Aliases for RBM4B Gene

Aliases for RBM4B Gene

  • RNA Binding Motif Protein 4B 2 3 5
  • RNA-Binding Motif Protein 30 3 4
  • RNA-Binding Protein 4B 3 4
  • ZCCHC21B 2 3
  • ZCCHC15 2 3
  • ZCRB3B 2 3
  • RBM30 3 4
  • RBM4L 2 3
  • Zinc Finger CCHC-Type And RNA Binding Motif 3B 3
  • RNA Binding Motif Protein 30 2
  • RNA-Binding Motif Protein 4B 4
  • RNA-Binding Protein 30 4
  • MGC10871 2
  • RBM4B 5

External Ids for RBM4B Gene

Previous HGNC Symbols for RBM4B Gene

  • RBM30

Previous GeneCards Identifiers for RBM4B Gene

  • GC11M066190
  • GC11M066432
  • GC11M062761

Summaries for RBM4B Gene

GeneCards Summary for RBM4B Gene

RBM4B (RNA Binding Motif Protein 4B) is a Protein Coding gene. Diseases associated with RBM4B include Episodic Ataxia, Type 6. Among its related pathways are Circadian rythm related genes. Gene Ontology (GO) annotations related to this gene include nucleic acid binding and nucleotide binding. An important paralog of this gene is RBM4.

UniProtKB/Swiss-Prot Summary for RBM4B Gene

  • Required for the translational activation of PER1 mRNA in response to circadian clock. Binds directly to the 3'-UTR of the PER1 mRNA (By similarity).

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for RBM4B Gene

Genomics for RBM4B Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for RBM4B Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around RBM4B on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for RBM4B

Top Transcription factor binding sites by QIAGEN in the RBM4B gene promoter:
  • AP-1
  • ATF
  • c-Ets-1
  • c-Fos
  • c-Jun
  • c-Myb
  • CREB
  • deltaCREB
  • HOXA5
  • NF-1

Genomic Locations for RBM4B Gene

Latest Assembly
chr11:66,664,998-66,677,887
(GRCh38/hg38)
Size:
12,890 bases
Orientation:
Minus strand

Previous Assembly
chr11:66,432,469-66,445,358
(GRCh37/hg19 by Entrez Gene)
Size:
12,890 bases
Orientation:
Minus strand

chr11:66,432,469-66,445,392
(GRCh37/hg19 by Ensembl)
Size:
12,924 bases
Orientation:
Minus strand

Genomic View for RBM4B Gene

Genes around RBM4B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RBM4B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RBM4B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RBM4B Gene

Proteins for RBM4B Gene

  • Protein details for RBM4B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9BQ04-RBM4B_HUMAN
    Recommended name:
    RNA-binding protein 4B
    Protein Accession:
    Q9BQ04
    Secondary Accessions:
    • B3KT83

    Protein attributes for RBM4B Gene

    Size:
    359 amino acids
    Molecular mass:
    40150 Da
    Quaternary structure:
    • Interacts with TNPO3, which may mediate nuclear import of the protein.

    Three dimensional structures from OCA and Proteopedia for RBM4B Gene

neXtProt entry for RBM4B Gene

Post-translational modifications for RBM4B Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for RBM4B Gene

Domains & Families for RBM4B Gene

Gene Families for RBM4B Gene

Protein Domains for RBM4B Gene

InterPro:
Blocks:
  • RNA-binding region RNP-1 (RNA recognition motif)
  • C2HC-type zinc-finger signature

Suggested Antigen Peptide Sequences for RBM4B Gene

GenScript: Design optimal peptide antigens:
  • RNA-binding protein 30 (RBM4B_HUMAN)
genes like me logo Genes that share domains with RBM4B: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for RBM4B Gene

Function for RBM4B Gene

Molecular function for RBM4B Gene

UniProtKB/Swiss-Prot Function:
Required for the translational activation of PER1 mRNA in response to circadian clock. Binds directly to the 3'-UTR of the PER1 mRNA (By similarity).

Phenotypes From GWAS Catalog for RBM4B Gene

Gene Ontology (GO) - Molecular Function for RBM4B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding IEA --
GO:0003723 RNA binding IEA,IBA 21873635
GO:0003729 mRNA binding IBA 21873635
GO:0005515 protein binding IPI 15840172
GO:0008270 zinc ion binding IEA --
genes like me logo Genes that share ontologies with RBM4B: view
genes like me logo Genes that share phenotypes with RBM4B: view

Animal Models for RBM4B Gene

MGI Knock Outs for RBM4B:
  • Rbm4b Rbm4b<tm1Wtarn>
  • Rbm4b Rbm4b<tm1.1(KOMP)Vlcg>

miRNA for RBM4B Gene

miRTarBase miRNAs that target RBM4B

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for RBM4B

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for RBM4B Gene

Localization for RBM4B Gene

Subcellular locations from UniProtKB/Swiss-Prot for RBM4B Gene

Nucleus. Nucleus, nucleolus.

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 RBM4B gene
Compartment Confidence
nucleus 5
cytosol 4
mitochondrion 1
extracellular 0
peroxisome 0

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (2)
  • Nucleoplasm (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for RBM4B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005654 nucleoplasm IDA --
GO:0005730 nucleolus IEA --
GO:0005829 cytosol IDA --
GO:0016607 nuclear speck IBA 21873635
genes like me logo Genes that share ontologies with RBM4B: view

Pathways & Interactions for RBM4B Gene

PathCards logo

SuperPathways for RBM4B Gene

SuperPathway Contained pathways
1 Circadian rythm related genes
genes like me logo Genes that share pathways with RBM4B: view

Pathways by source for RBM4B Gene

1 BioSystems pathway for RBM4B Gene

Gene Ontology (GO) - Biological Process for RBM4B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000381 regulation of alternative mRNA splicing, via spliceosome IBA --
GO:0000398 mRNA splicing, via spliceosome IBA 21873635
GO:0006397 mRNA processing IEA --
GO:0006417 regulation of translation ISS --
GO:0007623 circadian rhythm ISS --
genes like me logo Genes that share ontologies with RBM4B: view

No data available for SIGNOR curated interactions for RBM4B Gene

Drugs & Compounds for RBM4B Gene

No Compound Related Data Available

Transcripts for RBM4B Gene

mRNA/cDNA for RBM4B Gene

2 REFSEQ mRNAs :
7 NCBI additional mRNA sequence :
8 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for RBM4B

Alternative Splicing Database (ASD) splice patterns (SP) for RBM4B Gene

No ASD Table

Relevant External Links for RBM4B Gene

GeneLoc Exon Structure for
RBM4B

Expression for RBM4B Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for RBM4B Gene

Protein differential expression in normal tissues from HIPED for RBM4B Gene

This gene is overexpressed in Bone (16.8), Peripheral blood mononuclear cells (15.7), Lung (9.5), and Cervix (8.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for RBM4B Gene



Protein tissue co-expression partners for RBM4B Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for RBM4B

SOURCE GeneReport for Unigene cluster for RBM4B Gene:

Hs.618713

mRNA Expression by UniProt/SwissProt for RBM4B Gene:

Q9BQ04-RBM4B_HUMAN
Tissue specificity: Expressed in liver and kidney (at protein level). Ubiquitously expressed.

Evidence on tissue expression from TISSUES for RBM4B Gene

  • Nervous system(4.7)
  • Lung(3)
genes like me logo Genes that share expression patterns with RBM4B: 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 RBM4B Gene

Orthologs for RBM4B Gene

This gene was present in the common ancestor of animals.

Orthologs for RBM4B Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia RBM4B 29 30
  • 99.16 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia RBM4B 29 30
  • 93.59 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia RBM4B 29 30
  • 92.48 (n)
OneToOne
Mouse
(Mus musculus)
Mammalia Rbm4b 29 16 30
  • 89.54 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Rbm4b 29
  • 89.54 (n)
Platypus
(Ornithorhynchus anatinus)
Mammalia RBM4B 30
  • 74 (a)
OneToOne
Chicken
(Gallus gallus)
Aves -- 30
  • 92 (a)
OneToMany
LOC100859276 29
  • 62.02 (n)
Lizard
(Anolis carolinensis)
Reptilia -- 30
  • 76 (a)
OneToMany
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia rbm4b 29
  • 58.41 (n)
MGC75893 29
Zebrafish
(Danio rerio)
Actinopterygii rbm4.1 29 30
  • 61.6 (n)
ManyToMany
rbm4.2 30
  • 46 (a)
ManyToMany
rbm4.3 30
  • 43 (a)
ManyToMany
wufc25a01 29
Rainbow Trout
(Oncorhynchus mykiss)
Actinopterygii Omy.10235 29
Fruit Fly
(Drosophila melanogaster)
Insecta lark 30
  • 33 (a)
OneToMany
Worm
(Caenorhabditis elegans)
Secernentea rnp-1 30
  • 23 (a)
OneToMany
Sea Squirt
(Ciona savignyi)
Ascidiacea -- 30
  • 22 (a)
OneToMany
Species where no ortholog for RBM4B was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium 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)
  • Oppossum (Monodelphis domestica)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • 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 RBM4B Gene

ENSEMBL:
Gene Tree for RBM4B (if available)
TreeFam:
Gene Tree for RBM4B (if available)
Aminode:
Evolutionary constrained regions (ECRs) for RBM4B: view image
Alliance of Genome Resources:
Additional Orthologs for RBM4B

Paralogs for RBM4B Gene

(14) SIMAP similar genes for RBM4B Gene using alignment to 5 proteins:

  • RBM4B_HUMAN
  • E9PLB0_HUMAN
  • E9PM61_HUMAN
  • H0YDG8_HUMAN
  • U3KQD5_HUMAN

Pseudogenes.org Pseudogenes for RBM4B Gene

genes like me logo Genes that share paralogs with RBM4B: view

Variants for RBM4B Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for RBM4B Gene

SNP ID Clinical significance and condition Chr 11 pos Variation AA Info Type
VAR_064766 -- p.Glu93Val

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for RBM4B Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for RBM4B Gene

Variant ID Type Subtype PubMed ID
nsv518919 CNV loss 19592680
nsv522277 CNV loss 19592680
nsv975197 CNV duplication 23825009

Variation tolerance for RBM4B Gene

Residual Variation Intolerance Score: 21.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.96; 19.82% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for RBM4B Gene

Human Gene Mutation Database (HGMD)
RBM4B
SNPedia medical, phenotypic, and genealogical associations of SNPs for
RBM4B
Leiden Open Variation Database (LOVD)
RBM4B

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RBM4B Gene

Disorders for RBM4B Gene

MalaCards: The human disease database

(1) MalaCards diseases for RBM4B Gene - From: COP

Disorder Aliases PubMed IDs
episodic ataxia, type 6
  • ea6
- elite association - COSMIC cancer census association via MalaCards
Search RBM4B in MalaCards View complete list of genes associated with diseases

Additional Disease Information for RBM4B

genes like me logo Genes that share disorders with RBM4B: view

No data available for UniProtKB/Swiss-Prot and Genatlas for RBM4B Gene

Publications for RBM4B Gene

  1. The LARK/RBM4a protein is highly expressed in cerebellum as compared to cerebrum. (PMID: 18708123) Pfuhl T … Grässer FA (Neuroscience letters 2008) 2 3 4
  2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4
  4. A novel splicing regulator shares a nuclear import pathway with SR proteins. (PMID: 12628928) Lai MC … Tarn WY (The EMBO journal 2003) 3 4
  5. Functional proteomic analysis of human nucleolus. (PMID: 12429849) Scherl A … Diaz JJ (Molecular biology of the cell 2002) 3 4

Products for RBM4B Gene

Sources for RBM4B Gene