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
  • RNA-Binding Protein 38 3 4
  • HSRNASEB 3 4
  • RNPC1 3 4
  • RNA-Binding Motif Protein 38 4
  • 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. Diseases associated with RBM38 include Lung Cancer and Erythema Infectiosum. 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 Summary 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.
  • (Microbial infection) Essential factor for the splicing of the pre-mRNAs of human parvovirus B19 (B19V) and for the expression of B19V 11-kDa protein, which enhances viral replication.

Additional gene information for RBM38 Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for RBM38 Gene

Genomics for RBM38 Gene

GeneHancer (GH) Regulatory Elements for RBM38 Gene

Promoters and enhancers for RBM38 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 RBM38 on UCSC Golden Path with GeneCards custom track

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for RBM38

Top Transcription factor binding sites by QIAGEN in the RBM38 gene promoter:
  • AML1a
  • ATF6
  • c-Ets-1
  • C/EBPalpha
  • CUTL1
  • NF-kappaB
  • NF-kappaB1
  • PPAR-gamma2
  • RelA
  • Sox5

Genomic Locations for RBM38 Gene

Genomic Locations for RBM38 Gene
chr20:57,391,396-57,409,333
(GRCh38/hg38)
Size:
17,938 bases
Orientation:
Plus strand
chr20:55,966,454-55,984,389
(GRCh37/hg19)
Size:
17,936 bases
Orientation:
Plus strand

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=Truncated N-terminus.; Evidence={ECO:0000305}; Sequence=AAL99924.1; Type=Erroneous initiation; Note=Truncated N-terminus.; 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

Blocks:
  • RNA-binding region RNP-1 (RNA recognition motif)
InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for RBM38 Gene

GenScript: Design optimal peptide antigens:
  • RNA-binding region (RNP1, RRM) containing 1, isoform CRA_a (E1P603_HUMAN)
  • ssDNA-binding protein SEB4 (RBM38_HUMAN)

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 Function:
(Microbial infection) Essential factor for the splicing of the pre-mRNAs of human parvovirus B19 (B19V) and for the expression of B19V 11-kDa protein, which enhances viral replication.
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,IBA 21873635
GO:0003729 mRNA binding IBA 21873635
GO:0003730 mRNA 3'-UTR binding IBA 21873635
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

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for RBM38

Clone 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
plasma membrane 1
extracellular 1
cytoskeleton 1
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 IBA 21873635
GO:0005737 cytoplasm IEA --
GO:0005829 cytosol IBA 21873635
GO:1990904 ribonucleoprotein complex IBA 21873635
genes like me logo Genes that share ontologies with RBM38: view

Pathways & Interactions for RBM38 Gene

PathCards logo

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 IBA 21873635
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

mRNA/cDNA for RBM38 Gene

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

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for RBM38

Clone 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

Expression for RBM38 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and 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, MaxQB, and MOPED for RBM38 Gene



Protein tissue co-expression partners for RBM38 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for 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 31 30
  • 98.61 (n)
OneToMany
-- 31
  • 97 (a)
OneToMany
dog
(Canis familiaris)
Mammalia RBM38 31
  • 94 (a)
OneToOne
cow
(Bos Taurus)
Mammalia RBM38 31 30
  • 92.47 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Rbm38 17 31 30
  • 89.17 (n)
oppossum
(Monodelphis domestica)
Mammalia RBM38 31
  • 75 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia RBM38 31
  • 69 (a)
OneToOne
chicken
(Gallus gallus)
Aves RBM38 31
  • 74 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia RBM38 31
  • 72 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia rbm38 30
  • 74.8 (n)
Str.15196 30
African clawed frog
(Xenopus laevis)
Amphibia LOC398603 30
zebrafish
(Danio rerio)
Actinopterygii rbm38 31 30
  • 68.95 (n)
OneToOne
rnpc1 30
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.6474 30
worm
(Caenorhabditis elegans)
Secernentea sup-12 31
  • 42 (a)
OneToMany
rice
(Oryza sativa)
Liliopsida Os.15114 30
sea squirt
(Ciona savignyi)
Ascidiacea CSA.10652 31
  • 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)
Aminode:
Evolutionary constrained regions (ECRs) for RBM38: view image

Paralogs for RBM38 Gene

Variants for RBM38 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for RBM38 Gene

SNP ID Clinical significance and condition Chr 20 pos Variation AA Info Type
782630 Benign: not provided 57,407,639(+) G/A SYNONYMOUS_VARIANT,THREE_PRIME_UTR_VARIANT
789858 Benign: not provided 57,391,643(+) C/T MISSENSE_VARIANT
rs1065288 - p.Ala178Val
rs1065289 - p.Ala200Asp
rs1065290 - p.Pro212His

Additional dbSNP identifiers (rs#s) for RBM38 Gene

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

MalaCards: The human disease database

(3) MalaCards diseases for RBM38 Gene - From: LncRNADisease and DISEASES

Disorder Aliases PubMed IDs
lung cancer
  • adenocarcinoma of lung
erythema infectiosum
  • fifth disease
viral exanthem
- elite association - COSMIC cancer census association via MalaCards
Search RBM38 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for RBM38

genes like me logo Genes that share disorders with RBM38: view

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

Publications for RBM38 Gene

  1. RNA Binding Protein RBM38 Regulates Expression of the 11-Kilodalton Protein of Parvovirus B19, Which Facilitates Viral DNA Replication. (PMID: 29437973) Ganaie SS … Qiu J (Journal of virology 2018) 3 4 54
  2. Genome-wide association of lipid-lowering response to statins in combined study populations. (PMID: 20339536) Barber MJ … Krauss RM (PloS one 2010) 3 41 54
  3. Genome-wide association study of hematological and biochemical traits in a Japanese population. (PMID: 20139978) Kamatani Y … Kamatani N (Nature genetics 2010) 3 41 54
  4. ESRP1 and ESRP2 are epithelial cell-type-specific regulators of FGFR2 splicing. (PMID: 19285943) Warzecha CC … Carstens RP (Molecular cell 2009) 3 4 54
  5. 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 54

Products for RBM38 Gene

Sources for RBM38 Gene