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Aliases for RBM38 Gene

Aliases for RBM38 Gene

  • RNA Binding Motif Protein 38 2 3 5
  • RNA-Binding Region (RNP1, RRM) Containing 1 2 3
  • RNA-Binding Region-Containing Protein 1 3 4
  • CLL-Associated Antigen KW-5 3 4
  • SsDNA-Binding Protein SEB4 3 4
  • HSRNASEB 3 4
  • RNPC1 3 4
  • RNA-Binding Motif Protein 38 4
  • RNA-Binding Protein 38 3
  • DJ800J21.2 3
  • SEB4B 3
  • SEB4D 3
  • SEB4 4

External Ids for RBM38 Gene

Previous HGNC Symbols for RBM38 Gene

  • RNPC1

Previous GeneCards Identifiers for RBM38 Gene

  • GC20P055400
  • GC20P055966
  • GC20P052749

Summaries for RBM38 Gene

GeneCards Summary for RBM38 Gene

RBM38 (RNA Binding Motif Protein 38) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include nucleic acid binding and nucleotide binding. An important paralog of this gene is RBM24.

UniProtKB/Swiss-Prot for RBM38 Gene

  • RNA-binding protein that specifically bind the 3-UTR of CDKN1A transcripts, leading to maintain the stability of CDKN1A transcripts, thereby acting as a mediator of the p53/TP53 family to regulate CDKN1A. CDKN1A is a cyclin-dependent kinase inhibitor transcriptionally regulated by the p53/TP53 family to induce cell cycle arrest. Isoform 1, but not isoform 2, has the ability to induce cell cycle arrest in G1 and maintain the stability of CDKN1A transcripts induced by p53/TP53. Also acts as a mRNA splicing factor. Specifically regulates the expression of FGFR2-IIIb, an epithelial cell-specific isoform of FGFR2. Plays a role in myogenic differentiation.

Additional gene information for RBM38 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 RBM38 Gene

Genomics for RBM38 Gene

GeneHancer (GH) Regulatory Elements for RBM38 Gene

Promoters and enhancers for RBM38 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
GH20I057388 Promoter/Enhancer 2.8 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 552.5 +4.0 3978 13.2 HDGF PKNOX1 SMAD1 ARNT NEUROD1 SIN3A DMAP1 YBX1 ZBTB7B IRF4 RBM38 PPP4R1L ENSG00000280387 ZBP1 LOC100291105 BMP7 CASS4 PMEPA1 MTRNR2L3 PIR61563
GH20I057439 Enhancer 1.9 VISTA FANTOM5 Ensembl ENCODE dbSUPER 31.7 +50.0 50021 5.6 PKNOX1 NFIB NFXL1 BMI1 ZBTB7B RAD21 RFX5 YY1 ELK1 HSF1 RBM38 FAM209A GCNT7 LOC100291105 ENSG00000280387 PIR61563
GH20I057349 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 10.9 -40.0 -39962 3 ARID4B SIN3A DMAP1 ZNF2 ZBTB7B YY1 POLR2B E2F8 ZNF207 ZNF143 LOC105372687 RAE1 RBM38 LOC100291105 BMP7 MTND1P9
GH20I057480 Enhancer 1.4 FANTOM5 Ensembl ENCODE dbSUPER 12.5 +89.9 89934 2.1 BATF ZNF143 ATF7 ETV6 BCLAF1 RUNX3 SMAD5 CBFB JUNB ELF1 LOC100291105 RBM38 ZBP1 PMEPA1 HMGB1P1 LOC105372688
GH20I057409 Enhancer 1.4 FANTOM5 ENCODE dbSUPER 11.7 +18.4 18400 2.4 HDGF PKNOX1 SMAD1 ARNT NEUROD1 ZBTB7B POLR2B ZNF766 E2F8 ZNF207 ENSG00000280387 FAM209A GCNT7 PPP4R1L RBM38 CTCFL ZBP1 LOC100291105 PIR61563
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around RBM38 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the RBM38 gene promoter:

Genomic Locations for RBM38 Gene

Genomic Locations for RBM38 Gene
chr20:57,391,398-57,409,333
(GRCh38/hg38)
Size:
17,936 bases
Orientation:
Plus strand
chr20:55,966,454-55,984,389
(GRCh37/hg19)

Genomic View for RBM38 Gene

Genes around RBM38 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RBM38 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RBM38 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RBM38 Gene

Proteins for RBM38 Gene

  • Protein details for RBM38 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9H0Z9-RBM38_HUMAN
    Recommended name:
    RNA-binding protein 38
    Protein Accession:
    Q9H0Z9
    Secondary Accessions:
    • A6NDK1
    • A6NMU6
    • Q15350
    • Q15351
    • Q9BYK3
    • Q9BYK4

    Protein attributes for RBM38 Gene

    Size:
    239 amino acids
    Molecular mass:
    25498 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=AAH18711.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=AAL99924.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=CAA53064.1; Type=Miscellaneous discrepancy; Note=Chimeric cDNA.; Evidence={ECO:0000305}; Sequence=EAW75522.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for RBM38 Gene

    Alternative splice isoforms for RBM38 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for RBM38 Gene

Post-translational modifications for RBM38 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for RBM38 Gene

Domains & Families for RBM38 Gene

Gene Families for RBM38 Gene

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

Protein Domains for RBM38 Gene

Suggested Antigen Peptide Sequences for RBM38 Gene

Graphical View of Domain Structure for InterPro Entry

Q9H0Z9

UniProtKB/Swiss-Prot:

RBM38_HUMAN :
  • Belongs to the RBM38 family.
Family:
  • Belongs to the RBM38 family.
genes like me logo Genes that share domains with RBM38: view

Function for RBM38 Gene

Molecular function for RBM38 Gene

UniProtKB/Swiss-Prot Function:
RNA-binding protein that specifically bind the 3-UTR of CDKN1A transcripts, leading to maintain the stability of CDKN1A transcripts, thereby acting as a mediator of the p53/TP53 family to regulate CDKN1A. CDKN1A is a cyclin-dependent kinase inhibitor transcriptionally regulated by the p53/TP53 family to induce cell cycle arrest. Isoform 1, but not isoform 2, has the ability to induce cell cycle arrest in G1 and maintain the stability of CDKN1A transcripts induced by p53/TP53. Also acts as a mRNA splicing factor. Specifically regulates the expression of FGFR2-IIIb, an epithelial cell-specific isoform of FGFR2. Plays a role in myogenic differentiation.
UniProtKB/Swiss-Prot Induction:
By p53/TP53 family. Directly induced by p53/TP53, TP63/p63 and TP73/p73.

Phenotypes From GWAS Catalog for RBM38 Gene

Gene Ontology (GO) - Molecular Function for RBM38 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IEA,HDA 22658674
GO:0003729 mRNA binding IEA --
genes like me logo Genes that share ontologies with RBM38: view
genes like me logo Genes that share phenotypes with RBM38: view

Animal Models for RBM38 Gene

MGI Knock Outs for RBM38:

Animal Model Products

CRISPR Products

miRNA for RBM38 Gene

miRTarBase miRNAs that target RBM38

Inhibitory RNA Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for RBM38 Gene

Localization for RBM38 Gene

Subcellular locations from UniProtKB/Swiss-Prot for RBM38 Gene

Cytoplasm, cytosol. Nucleus.

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 RBM38 gene
Compartment Confidence
nucleus 5
cytosol 5
mitochondrion 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (3)
  • Nucleoplasm (3)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for RBM38 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005737 cytoplasm IEA --
GO:0005829 cytosol IEA --
genes like me logo Genes that share ontologies with RBM38: view

Pathways & Interactions for RBM38 Gene

SuperPathways for RBM38 Gene

No Data Available

SIGNOR curated interactions for RBM38 Gene

Is inactivated by:

Gene Ontology (GO) - Biological Process for RBM38 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006397 mRNA processing IEA --
GO:0007049 cell cycle IEA --
GO:0008380 RNA splicing IEA --
GO:0010830 regulation of myotube differentiation IEA --
GO:0030154 cell differentiation IEA --
genes like me logo Genes that share ontologies with RBM38: view

No data available for Pathways by source for RBM38 Gene

Drugs & Compounds for RBM38 Gene

No Compound Related Data Available

Transcripts for RBM38 Gene

Unigene Clusters for RBM38 Gene

RNA binding motif protein 38:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for RBM38 Gene

ExUns: 1 ^ 2a · 2b ^ 3 ^ 4a · 4b
SP1:
SP2: -

Relevant External Links for RBM38 Gene

GeneLoc Exon Structure for
RBM38
ECgene alternative splicing isoforms for
RBM38

Expression for RBM38 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for RBM38 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for RBM38 Gene

This gene is overexpressed in Whole Blood (x10.3) and Muscle - Skeletal (x4.7).

Protein differential expression in normal tissues from HIPED for RBM38 Gene

This gene is overexpressed in Heart (35.2), Peripheral blood mononuclear cells (9.6), CD8 Tcells (8.6), and NK cells (6.5).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for RBM38 Gene



Protein tissue co-expression partners for RBM38 Gene

NURSA nuclear receptor signaling pathways regulating expression of RBM38 Gene:

RBM38

SOURCE GeneReport for Unigene cluster for RBM38 Gene:

Hs.236361

Evidence on tissue expression from TISSUES for RBM38 Gene

  • Muscle(2.6)
  • Lung(2.3)
  • Eye(2.1)
genes like me logo Genes that share expression patterns with RBM38: view

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for RBM38 Gene

Orthologs for RBM38 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for RBM38 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RBM38 33 34
  • 98.61 (n)
-- 34
  • 97 (a)
OneToMany
dog
(Canis familiaris)
Mammalia RBM38 34
  • 94 (a)
OneToOne
cow
(Bos Taurus)
Mammalia RBM38 33 34
  • 92.47 (n)
mouse
(Mus musculus)
Mammalia Rbm38 33 16 34
  • 89.17 (n)
oppossum
(Monodelphis domestica)
Mammalia RBM38 34
  • 75 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia RBM38 34
  • 69 (a)
OneToOne
chicken
(Gallus gallus)
Aves RBM38 34
  • 74 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia RBM38 34
  • 72 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia rbm38 33
  • 74.8 (n)
Str.15196 33
African clawed frog
(Xenopus laevis)
Amphibia LOC398603 33
zebrafish
(Danio rerio)
Actinopterygii rbm38 33 34
  • 68.95 (n)
rnpc1 33
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.6474 33
worm
(Caenorhabditis elegans)
Secernentea sup-12 34
  • 42 (a)
OneToMany
rice
(Oryza sativa)
Liliopsida Os.15114 33
sea squirt
(Ciona savignyi)
Ascidiacea CSA.10652 34
  • 43 (a)
OneToMany
Species where no ortholog for RBM38 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)
  • fruit fly (Drosophila melanogaster)
  • 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)
  • rat (Rattus norvegicus)
  • 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 RBM38 Gene

ENSEMBL:
Gene Tree for RBM38 (if available)
TreeFam:
Gene Tree for RBM38 (if available)

Paralogs for RBM38 Gene

Variants for RBM38 Gene

Sequence variations from dbSNP and Humsavar for RBM38 Gene

SNP ID Clin Chr 20 pos Variation AA Info Type
rs1000052603 -- 57,398,703(+) C/T intron_variant
rs1000142457 -- 57,402,942(+) T/G intron_variant
rs1000260400 -- 57,404,707(+) G/A intron_variant
rs1000313099 -- 57,404,887(+) G/C intron_variant
rs1000416911 -- 57,398,881(+) T/C intron_variant

Structural Variations from Database of Genomic Variants (DGV) for RBM38 Gene

Variant ID Type Subtype PubMed ID
esv2722601 CNV deletion 23290073
esv2722602 CNV deletion 23290073
esv2722603 CNV deletion 23290073
esv33591 CNV loss 17666407
esv33697 CNV gain 17666407
esv3568078 CNV loss 25503493
nsv1055983 CNV gain 25217958
nsv1072124 CNV deletion 25765185
nsv3424 CNV insertion 18451855
nsv516617 CNV loss 19592680
nsv517912 CNV loss 19592680

Variation tolerance for RBM38 Gene

Residual Variation Intolerance Score: 65.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.45; 64.14% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for RBM38 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RBM38

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RBM38 Gene

Disorders for RBM38 Gene

Additional Disease Information for RBM38

No disorders were found for RBM38 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for RBM38 Gene

Publications for RBM38 Gene

  1. Genome-wide association study of hematological and biochemical traits in a Japanese population. (PMID: 20139978) Kamatani Y … Kamatani N (Nature genetics 2010) 3 44 58
  2. Genome-wide association of lipid-lowering response to statins in combined study populations. (PMID: 20339536) Barber MJ … Krauss RM (PloS one 2010) 3 44 58
  3. ESRP1 and ESRP2 are epithelial cell-type-specific regulators of FGFR2 splicing. (PMID: 19285943) Warzecha CC … Carstens RP (Molecular cell 2009) 3 4 58
  4. RNPC1, an RNA-binding protein and a target of the p53 family, is required for maintaining the stability of the basal and stress-induced p21 transcript. (PMID: 17050675) Shu L … Chen X (Genes & development 2006) 3 4 58
  5. 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

Products for RBM38 Gene

Sources for RBM38 Gene

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