ontology (GO) annotations related to this gene include nucleic acid binding and RNA binding. An important paralog of this gene is RBM10.

UniProtKB/Swiss-Prot for RBM5 Gene

  • Component of the spliceosome A complex. Regulates alternative splicing of a number of mRNAs. May modulate splice site pairing after recruitment of the U1 and U2 snRNPs to the 5 and 3 splice sites of the intron. May both positively and negatively regulate apoptosis by regulating the alternative splicing of several genes involved in this process, including FAS and CASP2/caspase-2. In the case of FAS, promotes exclusion of exon 6 thereby producing a soluble form of FAS that inhibits apoptosis. In the case of CASP2/caspase-2, promotes exclusion of exon 9 thereby producing a catalytically active form of CASP2/Caspase-2 that induces apoptosis.

Gene Wiki entry for RBM5 Gene

Additional gene information for RBM5 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RBM5 Gene

Genomics for RBM5 Gene

GeneHancer (GH) Regulatory Elements for RBM5 Gene

Promoters and enhancers for RBM5 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH03J050088 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 663.1 +0.7 654 2.5 HDGF PKNOX1 ATF1 SMAD1 ARNT ARID4B SIN3A DMAP1 ZNF48 YY1 RBM5 RBM6 QRICH1 USP19 TMEM115 QARS SEMA3F-AS1 RHOA-IT1 CCDC71 GMPPB
GH03J050092 Promoter 0.5 EPDnew 650.7 +4.1 4089 0.1 RBM5 RBM6 MON1A SEMA3F SEMA3F-AS1 RBM5-AS1
GH03J050234 Promoter/Enhancer 2.8 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 49.3 +156.3 156348 21.2 HDGF FOXA2 PKNOX1 ARID4B SIN3A DMAP1 ZNF2 YY1 ZNF213 ZNF207 GNAI2 RBM5 RBM6 SEMA3F-AS1 HYAL3 TMEM115 HYAL1 CYB561D2 RHOA-IT1 AMT
GH03J050598 Promoter/Enhancer 3.2 VISTA EPDnew FANTOM5 Ensembl ENCODE dbSUPER 42.1 +517.6 517579 15 CLOCK MLX ZFP64 DMAP1 YY1 ZNF213 E2F8 ZNF143 SP3 NFYC CISH MAPKAPK3 RBM5 RBM6 TMEM115 HEMK1 RAD54L2 SEMA3F-AS1 C3orf18 DCAF1
GH03J049338 Promoter/Enhancer 2.7 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 39.8 -742.9 -742858 14.7 MLX ZFP64 DMAP1 IRF4 YY1 SLC30A9 ZNF143 SP3 NFYC ZC3H11A USP4 AMT QRICH1 RBM6 RBM5 IP6K2 ATRIP USP19 WDR6 BSN-AS1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around RBM5 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the RBM5 gene promoter:
  • NRSF form 2
  • NRSF form 1
  • AML1a
  • Spz1
  • SRY
  • deltaCREB
  • CREB
  • HSF1 (long)
  • HSF1short
  • Pax-2a

Genomic Locations for RBM5 Gene

Genomic Locations for RBM5 Gene
chr3:50,088,908-50,119,021
(GRCh38/hg38)
Size:
30,114 bases
Orientation:
Plus strand
chr3:50,126,341-50,156,454
(GRCh37/hg19)
Size:
30,114 bases
Orientation:
Plus strand

Genomic View for RBM5 Gene

Genes around RBM5 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RBM5 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RBM5 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RBM5 Gene

Proteins for RBM5 Gene

  • Protein details for RBM5 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P52756-RBM5_HUMAN
    Recommended name:
    RNA-binding protein 5
    Protein Accession:
    P52756
    Secondary Accessions:
    • B2RA45
    • B4DM16
    • B4DMF9
    • B4DZ63
    • Q93021
    • Q9BU14
    • Q9HDA6
    • Q9UKY8
    • Q9UL24

    Protein attributes for RBM5 Gene

    Size:
    815 amino acids
    Molecular mass:
    92154 Da
    Quaternary structure:
    • Component of the spliceosome A complex (also known as the prespliceosome). Appears to dissociate from the spliceosome upon formation of the spliceosome B complex (also known as the precatalytic spliceosome), in which the heterotrimeric U4/U6.U5 snRNPs are bound. Interacts with U2AF2; this interaction is direct. Also interacts with ACIN1, PRPF8, SFRS3, SNRPB, SNRPN, SNRNP70 and SNRNP200; these interactions may be indirect.
    SequenceCaution:
    • Sequence=BAG59728.1; Type=Erroneous translation; Note=Wrong choice of CDS.; Evidence={ECO:0000305}; Sequence=BAG59871.1; Type=Erroneous translation; Note=Wrong choice of CDS.; Evidence={ECO:0000305}; Sequence=BAG63975.1; Type=Erroneous translation; Note=Wrong choice of CDS.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for RBM5 Gene

    Alternative splice isoforms for RBM5 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for RBM5 Gene

Post-translational modifications for RBM5 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for RBM5 Gene

Domains & Families for RBM5 Gene

Suggested Antigen Peptide Sequences for RBM5 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

P52756

UniProtKB/Swiss-Prot:

RBM5_HUMAN :
  • Belongs to the RBM5/RBM10 family.
Family:
  • Belongs to the RBM5/RBM10 family.
genes like me logo Genes that share domains with RBM5: view

Function for RBM5 Gene

Molecular function for RBM5 Gene

UniProtKB/Swiss-Prot Function:
Component of the spliceosome A complex. Regulates alternative splicing of a number of mRNAs. May modulate splice site pairing after recruitment of the U1 and U2 snRNPs to the 5 and 3 splice sites of the intron. May both positively and negatively regulate apoptosis by regulating the alternative splicing of several genes involved in this process, including FAS and CASP2/caspase-2. In the case of FAS, promotes exclusion of exon 6 thereby producing a soluble form of FAS that inhibits apoptosis. In the case of CASP2/caspase-2, promotes exclusion of exon 9 thereby producing a catalytically active form of CASP2/Caspase-2 that induces apoptosis.
GENATLAS Biochemistry:
RNA binding protein 5 in the TSG3B region,homolog with DXS8237E,located in a region duplicated for the Xp11.3-p11.23 region containing UBE1 and DXS8237E

Phenotypes From GWAS Catalog for RBM5 Gene

Gene Ontology (GO) - Molecular Function for RBM5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding IEA --
GO:0003677 DNA binding TAS 10352938
GO:0003723 RNA binding TAS,HDA 22681889
GO:0003729 mRNA binding IDA 18840686
GO:0005515 protein binding IPI 18951082
genes like me logo Genes that share ontologies with RBM5: view
genes like me logo Genes that share phenotypes with RBM5: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for RBM5

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for RBM5 Gene

Localization for RBM5 Gene

Subcellular locations from UniProtKB/Swiss-Prot for RBM5 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for RBM5 gene
Compartment Confidence
nucleus 5
cytosol 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for RBM5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus TAS,IDA 18951082
GO:0005654 nucleoplasm TAS,IDA --
GO:0005681 spliceosomal complex TAS,IEA 18951082
genes like me logo Genes that share ontologies with RBM5: view

Pathways & Interactions for RBM5 Gene

genes like me logo Genes that share pathways with RBM5: view

Pathways by source for RBM5 Gene

Gene Ontology (GO) - Biological Process for RBM5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000245 spliceosomal complex assembly IDA 18951082
GO:0000381 regulation of alternative mRNA splicing, via spliceosome IDA,IEA 18840686
GO:0000398 mRNA splicing, via spliceosome TAS --
GO:0006396 RNA processing TAS 10352938
GO:0006397 mRNA processing IEA --
genes like me logo Genes that share ontologies with RBM5: view

No data available for SIGNOR curated interactions for RBM5 Gene

Drugs & Compounds for RBM5 Gene

No Compound Related Data Available

Transcripts for RBM5 Gene

Unigene Clusters for RBM5 Gene

RNA binding motif protein 5:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for RBM5

Alternative Splicing Database (ASD) splice patterns (SP) for RBM5 Gene

ExUns: 1a · 1b · 1c · 1d · 1e ^ 2 ^ 3 ^ 4a · 4b ^ 5 ^ 6a · 6b · 6c · 6d ^ 7a · 7b · 7c · 7d · 7e ^ 8 ^ 9a · 9b · 9c · 9d ^ 10 ^ 11a ·
SP1: - - - - - - - -
SP2: - - - - - -
SP3: - - - - - -
SP4: -
SP5: - - - - - -
SP6:
SP7: - - - - - - - -
SP8: - - - - - - - - - -
SP9:
SP10:
SP11:
SP12: - - - - - - - - - - - - - - - - -
SP13: - - -
SP14: - - - - - -
SP15: - -
SP16: - -
SP17: - - - - - - - - - - - - - - - - - - - -
SP18: -
SP19:
SP20: - -
SP21:
SP22:
SP23:
SP24:

ExUns: 11b ^ 12 ^ 13 ^ 14a · 14b · 14c ^ 15 ^ 16 ^ 17 ^ 18 ^ 19 ^ 20 ^ 21a · 21b ^ 22 ^ 23a · 23b ^ 24a · 24b ^ 25a · 25b · 25c ^ 26a · 26b ^ 27 ^ 28a ·
SP1: - - -
SP2: - -
SP3: -
SP4: -
SP5: -
SP6: - -
SP7:
SP8:
SP9: - - - -
SP10:
SP11: - - - -
SP12: - -
SP13:
SP14:
SP15:
SP16:
SP17: -
SP18:
SP19:
SP20:
SP21:
SP22: -
SP23: -
SP24:

ExUns: 28b ^ 29a · 29b · 29c
SP1:
SP2:
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11:
SP12:
SP13:
SP14:
SP15:
SP16:
SP17:
SP18:
SP19:
SP20:
SP21:
SP22:
SP23:
SP24:

Relevant External Links for RBM5 Gene

GeneLoc Exon Structure for
RBM5
ECgene alternative splicing isoforms for
RBM5

Expression for RBM5 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for RBM5 Gene

Protein differential expression in normal tissues from HIPED for RBM5 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (26.9) and CD8 Tcells (11.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for RBM5 Gene



Protein tissue co-expression partners for RBM5 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of RBM5 Gene:

RBM5

SOURCE GeneReport for Unigene cluster for RBM5 Gene:

Hs.439480

mRNA Expression by UniProt/SwissProt for RBM5 Gene:

P52756-RBM5_HUMAN
Tissue specificity: Isoform 5 is widely expressed in normal tissues and is expressed at increased levels in T-leukemic cell lines.

Evidence on tissue expression from TISSUES for RBM5 Gene

  • Nervous system(5)
  • Liver(4.3)
  • Lung(4)
  • Intestine(2.4)
  • Kidney(2.4)
  • Spleen(2.1)
  • Bone marrow(2)
  • Pancreas(2)
  • Skin(2)
genes like me logo Genes that share expression patterns with RBM5: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for RBM5 Gene

Orthologs for RBM5 Gene

This gene was present in the common ancestor of animals.

Orthologs for RBM5 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RBM5 34 33
  • 99.67 (n)
OneToOne
dog
(Canis familiaris)
Mammalia RBM5 34 33
  • 94.11 (n)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia RBM5 34
  • 94 (a)
OneToOne
cow
(Bos Taurus)
Mammalia RBM5 34 33
  • 93.29 (n)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia RBM5 34
  • 93 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Rbm5 33
  • 92.27 (n)
mouse
(Mus musculus)
Mammalia Rbm5 16 34 33
  • 92.11 (n)
chicken
(Gallus gallus)
Aves RBM5 34
  • 85 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia RBM5 34
  • 85 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia rbm5 33
  • 72.77 (n)
Str.11018 33
African clawed frog
(Xenopus laevis)
Amphibia MGC68576 33
zebrafish
(Danio rerio)
Actinopterygii rbm5 34 33
  • 67.25 (n)
OneToOne
Dr.24454 33
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.12407 33
fruit fly
(Drosophila melanogaster)
Insecta CG4896 34 35
  • 26 (a)
ManyToMany
CG4887 34 35
  • 26 (a)
ManyToMany
worm
(Caenorhabditis elegans)
Secernentea T08B2.5 34 33
  • 41.96 (n)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 44 (a)
OneToMany
Species where no ortholog for RBM5 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for RBM5 Gene

ENSEMBL:
Gene Tree for RBM5 (if available)
TreeFam:
Gene Tree for RBM5 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for RBM5: view image

Paralogs for RBM5 Gene

Paralogs for RBM5 Gene

(3) SIMAP similar genes for RBM5 Gene using alignment to 7 proteins:

  • RBM5_HUMAN
  • C9J9P7_HUMAN
  • C9JFQ5_HUMAN
  • C9JR02_HUMAN
  • F8W910_HUMAN
  • F8WE23_HUMAN
  • H7BYM9_HUMAN
genes like me logo Genes that share paralogs with RBM5: view

Variants for RBM5 Gene

Sequence variations from dbSNP and Humsavar for RBM5 Gene

SNP ID Clin Chr 03 pos Variation AA Info Type
rs1000045975 -- 50,109,245(+) T/C intron_variant
rs1000069144 -- 50,102,293(+) C/G 5_prime_UTR_variant, intron_variant
rs1000110849 -- 50,098,764(+) C/T intron_variant
rs1000334926 -- 50,109,020(+) G/A intron_variant
rs1000497898 -- 50,093,608(+) G/A intron_variant

Structural Variations from Database of Genomic Variants (DGV) for RBM5 Gene

Variant ID Type Subtype PubMed ID
dgv806n67 CNV gain 20364138
dgv8316n54 CNV loss 21841781
nsv515986 CNV loss 19592680
nsv523662 CNV loss 19592680
nsv590249 CNV loss 21841781
nsv818139 CNV loss 17921354
nsv822083 CNV loss 20364138
nsv834690 CNV loss 17160897

Variation tolerance for RBM5 Gene

Residual Variation Intolerance Score: 5.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.52; 11.27% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for RBM5 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RBM5

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RBM5 Gene

Disorders for RBM5 Gene

MalaCards: The human disease database

(1) MalaCards diseases for RBM5 Gene - From: DISEASES, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
lung cancer
  • lung cancer, susceptibility to
- elite association - COSMIC cancer census association via MalaCards
Search RBM5 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for RBM5

genes like me logo Genes that share disorders with RBM5: view

No data available for UniProtKB/Swiss-Prot and Genatlas for RBM5 Gene

Publications for RBM5 Gene

  1. RBM5 is a male germ cell splicing factor and is required for spermatid differentiation and male fertility. (PMID: 23935508) O'Bryan MK … Jamsai D (PLoS genetics 2013) 2 3 58
  2. Identification and characterisation of a novel antisense non-coding RNA from the RBM5 gene locus. (PMID: 19559772) Rintala-Maki ND … Sutherland LC (Gene 2009) 3 22 58
  3. RBM5/Luca-15/H37 regulates Fas alternative splice site pairing after exon definition. (PMID: 18851835) Bonnal S … Valcárcel J (Molecular cell 2008) 3 4 58
  4. Up-regulation of the proapoptotic caspase 2 splicing isoform by a candidate tumor suppressor, RBM5. (PMID: 18840686) Fushimi K … Wu JY (Proceedings of the National Academy of Sciences of the United States of America 2008) 3 4 58
  5. Promoter methylation study of the H37/RBM5 tumor suppressor gene from the 3p21.3 human lung cancer tumor suppressor locus. (PMID: 18038152) Oh JJ … Slamon DJ (Human genetics 2008) 3 22 58

Products for RBM5 Gene

Sources for RBM5 Gene

Content
Loading form....