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Aliases for RBM4B Gene

Aliases for RBM4B Gene

  • RNA Binding Motif Protein 4B 2 3 5
  • RNA-Binding Motif Protein 30 3 4
  • RBM30 3 4
  • 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 4B 3
  • RNA-Binding Protein 30 4
  • ZCCHC21B 3
  • ZCCHC15 3
  • ZCRB3B 3
  • RBM4L 3

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. 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 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).

Additional gene information for RBM4B Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RBM4B Gene

Genomics for RBM4B Gene

GeneHancer (GH) Regulatory Elements for RBM4B Gene

Promoters and enhancers for RBM4B 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
GH11I066676 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 550.8 +0.1 100 2.8 HDGF PKNOX1 CLOCK SMAD1 MLX ARNT ARID4B SIN3A FEZF1 DMAP1 GC11P066677 RBM4B RN7SL12P SPTBN2 C11orf80 LRFN4 PC ACTN3 ZDHHC24 RBM14-RBM4
GH11I065886 Promoter/Enhancer 2.7 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 20.2 +782.5 782463 18.4 CLOCK ZFP64 FEZF1 DMAP1 YY1 SLC30A9 E2F8 ZNF143 ZNF263 SP3 FOSL1 FIBP CCDC85B SNX32 ENSG00000258297 EIF1AD RBM14 MUS81 SART1 POLA2
GH11I067482 Promoter/Enhancer 2.5 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 13.7 -807.4 -807446 6.3 HDGF PKNOX1 MLX ARNT ZFP64 ARID4B SIN3A DMAP1 YBX1 ZNF2 AIP GC11P067486 PTPRCAP RBM4B KMT5B RBM14 BBS1 CARNS1 ENSG00000258297 RBM4
GH11I067116 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE dbSUPER 13.8 -441.8 -441782 5.7 PKNOX1 ARID4B SIN3A DMAP1 IRF4 YY1 POLR2B ZNF766 ZNF207 SP3 KDM2A ENSG00000258297 RBM14 ENSG00000254461 LOC105369352 RBM4 RCE1 RAD9A ENSG00000245156 ENSG00000255320
GH11I065833 Promoter/Enhancer 1.8 EPDnew Ensembl ENCODE 16.6 +844.1 844054 1.6 HDGF PKNOX1 ATF1 SMAD1 NFIB ZSCAN4 PLRG1 KLF5 EGR1 ZNF207 SNX32 MRPL11 ZFPL1 LOC105369352 EIF1AD RBM4B BBS1 NAALADL1 POLA2 MUS81
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around RBM4B on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the RBM4B gene promoter:

Genomic Locations for RBM4B Gene

Genomic Locations for RBM4B Gene
chr11:66,664,994-66,677,921
(GRCh38/hg38)
Size:
12,928 bases
Orientation:
Minus strand
chr11:66,432,469-66,445,392
(GRCh37/hg19)

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

No Post-translational modifications

No data available for DME Specific Peptides for RBM4B Gene

Domains & Families for RBM4B Gene

Gene Families for RBM4B Gene

Suggested Antigen Peptide Sequences for RBM4B Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

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

No data available for 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:0003723 RNA binding HDA,IEA 22658674
GO:0005515 protein binding IPI 15840172
GO:0008270 zinc ion binding IEA --
GO:0046872 metal 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:

miRNA for RBM4B Gene

miRTarBase miRNAs that target RBM4B

Clone Products

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 5
extracellular 1
mitochondrion 1
peroxisome 1

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:0043234 protein complex IDA 15840172
genes like me logo Genes that share ontologies with RBM4B: view

Pathways & Interactions for RBM4B Gene

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:0006397 mRNA processing IEA --
GO:0006417 regulation of translation ISS --
GO:0007623 circadian rhythm ISS --
GO:0008380 RNA splicing IEA --
GO:0010628 positive regulation of gene expression IEA --
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

Unigene Clusters for RBM4B Gene

RNA binding motif protein 4B:
Representative Sequences:

Clone Products

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

No ASD Table

Relevant External Links for RBM4B Gene

GeneLoc Exon Structure for
RBM4B
ECgene alternative splicing isoforms for
RBM4B

Expression for RBM4B Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP 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, PaxDb, MaxQB, and MOPED for RBM4B Gene



Protein tissue co-expression partners for RBM4B Gene

NURSA nuclear receptor signaling pathways regulating expression of RBM4B Gene:

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 33 34
  • 99.16 (n)
dog
(Canis familiaris)
Mammalia RBM4B 33 34
  • 93.59 (n)
cow
(Bos Taurus)
Mammalia RBM4B 33 34
  • 92.48 (n)
mouse
(Mus musculus)
Mammalia Rbm4b 33 16 34
  • 89.54 (n)
rat
(Rattus norvegicus)
Mammalia Rbm4b 33
  • 89.54 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia RBM4B 34
  • 74 (a)
OneToOne
chicken
(Gallus gallus)
Aves -- 34
  • 92 (a)
OneToMany
LOC100859276 33
  • 62.02 (n)
lizard
(Anolis carolinensis)
Reptilia -- 34
  • 76 (a)
OneToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia rbm4b 33
  • 58.41 (n)
MGC75893 33
zebrafish
(Danio rerio)
Actinopterygii rbm4.1 33 34
  • 61.6 (n)
rbm4.2 34
  • 46 (a)
ManyToMany
rbm4.3 34
  • 43 (a)
ManyToMany
wufc25a01 33
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.10235 33
fruit fly
(Drosophila melanogaster)
Insecta lark 34
  • 33 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea rnp-1 34
  • 23 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 22 (a)
OneToMany
Species where no ortholog for RBM4B 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)
  • 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 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)

Paralogs for RBM4B Gene

Paralogs for RBM4B Gene

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

Pseudogenes.org Pseudogenes for RBM4B Gene

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

Variants for RBM4B Gene

Sequence variations from dbSNP and Humsavar for RBM4B Gene

SNP ID Clin Chr 11 pos Variation AA Info Type
rs1000076214 -- 66,674,214(-) C/T intron_variant
rs1000263036 -- 66,670,807(-) C/A intron_variant
rs1000650113 -- 66,675,108(-) T/C intron_variant
rs1000670481 -- 66,666,498(-) A/C intron_variant
rs1001116273 -- 66,673,695(-) G/A intron_variant

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

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RBM4B

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

Disorders for RBM4B Gene

Additional Disease Information for RBM4B

No disorders were found for RBM4B Gene.

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

Publications for RBM4B Gene

  1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  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 58
  3. A novel splicing regulator shares a nuclear import pathway with SR proteins. (PMID: 12628928) Lai MC … Tarn WY (The EMBO journal 2003) 3 4 58
  4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg RL … Mammalian Gene Collection Program Team (Proceedings of the National Academy of Sciences of the United States of America 2002) 2 3 58
  5. Functional proteomic analysis of human nucleolus. (PMID: 12429849) Scherl A … Diaz JJ (Molecular biology of the cell 2002) 3 4 58

Products for RBM4B Gene

Sources for RBM4B Gene

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