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Aliases for RBM42 Gene

Aliases for RBM42 Gene

  • RNA Binding Motif Protein 42 2 3 5
  • RNA-Binding Protein 42 3 4
  • RNA-Binding Motif Protein 42 4

External Ids for RBM42 Gene

Previous GeneCards Identifiers for RBM42 Gene

  • GC19P040812
  • GC19P036119
  • GC19P032625
  • GC19P035694
  • GC19P035817
  • GC19P037015
  • GC19P035841
  • GC19P035997
  • GC19P036163
  • GC19P036234
  • GC19P036406
  • GC19P036566
  • GC19P036735
  • GC19P036879

Summaries for RBM42 Gene

GeneCards Summary for RBM42 Gene

RBM42 (RNA Binding Motif Protein 42) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include nucleic acid binding and nucleotide binding.

UniProtKB/Swiss-Prot for RBM42 Gene

  • Binds (via the RRM domain) to the 3'-untranslated region (UTR) of CDKN1A mRNA.

Additional gene information for RBM42 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 RBM42 Gene

Genomics for RBM42 Gene

GeneHancer (GH) Regulatory Elements for RBM42 Gene

Promoters and enhancers for RBM42 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
GH19J035627 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 625 -0.1 -67 2.5 ZFX SP1 ELF3 CC2D1A SIX5 NKRF POLR2A CEBPG CSDE1 ZSCAN21 RBM42 PIR55956 ZNF566 PROSER3 TMEM147-AS1 ZNF529 ZNF146 HAUS5 KMT2B ZFP82
GH19J035641 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 86.5 +16.4 16397 8.4 SP1 ZFX ELF3 MNT SIX5 ZNF148 NKRF POLR2A MLLT1 ZNF121 ETV2 COX6B1 KMT2B RBM42 PROSER3 ZNF792 TMEM147-AS1 HAUS5 ZNF529 ENSG00000267049
GH19J035246 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 74.3 -380.8 -380776 4.1 ZNF473 MTA3 SP1 CTCF ZFX CC2D1A ELF3 MNT SIX5 CBFA2T2 LSR HAUS5 TMEM147-AS1 ZNF599 KMT2B RBM42 KIAA0355 ZNF792 ZNF30 ZNF302
GH19J035710 Promoter/Enhancer 2.5 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 49.7 +86.2 86163 10 SP1 ZFX CC2D1A ELF3 CTCF MNT SIX5 ZNF148 NKRF ZNF121 KMT2B ZBTB32 PIR52641 ZNF567 ZNF529 TMEM147-AS1 ZNF599 ZNF461 LINC01534 ZFP82
GH19J036052 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 58.7 +425.8 425771 4 SP1 ZFX MNT CBFA2T2 ZNF148 NKRF POLR2A MLLT1 ZNF121 CEBPG WDR62 THAP8 ZNF345 ZNF850 TMEM147-AS1 RBM42 ZNF567 ZNF566 KMT2B PROSER3
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around RBM42 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the RBM42 gene promoter:
  • E2F
  • E2F-1
  • E2F-2
  • E2F-3a
  • E2F-4
  • E2F-5
  • GATA-2
  • Gfi-1
  • IRF-7A
  • ZID

Genomic Locations for RBM42 Gene

Genomic Locations for RBM42 Gene
chr19:35,629,030-35,637,686
(GRCh38/hg38)
Size:
8,657 bases
Orientation:
Plus strand
chr19:36,119,932-36,128,588
(GRCh37/hg19)
Size:
8,657 bases
Orientation:
Plus strand

Genomic View for RBM42 Gene

Genes around RBM42 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RBM42 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RBM42 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RBM42 Gene

Proteins for RBM42 Gene

  • Protein details for RBM42 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9BTD8-RBM42_HUMAN
    Recommended name:
    RNA-binding protein 42
    Protein Accession:
    Q9BTD8
    Secondary Accessions:
    • O00320
    • Q8N5R7
    • Q9BU66

    Protein attributes for RBM42 Gene

    Size:
    480 amino acids
    Molecular mass:
    50414 Da
    Quaternary structure:
    • Interacts with HNRNPK.
    SequenceCaution:
    • Sequence=AAB57629.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

    Alternative splice isoforms for RBM42 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for RBM42 Gene

Post-translational modifications for RBM42 Gene

  • Ubiquitination at isoforms=2, 3, 4430
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for RBM42 Gene

Domains & Families for RBM42 Gene

Gene Families for RBM42 Gene

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

Suggested Antigen Peptide Sequences for RBM42 Gene

GenScript: Design optimal peptide antigens:
  • RNA-binding motif protein 42 (RBM42_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q9BTD8

UniProtKB/Swiss-Prot:

RBM42_HUMAN :
  • Belongs to the RRM RBM42 family.
Family:
  • Belongs to the RRM RBM42 family.
genes like me logo Genes that share domains with RBM42: view

Function for RBM42 Gene

Molecular function for RBM42 Gene

UniProtKB/Swiss-Prot Function:
Binds (via the RRM domain) to the 3'-untranslated region (UTR) of CDKN1A mRNA.

Phenotypes From GWAS Catalog for RBM42 Gene

Gene Ontology (GO) - Molecular Function for RBM42 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IBA,IEA 21873635
GO:0005515 protein binding IPI 25416956
genes like me logo Genes that share ontologies with RBM42: view
genes like me logo Genes that share phenotypes with RBM42: view

Animal Model Products

CRISPR Products

miRNA for RBM42 Gene

Clone Products

  • Applied Biological Materials (abm): Clones for RBM42 - Now 50% OFF >
  • * RBM42 as ready-to-use vector or virus: ORF | Lenti- | Retro- | Adeno- | AAV- | Protein Vector - Browse All
  • * RBM42 tags and reporters available: His, HA, Myc, Flag, GFP, RFP, Luciferase - Browse All

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for RBM42 Gene

Localization for RBM42 Gene

Subcellular locations from UniProtKB/Swiss-Prot for RBM42 Gene

Nucleus. Cytoplasm. Note=Upon stress response, localizes with HNRNPK in cytoplasmic aggregates of stalled translational preinitiation complexes called stress granules. {ECO:0000250}.

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 RBM42 gene
Compartment Confidence
nucleus 4
cytosol 3
mitochondrion 1

Subcellular locations from the

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

Gene Ontology (GO) - Cellular Components for RBM42 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005737 cytoplasm IEA --
GO:1990904 ribonucleoprotein complex IBA 21873635
genes like me logo Genes that share ontologies with RBM42: view

Pathways & Interactions for RBM42 Gene

PathCards logo

SuperPathways for RBM42 Gene

No Data Available

Gene Ontology (GO) - Biological Process for RBM42 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0048025 negative regulation of mRNA splicing, via spliceosome IEA --
genes like me logo Genes that share ontologies with RBM42: view

No data available for Pathways by source and SIGNOR curated interactions for RBM42 Gene

Drugs & Compounds for RBM42 Gene

No Compound Related Data Available

Transcripts for RBM42 Gene

mRNA/cDNA for RBM42 Gene

Unigene Clusters for RBM42 Gene

RNA binding motif protein 42:
Representative Sequences:

CRISPR Products

Clone Products

  • Applied Biological Materials (abm): Clones for RBM42 - Now 50% OFF >
  • * RBM42 as ready-to-use vector or virus: ORF | Lenti- | Retro- | Adeno- | AAV- | Protein Vector - Browse All
  • * RBM42 tags and reporters available: His, HA, Myc, Flag, GFP, RFP, Luciferase - Browse All

Alternative Splicing Database (ASD) splice patterns (SP) for RBM42 Gene

ExUns: 1a · 1b · 1c · 1d ^ 2 ^ 3a · 3b ^ 4a · 4b ^ 5 ^ 6a · 6b · 6c ^ 7 ^ 8 ^ 9 ^ 10 ^ 11a · 11b
SP1: -
SP2: - -
SP3: - - -
SP4: - - - - - - - - - -
SP5: - - -
SP6: - -
SP7:
SP8:
SP9:

Relevant External Links for RBM42 Gene

GeneLoc Exon Structure for
RBM42
ECgene alternative splicing isoforms for
RBM42

Expression for RBM42 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for RBM42 Gene

Protein differential expression in normal tissues from HIPED for RBM42 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (15.1) and Lung (13.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for RBM42 Gene



Protein tissue co-expression partners for RBM42 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of RBM42 Gene:

RBM42

SOURCE GeneReport for Unigene cluster for RBM42 Gene:

Hs.5086

Evidence on tissue expression from TISSUES for RBM42 Gene

  • Nervous system(4.8)
  • Lung(4.5)
  • Muscle(4.4)
  • Skin(3.1)
  • Intestine(2.9)
  • Eye(2.7)
genes like me logo Genes that share expression patterns with RBM42: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for RBM42 Gene

Orthologs for RBM42 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for RBM42 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RBM42 35 34
  • 99.86 (n)
OneToOne
dog
(Canis familiaris)
Mammalia RBM42 34
  • 92.14 (n)
cow
(Bos Taurus)
Mammalia RBM42 35 34
  • 91.59 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Rbm42 17 35 34
  • 89.73 (n)
rat
(Rattus norvegicus)
Mammalia Rbm42 34
  • 89.66 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia RBM42 35
  • 85 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia RBM42 35
  • 75 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia RBM42 35
  • 61 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.6145 34
zebrafish
(Danio rerio)
Actinopterygii rbm42 35
  • 59 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta CG2931 35
  • 41 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea tag-262 35
  • 42 (a)
OneToOne
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes PUB1 35
  • 13 (a)
OneToMany
soybean
(Glycine max)
eudicotyledons Gma.2093 34
Alicante grape
(Vitis vinifera)
eudicotyledons Vvi.3110 34
barley
(Hordeum vulgare)
Liliopsida Hv.4404 34
wheat
(Triticum aestivum)
Liliopsida Ta.4695 34
rice
(Oryza sativa)
Liliopsida Os.35508 34
corn
(Zea mays)
Liliopsida Zm.15567 34
Species where no ortholog for RBM42 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)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • 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 blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)

Evolution for RBM42 Gene

ENSEMBL:
Gene Tree for RBM42 (if available)
TreeFam:
Gene Tree for RBM42 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for RBM42: view image

Paralogs for RBM42 Gene

(3) SIMAP similar genes for RBM42 Gene using alignment to 5 proteins:

  • RBM42_HUMAN
  • K7EML2_HUMAN
  • K7EP90_HUMAN
  • K7EQ03_HUMAN
  • K7ER08_HUMAN
genes like me logo Genes that share paralogs with RBM42: view

No data available for Paralogs for RBM42 Gene

Variants for RBM42 Gene

Sequence variations from dbSNP and Humsavar for RBM42 Gene

SNP ID Clin Chr 19 pos Variation AA Info Type
rs1000042781 -- 35,627,353(+) C/A upstream_transcript_variant
rs1000562503 -- 35,627,770(+) C/T upstream_transcript_variant
rs1000656024 -- 35,632,315(+) T/C intron_variant
rs1001160935 -- 35,628,964(+) CCCCC/CCCC upstream_transcript_variant
rs1001166338 -- 35,628,754(+) G/T upstream_transcript_variant

Variation tolerance for RBM42 Gene

Residual Variation Intolerance Score: 16.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.92; 19.05% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for RBM42 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RBM42

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Structural Variations from Database of Genomic Variants (DGV) for RBM42 Gene

Disorders for RBM42 Gene

Additional Disease Information for RBM42

No disorders were found for RBM42 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for RBM42 Gene

Publications for RBM42 Gene

  1. hnRNP K interacts with RNA binding motif protein 42 and functions in the maintenance of cellular ATP level during stress conditions. (PMID: 19170760) Fukuda T … Irie K (Genes to cells : devoted to molecular & cellular mechanisms 2009) 2 3 4 58
  2. Discovery of a splicing regulator required for cell cycle progression. (PMID: 23437009) Suvorova ES … White MW (PLoS genetics 2013) 2 3 58
  3. Quantitative mapping of RNA-mediated nuclear estrogen receptor β interactome in human breast cancer cells. (PMID: 29509190) Giurato G … Tarallo R (Scientific data 2018) 3 58
  4. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58
  5. R2TP/Prefoldin-like component RUVBL1/RUVBL2 directly interacts with ZNHIT2 to regulate assembly of U5 small nuclear ribonucleoprotein. (PMID: 28561026) Cloutier P … Coulombe B (Nature communications 2017) 3 58

Products for RBM42 Gene

Sources for RBM42 Gene

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