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Aliases for RBM42 Gene

Aliases for RBM42 Gene

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

External Ids for RBM42 Gene

Previous GeneCards Identifiers for RBM42 Gene

  • GC19P040812
  • GC19P036119
  • GC19P032625
  • GC19P035694
  • GC19P035817
  • GC19P035841
  • GC19P035997

Summaries for RBM42 Gene

GeneCards Summary for RBM42 Gene

RBM42 (RNA Binding Motif Protein 42) is a Protein Coding gene. 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.

No data available for Entrez Gene Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RBM42 Gene

Genomics for RBM42 Gene

Regulatory Elements for RBM42 Gene

Enhancers for RBM42 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH19F035202 1.7 FANTOM5 Ensembl ENCODE 62.5 -423.5 -423489 6.1 HDGF PKNOX1 WRNIP1 ARID4B SIN3A DMAP1 YBX1 ZNF2 YY1 ZNF302 TMEM147-AS1 RBM42 ZNF792 KIAA0355 HAUS5 KMT2B ENSG00000267049 SDHAF1 LRFN3 LOC101927572
GH19F035946 1.6 FANTOM5 Ensembl ENCODE 55.4 +318.5 318463 1.0 HDGF ARNT ARID4B SIN3A FEZF1 ZNF2 ZNF302 ZNF416 ZNF143 ZNF548 ZNF345 ZNF850 ZNF567 TMEM147-AS1 KMT2B HAUS5 ZNF792 RBM42 ZNF146 ZNF790-AS1
GH19F035457 1.7 FANTOM5 Ensembl ENCODE 41.1 -167.9 -167930 6.6 HDGF PKNOX1 WRNIP1 ZFP64 ARID4B YBX1 YY1 SLC30A9 ZNF263 SP3 TMEM147-AS1 HAUS5 KMT2B RBM42 ZNF146 ZNF792 ENSG00000267049 SDHAF1 ZFP82 LRFN3
GH19F035429 1.6 FANTOM5 Ensembl ENCODE 43 -198.2 -198193 2.4 PKNOX1 ZNF493 ZFP64 ZNF155 ZEB1 ZNF354C ZNF138 KLF7 ZNF548 ZNF202 TMEM147-AS1 HAUS5 KMT2B ZNF792 RBM42 ZNF146 ZFP82 ENSG00000267049 SDHAF1 LINC00665
GH19F034994 1.8 FANTOM5 Ensembl ENCODE 36.1 -628.1 -628099 13.5 HDGF PKNOX1 MLX ARID4B SIN3A YBX1 DMAP1 ZNF2 YY1 SLC30A9 TMEM147-AS1 KMT2B ZNF792 LSM14A GRAMD1A HAUS5 RBM42 ENSG00000267049 KIAA0355 ENSG00000269086
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around RBM42 on UCSC Golden Path with GeneCards custom track

Promoters for RBM42 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000044096 70 1801 HDGF PKNOX1 CREB3L1 MLX ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1

Genomic Location for RBM42 Gene

Chromosome:
19
Start:
35,629,030 bp from pter
End:
35,637,686 bp from pter
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 Lys 430
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for RBM42 Gene

Domains & Families for RBM42 Gene

Gene Families for RBM42 Gene

Protein Domains for RBM42 Gene

Suggested Antigen Peptide Sequences for RBM42 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9BTD8

UniProtKB/Swiss-Prot:

RBM42_HUMAN :
  • Contains 1 RRM (RNA recognition motif) domain.
  • Belongs to the RRM RBM42 family.
Domain:
  • Contains 1 RRM (RNA recognition motif) domain.
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.

Gene Ontology (GO) - Molecular Function for RBM42 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000166 nucleotide binding IEA --
GO:0003676 nucleic acid binding IEA --
GO:0003723 RNA binding IEA --
GO:0005515 protein binding IPI 25416956
GO:0044822 poly(A) RNA binding IDA 22658674
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

miRNA for RBM42 Gene

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

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 5
cytosol 3
mitochondrion 2

Gene Ontology (GO) - Cellular Components for RBM42 Gene

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

Pathways & Interactions for RBM42 Gene

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

Transcripts for RBM42 Gene

Unigene Clusters for RBM42 Gene

RNA binding motif protein 42:
Representative Sequences:

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

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 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, PaxDb, 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
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 and mRNA Expression by UniProt/SwissProt 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 34 35
  • 99.86 (n)
dog
(Canis familiaris)
Mammalia RBM42 34
  • 92.14 (n)
cow
(Bos Taurus)
Mammalia RBM42 34 35
  • 91.59 (n)
mouse
(Mus musculus)
Mammalia Rbm42 34 16 35
  • 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
rice
(Oryza sativa)
Liliopsida Os.35508 34
wheat
(Triticum aestivum)
Liliopsida Ta.4695 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)

Paralogs for RBM42 Gene

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

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 Sequence Context AA Info Type
rs10407553 -- 35,635,135(+) catgg(G/T)gaaat intron-variant
rs10415370 -- 35,628,387(+) CTATT(A/C)CCCTT upstream-variant-2KB
rs10439089 -- 35,627,959(+) cacct(A/G)taatc upstream-variant-2KB
rs111334738 -- 35,631,947(+) CAGCT(A/G)TAATC intron-variant
rs111924025 -- 35,630,538(+) CAAGG(C/T)GGGTA intron-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)

Relevant External Links for RBM42 Gene

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

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

Relevant External Links for RBM42

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
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 Cells 2009) 3 4 64
  2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg R.L. … Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002) 2 3 64
  3. Temporal proteomics of NGF-TrkA signaling identifies an inhibitory role for the E3 ligase Cbl-b in neuroblastoma cell differentiation. (PMID: 25921289) Emdal K.B. … Olsen J.V. (Sci Signal 2015) 3 64
  4. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3 64
  5. Panorama of ancient metazoan macromolecular complexes. (PMID: 26344197) Wan C. … Emili A. (Nature 2015) 3 64

Products for RBM42 Gene

Sources for RBM42 Gene

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