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Aliases for RBM3 Gene

Aliases for RBM3 Gene

  • RNA Binding Motif Protein 3 2 3 5
  • RNPL 3 4
  • RNA Binding Motif (RNP1, RRM) Protein 3 3
  • RNA-Binding Motif Protein 3 4
  • RNA-Binding Protein 3 3
  • IS1-RNPL 3

External Ids for RBM3 Gene

Previous GeneCards Identifiers for RBM3 Gene

  • GC0XP047235
  • GC0XP046693
  • GC0XP047478
  • GC0XP048189
  • GC0XP048317
  • GC0XP048432
  • GC0XP046097

Summaries for RBM3 Gene

Entrez Gene Summary for RBM3 Gene

  • This gene is a member of the glycine-rich RNA-binding protein family and encodes a protein with one RNA recognition motif (RRM) domain. Expression of this gene is induced by cold shock and low oxygen tension. A pseudogene exists on chromosome 1. Multiple alternatively spliced transcript variants that are predicted to encode different isoforms have been characterized although some of these variants fit nonsense-mediated decay (NMD) criteria. [provided by RefSeq, Jul 2008]

GeneCards Summary for RBM3 Gene

RBM3 (RNA Binding Motif Protein 3) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include nucleic acid binding and RNA binding. An important paralog of this gene is CIRBP.

UniProtKB/Swiss-Prot for RBM3 Gene

  • Cold-inducible mRNA binding protein that enhances global protein synthesis at both physiological and mild hypothermic temperatures. Reduces the relative abundance of microRNAs, when overexpressed. Enhances phosphorylation of translation initiation factors and active polysome formation (By similarity).

Gene Wiki entry for RBM3 Gene

Additional gene information for RBM3 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RBM3 Gene

Genomics for RBM3 Gene

GeneHancer (GH) Regulatory Elements for RBM3 Gene

Promoters and enhancers for RBM3 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
GH0XJ048573 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 650.7 +0.6 633 3.4 HDGF PKNOX1 SMAD1 ARNT ARID4B NEUROD1 SIN3A DMAP1 ZNF2 YY1 ENSG00000204620 RBM3 ZNF182 ENSG00000228343 FTSJ1 ZNF81 PRICKLE3 PQBP1 ENSG00000270012 HDAC6
GH0XJ048916 Promoter/Enhancer 2.5 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 31.4 +345.4 345412 5.6 HNRNPUL1 PKNOX1 FOXA2 SMAD1 ARID4B SIN3A ZNF2 ZBTB7B YY1 POLR2B PIM2 ENSG00000204620 FTSJ1 ENSG00000270012 RBM3 PQBP1 CCDC22 ZNF182 PLP2 OTUD5
GH0XJ047657 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 30.1 -915.6 -915614 2.9 HDGF PKNOX1 FOXA2 ARNT ARID4B SIN3A DMAP1 ZNF2 YY1 POLR2B UXT UXT-AS1 INE1 ENSG00000204620 ZNF81 UBA1 FTSJ1 RBM3 ZNF182 RBM10
GH0XJ048520 Promoter/Enhancer 1.5 Ensembl ENCODE 19.7 -52.6 -52582 3 PKNOX1 ATF1 ARID4B SIN3A DMAP1 YY1 GLIS2 GATA2 E2F8 FOS EBP FTSJ1 ENSG00000204620 RBM3 ENSG00000270012 ZNF81 CCDC22 ARAF ENSG00000276823 PORCN
GH0XJ048896 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 13.4 +323.7 323675 3.1 HDGF PKNOX1 SMAD1 ARNT ARID4B SIN3A FEZF1 ZNF2 YY1 POLR2B PQBP1 TIMM17B FTSJ1 ENSG00000204620 ENSG00000270012 ZNF182 HDAC6 RBM3 CCDC22 PLP2
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around RBM3 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the RBM3 gene promoter:
  • E2F-5
  • E2F
  • E2F-1
  • E2F-2
  • E2F-3a
  • E2F-4
  • En-1
  • POU2F1a
  • POU2F1
  • AML1a

Genomic Locations for RBM3 Gene

Genomic Locations for RBM3 Gene
chrX:48,574,353-48,581,165
(GRCh38/hg38)
Size:
6,813 bases
Orientation:
Plus strand
chrX:48,432,741-48,439,553
(GRCh37/hg19)
Size:
6,813 bases
Orientation:
Plus strand

Genomic View for RBM3 Gene

Genes around RBM3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RBM3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RBM3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RBM3 Gene

Proteins for RBM3 Gene

  • Protein details for RBM3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P98179-RBM3_HUMAN
    Recommended name:
    RNA-binding protein 3
    Protein Accession:
    P98179

    Protein attributes for RBM3 Gene

    Size:
    157 amino acids
    Molecular mass:
    17170 Da
    Quaternary structure:
    • Interacts with RPL4. Associates with the 60S ribosomal subunits in an RNA-independent manner. Associates with ribosomes (By similarity).

neXtProt entry for RBM3 Gene

Post-translational modifications for RBM3 Gene

Other Protein References for RBM3 Gene

No data available for DME Specific Peptides for RBM3 Gene

Domains & Families for RBM3 Gene

Gene Families for RBM3 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Predicted secreted proteins

Suggested Antigen Peptide Sequences for RBM3 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with RBM3: view

No data available for UniProtKB/Swiss-Prot for RBM3 Gene

Function for RBM3 Gene

Molecular function for RBM3 Gene

UniProtKB/Swiss-Prot Function:
Cold-inducible mRNA binding protein that enhances global protein synthesis at both physiological and mild hypothermic temperatures. Reduces the relative abundance of microRNAs, when overexpressed. Enhances phosphorylation of translation initiation factors and active polysome formation (By similarity).
UniProtKB/Swiss-Prot Induction:
Up-regulated by hypoxia.
GENATLAS Biochemistry:
Y chromosome RNA recognition motif 3,ubiquitously expressed,with homology to RBM1,RBM2 (see symbols)

Phenotypes From GWAS Catalog for RBM3 Gene

Gene Ontology (GO) - Molecular Function for RBM3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding HDA,TAS 22658674
GO:0005515 protein binding IPI 15518812
genes like me logo Genes that share ontologies with RBM3: view
genes like me logo Genes that share phenotypes with RBM3: view

Animal Model Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for RBM3 Gene

Localization for RBM3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for RBM3 Gene

Nucleus. Cytoplasm. Cell projection, dendrite. Note=Localizes in mRNA granules in dentrites. {ECO:0000250}.

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 RBM3 gene
Compartment Confidence
nucleus 5
cytoskeleton 1
cytosol 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for RBM3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus ISS --
GO:0005654 nucleoplasm IDA --
GO:0005730 nucleolus IDA --
GO:0005737 cytoplasm ISS --
GO:0015934 colocalizes_with large ribosomal subunit ISS --
genes like me logo Genes that share ontologies with RBM3: view

Pathways & Interactions for RBM3 Gene

No Data Available

Gene Ontology (GO) - Biological Process for RBM3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006396 RNA processing TAS 8634703
GO:0006417 regulation of translation ISS --
GO:0045727 positive regulation of translation ISS --
genes like me logo Genes that share ontologies with RBM3: view

No data available for Pathways by source and SIGNOR curated interactions for RBM3 Gene

Drugs & Compounds for RBM3 Gene

(1) Additional Compounds for RBM3 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with RBM3: view

Transcripts for RBM3 Gene

mRNA/cDNA for RBM3 Gene

Unigene Clusters for RBM3 Gene

RNA binding motif (RNP1, RRM) protein 3:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for RBM3 Gene

ExUns: 1 ^ 2a · 2b · 2c · 2d · 2e · 2f ^ 3a · 3b · 3c · 3d ^ 4a · 4b ^ 5a · 5b · 5c ^ 6a · 6b ^ 7a · 7b · 7c ^ 8a · 8b · 8c ^ 9 ^ 10a ·
SP1: - - - - - - - - - -
SP2: - - - - -
SP3: - - - - - - -
SP4: - - - - - -
SP5: -
SP6: - - - - - - - - - - - -
SP7: - - - - - - - -
SP8: - - - - - - - - - - -
SP9: - - - -
SP10: -
SP11:
SP12:
SP13: - - - -
SP14:
SP15: - - - - - -

ExUns: 10b ^ 11a · 11b
SP1:
SP2:
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11:
SP12:
SP13:
SP14:
SP15:

Relevant External Links for RBM3 Gene

GeneLoc Exon Structure for
RBM3
ECgene alternative splicing isoforms for
RBM3

Expression for RBM3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for RBM3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for RBM3 Gene

This gene is overexpressed in Nasal epithelium (15.0) and Hair follicle (6.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for RBM3 Gene



Protein tissue co-expression partners for RBM3 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of RBM3 Gene:

RBM3

SOURCE GeneReport for Unigene cluster for RBM3 Gene:

Hs.301404

Evidence on tissue expression from TISSUES for RBM3 Gene

  • Liver(4.8)
  • Nervous system(4.7)
  • Lung(3.4)
  • Intestine(3.2)
  • Skin(2.9)
  • Lymph node(2.6)
  • Muscle(2.3)
  • Bone marrow(2.2)
  • Spleen(2)
  • Stomach(2)
  • Thyroid gland(2)
genes like me logo Genes that share expression patterns with RBM3: view

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for RBM3 Gene

Orthologs for RBM3 Gene

This gene was present in the common ancestor of animals.

Orthologs for RBM3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RBM3 34 33
  • 99.79 (n)
OneToOne
dog
(Canis familiaris)
Mammalia RBM3 34 33
  • 92.09 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Rbm3 33
  • 90.6 (n)
mouse
(Mus musculus)
Mammalia Rbm3 34 33
  • 86.8 (n)
OneToOne
Rbm3-ps 16
cow
(Bos Taurus)
Mammalia RBM3 34 33
  • 86.75 (n)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia RBM3 34
  • 72 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia RBM3 34
  • 84 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta tra2 34
  • 16 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea rsp-8 34
  • 17 (a)
OneToMany
Species where no ortholog for RBM3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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)
  • chicken (Gallus gallus)
  • 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)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • zebrafish (Danio rerio)

Evolution for RBM3 Gene

ENSEMBL:
Gene Tree for RBM3 (if available)
TreeFam:
Gene Tree for RBM3 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for RBM3: view image

Paralogs for RBM3 Gene

Pseudogenes.org Pseudogenes for RBM3 Gene

genes like me logo Genes that share paralogs with RBM3: view

Variants for RBM3 Gene

Sequence variations from dbSNP and Humsavar for RBM3 Gene

SNP ID Clin Chr 0X pos Variation AA Info Type
rs1000865394 -- 48,580,059(+) C/G 3_prime_UTR_variant
rs1000953993 -- 48,574,670(+) C/T intron_variant
rs1001751193 -- 48,581,384(+) C/A downstream_transcript_variant
rs1001850158 -- 48,575,975(+) T/G intron_variant
rs1002962968 -- 48,577,895(+) A/G 3_prime_UTR_variant

Structural Variations from Database of Genomic Variants (DGV) for RBM3 Gene

Variant ID Type Subtype PubMed ID
esv29760 CNV gain 19812545
esv32909 CNV gain+loss 17666407
nsv528292 CNV gain 19592680

Variation tolerance for RBM3 Gene

Residual Variation Intolerance Score: 43.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.37; 8.13% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for RBM3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RBM3

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RBM3 Gene

Disorders for RBM3 Gene

Additional Disease Information for RBM3

No disorders were found for RBM3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for RBM3 Gene

Publications for RBM3 Gene

  1. Oxygen-regulated expression of the RNA-binding proteins RBM3 and CIRP by a HIF-1-independent mechanism. (PMID: 15075239) Wellmann S … Seeger K (Journal of cell science 2004) 3 4 22 58
  2. RBM3, a novel human gene in Xp11.23 with a putative RNA-binding domain. (PMID: 8634703) Derry JM … Francke U (Human molecular genetics 1995) 2 3 4 58
  3. The RNA-binding protein RBM3 is required for cell proliferation and protects against serum deprivation-induced cell death. (PMID: 19770690) Wellmann S … Bührer C (Pediatric research 2010) 3 22 58
  4. Down-regulating cold shock protein genes impairs cancer cell survival and enhances chemosensitivity. (PMID: 19277990) Zeng Y … Getzenberg RH (Journal of cellular biochemistry 2009) 3 22 58
  5. The DNA sequence of the human X chromosome. (PMID: 15772651) Ross MT … Bentley DR (Nature 2005) 3 4 58

Products for RBM3 Gene

Sources for RBM3 Gene

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