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Aliases for RBM4 Gene

Aliases for RBM4 Gene

  • RNA Binding Motif Protein 4 2 3
  • RNA-Binding Motif Protein 4a 3 4
  • Lark Homolog 3 4
  • RBM4A 3 4
  • Zinc Finger CCHC-Type And RNA Binding Motif 3A 3
  • Transcriptional Coactivator CoAZ 3
  • RNA-Binding Motif Protein 4 4
  • RNA-Binding Protein 4 3
  • RBM4. LARK 6
  • ZCCHC21 3
  • ZCRB3A 3
  • HLark 4
  • LARK 3

External Ids for RBM4 Gene

Summaries for RBM4 Gene

GeneCards Summary for RBM4 Gene

RBM4 (RNA Binding Motif Protein 4) is a Protein Coding gene. Diseases associated with RBM4 include farber lipogranulomatosis and lipogranulomatosis. GO annotations related to this gene include RNA binding and mRNA binding. An important paralog of this gene is RBM14.

UniProtKB/Swiss-Prot for RBM4 Gene

  • RNA-binding factor involved in multiple aspects of cellular processes like alternative splicing of pre-mRNA and translation regulation. Modulates alternative 5-splice site and exon selection. Acts as a muscle cell differentiation-promoting factor. Activates exon skipping of the PTB pre-mRNA during muscle cell differentiation. Antagonizes the activity of the splicing factor PTBP1 to modulate muscle cell-specific exon selection of alpha tropomyosin. Binds to intronic pyrimidine-rich sequence of the TPM1 and MAPT pre-mRNAs. Required for the translational activation of PER1 mRNA in response to circadian clock. Binds directly to the 3-UTR of the PER1 mRNA. Exerts a suppressive activity on Cap-dependent translation via binding to CU-rich responsive elements within the 3UTR of mRNAs, a process increased under stress conditions or during myocytes differentiation. Recruits EIF4A1 to stimulate IRES-dependent translation initiation in respons to cellular stress. Associates to internal ribosome entry segment (IRES) in target mRNA species under stress conditions. Plays a role for miRNA-guided RNA cleavage and translation suppression by promoting association of AGO2-containing miRNPs with their cognate target mRNAs. Associates with miRNAs during muscle cell differentiation. Binds preferentially to 5-CGCGCG[GCA]-3 motif in vitro.

Gene Wiki entry for RBM4 Gene

No data available for Entrez Gene Summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RBM4 Gene

Genomics for RBM4 Gene

Genomic Location for RBM4 Gene

Start:
66,638,617 bp from pter
End:
66,668,385 bp from pter
Size:
29,769 bases
Orientation:
Plus strand

Genomic View for RBM4 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for RBM4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RBM4 Gene

Regulatory Elements for RBM4 Gene

Proteins for RBM4 Gene

  • Protein details for RBM4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9BWF3-RBM4_HUMAN
    Recommended name:
    RNA-binding protein 4
    Protein Accession:
    Q9BWF3
    Secondary Accessions:
    • B3KUN0
    • B4E1U0
    • E7EQS3
    • O02916
    • Q4VC48
    • Q6P1P2
    • Q8WU85

    Protein attributes for RBM4 Gene

    Size:
    364 amino acids
    Molecular mass:
    40314 Da
    Quaternary structure:
    • Interacts with TNPO3; the interaction mediates nuclear import of the protein and is disrupted by nuclear Ran bound to GTP. Interacts with EIF4G1 and WT1. Interacts with EIF4A1; the interaction is modulated under stress-induced conditions. Interacts with AGO1. Interacts with AGO2; the interaction occurs under both cell proliferation and differentiation conditions and in an RNA- and phosphorylation-independent manner. Interacts with DDX5; the interaction occurs in an RNA-independent manner.
    SequenceCaution:
    • Sequence=AAC51293.1; Type=Frameshift; Positions=234; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for RBM4 Gene

    Alternative splice isoforms for RBM4 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for RBM4 Gene

Proteomics data for RBM4 Gene at MOPED

Post-translational modifications for RBM4 Gene

  • Phosphorylation on Ser-309 is induced upon cell muscle differentiation (By similarity). Phosphorylated. Phosphorylated in vitro on Ser-309 by SRPK1. Phosphorylation on Ser-309 is induced upon cell stress signaling, which alters its subcellular localization and may modulate its activity on IRES-mediated mRNA translation.
  • Modification sites at PhosphoSitePlus
  • Ubiquitination at Lys3, Lys27, Lys35, Lys59, Lys92, Lys139, Lys173, and Lys223

No data available for DME Specific Peptides for RBM4 Gene

Domains for RBM4 Gene

Gene Families for RBM4 Gene

HGNC:
  • RBM :RNA binding motif (RRM) containing
  • ZCCHC :Zinc fingers, CCHC domain containing

UniProtKB/Swiss-Prot:

RBM4_HUMAN
Domain:
  • Contains 2 RRM (RNA recognition motif) domains.:
    • Q9BWF3
Similarity:
  • Contains 1 CCHC-type zinc finger.:
    • Q9BWF3
genes like me logo Genes that share domains with RBM4: view

Function for RBM4 Gene

Molecular function for RBM4 Gene

GENATLAS Biochemistry: RNA binding protein,Drosophila lark homolog,ubiquitously expressed
UniProtKB/Swiss-Prot Function: RNA-binding factor involved in multiple aspects of cellular processes like alternative splicing of pre-mRNA and translation regulation. Modulates alternative 5-splice site and exon selection. Acts as a muscle cell differentiation-promoting factor. Activates exon skipping of the PTB pre-mRNA during muscle cell differentiation. Antagonizes the activity of the splicing factor PTBP1 to modulate muscle cell-specific exon selection of alpha tropomyosin. Binds to intronic pyrimidine-rich sequence of the TPM1 and MAPT pre-mRNAs. Required for the translational activation of PER1 mRNA in response to circadian clock. Binds directly to the 3-UTR of the PER1 mRNA. Exerts a suppressive activity on Cap-dependent translation via binding to CU-rich responsive elements within the 3UTR of mRNAs, a process increased under stress conditions or during myocytes differentiation. Recruits EIF4A1 to stimulate IRES-dependent translation initiation in respons to cellular stress. Associates to internal ribosome entry segment (IRES) in target mRNA species under stress conditions. Plays a role for miRNA-guided RNA cleavage and translation suppression by promoting association of AGO2-containing miRNPs with their cognate target mRNAs. Associates with miRNAs during muscle cell differentiation. Binds preferentially to 5-CGCGCG[GCA]-3 motif in vitro.

Gene Ontology (GO) - Molecular Function for RBM4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000166 nucleotide binding IEA --
GO:0003676 nucleic acid binding --
GO:0003723 RNA binding IDA 19561594
GO:0003729 mRNA binding IDA 21518792
GO:0003730 mRNA 3-UTR binding ISS --
genes like me logo Genes that share ontologies with RBM4: view
genes like me logo Genes that share phenotypes with RBM4: view

miRNA for RBM4 Gene

miRTarBase miRNAs that target RBM4

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targeting and HOMER Transcription for RBM4 Gene

Localization for RBM4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for RBM4 Gene

Nucleus. Nucleus, nucleolus. Nucleus speckle. Cytoplasm. Cytoplasmic granule. Note=Undergoes continuous nucleocytoplasmic shuttling. Upon nuclear import colocalizes with SR proteins in nuclear speckles. Arsenite stress-induced phosphorylation increases its subcellular relocalization from the nucleus to the cytoplasm and to cytoplasmic stress granules (SG) via a p38 MAPK signaling pathway. Primarily localized in nucleus and nucleoli under cell growth conditions and accumulated in the cytoplasm and cytoplasm perinuclear granules upon muscle cell differentiation.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for RBM4 Gene COMPARTMENTS Subcellular localization image for RBM4 gene
Compartment Confidence
nucleus 5
cytosol 2
peroxisome 1

Gene Ontology (GO) - Cellular Components for RBM4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA 16777844
GO:0005654 nucleoplasm IDA 12628928
GO:0005730 nucleolus IDA 12628928
GO:0005737 cytoplasm IDA 12628928
GO:0010494 cytoplasmic stress granule IDA 17284590
genes like me logo Genes that share ontologies with RBM4: view

Pathways for RBM4 Gene

SuperPathways for RBM4 Gene

No Data Available

Gene Ontology (GO) - Biological Process for RBM4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000381 regulation of alternative mRNA splicing, via spliceosome IDA 12628928
GO:0002190 cap-independent translational initiation IDA 17284590
GO:0002192 IRES-dependent translational initiation IDA 17284590
GO:0006396 RNA processing TAS 9169144
GO:0006397 mRNA processing IEA --
genes like me logo Genes that share ontologies with RBM4: view

No data available for Pathways by source for RBM4 Gene

Compounds for RBM4 Gene

(1) HMDB Compounds for RBM4 Gene

Compound Synonyms Cas Number PubMed IDs
Guanosine triphosphate
  • 5'-GTP
86-01-1
genes like me logo Genes that share compounds with RBM4: view

Transcripts for RBM4 Gene

Unigene Clusters for RBM4 Gene

RNA binding motif protein 4:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for RBM4 Gene

No ASD Table

Relevant External Links for RBM4 Gene

GeneLoc Exon Structure for
RBM4
ECgene alternative splicing isoforms for
RBM4

Expression for RBM4 Gene

mRNA expression in normal human tissues for RBM4 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for RBM4 Gene

SOURCE GeneReport for Unigene cluster for RBM4 Gene Hs.523822

mRNA Expression by UniProt/SwissProt for RBM4 Gene

Q9BWF3-RBM4_HUMAN
Tissue specificity: Expressed in the cerebellum. Expressed in neurons and glial cells, including layers II neurons in the frontal cortex and CA1 pyramidal neurons in the hippocampus. Expressed in heart, liver, pancreas, skeletal muscle, placenta, primary fibroblasts and peripheral blood monocytes (at protein level). Ubiquitously expressed. Highly expressed in heart, placenta and skeletal muscle. Weakly expressed in pancreas, kidney, liver, lung and brain.
genes like me logo Genes that share expressions with RBM4: view

Orthologs for RBM4 Gene

This gene was present in the common ancestor of animals.

Orthologs for RBM4 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RBM4 36
  • 99.91 (n)
  • 100 (a)
RBM4 37
  • 100 (a)
OneToMany
cow
(Bos Taurus)
Mammalia RBM4 36
  • 94.11 (n)
  • 96.96 (a)
RBM4 37
  • 98 (a)
OneToMany
dog
(Canis familiaris)
Mammalia -- 37
  • 99 (a)
OneToMany
RBM4 36
  • 96.34 (n)
  • 99.45 (a)
mouse
(Mus musculus)
Mammalia Gm21992 37
  • 73 (a)
ManyToMany
Rbm4 36
  • 93.98 (n)
  • 96.94 (a)
Rbm4 16
Rbm4 37
  • 97 (a)
ManyToMany
oppossum
(Monodelphis domestica)
Mammalia -- 37
  • 92 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia -- 37
  • 92 (a)
OneToMany
rat
(Rattus norvegicus)
Mammalia Rbm4 36
  • 93.41 (n)
  • 96.7 (a)
chicken
(Gallus gallus)
Aves -- 37
  • 88 (a)
OneToMany
lizard
(Anolis carolinensis)
Reptilia -- 37
  • 76 (a)
OneToMany
zebrafish
(Danio rerio)
Actinopterygii rbm4.1 37
  • 45 (a)
ManyToMany
rbm4.2 37
  • 46 (a)
ManyToMany
rbm4.3 37
  • 43 (a)
ManyToMany
fruit fly
(Drosophila melanogaster)
Insecta lark 37
  • 32 (a)
OneToMany
lark 38
  • 49 (a)
worm
(Caenorhabditis elegans)
Secernentea rnp-1 37
  • 23 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 37
  • 22 (a)
OneToMany
Species with no ortholog for RBM4:
  • 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)
  • 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)
  • rainbow trout (Oncorhynchus mykiss)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)

Evolution for RBM4 Gene

ENSEMBL:
Gene Tree for RBM4 (if available)
TreeFam:
Gene Tree for RBM4 (if available)

Paralogs for RBM4 Gene

Paralogs for RBM4 Gene

Selected SIMAP similar genes for RBM4 Gene using alignment to 4 proteins:

Pseudogenes.org Pseudogenes for RBM4 Gene

genes like me logo Genes that share paralogs with RBM4: view

Variants for RBM4 Gene

Sequence variations from dbSNP and Humsavar for RBM4 Gene

SNP ID Clin Chr 11 pos Sequence Context AA Info Type MAF
rs474602 -- 66,647,347(+) TTTTT(A/T)AAATT intron-variant
rs476009 -- 66,653,778(-) atttt(G/T)gactt intron-variant
rs481296 -- 66,652,083(-) TATAC(A/G)TATTA intron-variant
rs489007 -- 66,663,445(-) agagc(A/T)tgcac intron-variant
rs491377 -- 66,663,730(+) TGTGT(A/G)TATAT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for RBM4 Gene

Variant ID Type Subtype PubMed ID
nsv522277 CNV Loss 19592680
nsv897789 CNV Gain 21882294
nsv518919 CNV Loss 19592680
esv990794 OTHER Inversion 20482838
nsv897790 CNV Loss 21882294

Relevant External Links for RBM4 Gene

HapMap Linkage Disequilibrium report
RBM4

Disorders for RBM4 Gene

(1) University of Copenhagen DISEASES for RBM4 Gene

genes like me logo Genes that share disorders with RBM4: view

No data available for UniProtKB/Swiss-Prot for RBM4 Gene

Publications for RBM4 Gene

  1. Exon selection in alpha-tropomyosin mRNA is regulated by the antagonistic action of RBM4 and PTB. (PMID: 16260624) Lin J.C. … Tarn W.Y. (Mol. Cell. Biol. 2005) 2 3 4 23
  2. RBM4 interacts with an intronic element and stimulates tau exon 10 inclusion. (PMID: 16777844) Kar A. … Wu J.Y. (J. Biol. Chem. 2006) 3 4 23
  3. Lark is the splicing factor RBM4 and exhibits unique subnuclear localization properties. (PMID: 16907643) Markus M.A. … Morris B.J. (DNA Cell Biol. 2006) 3 4 23
  4. Cell stress modulates the function of splicing regulatory protein RBM4 in translation control. (PMID: 17284590) Lin J.C. … Tarn W.Y. (Proc. Natl. Acad. Sci. U.S.A. 2007) 3 4 23
  5. A novel splicing regulator shares a nuclear import pathway with SR proteins. (PMID: 12628928) Lai M.-C. … Tarn W.-Y. (EMBO J. 2003) 3 4 23

Products for RBM4 Gene

Sources for RBM4 Gene

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