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Aliases for RPS13 Gene

Aliases for RPS13 Gene

  • Ribosomal Protein S13 2 3 5
  • Small Ribosomal Subunit Protein US15 3 4
  • 40S Ribosomal Protein S13 2 3
  • S13 3

External Ids for RPS13 Gene

Previous GeneCards Identifiers for RPS13 Gene

  • GC11M018166
  • GC11M018039
  • GC11M017135
  • GC11M017060
  • GC11M017054
  • GC11M017055
  • GC11M016780
  • GC11M017095
  • GC11M017080
  • GC11M017085
  • GC11M017091
  • GC11M017103
  • GC11M017107

Summaries for RPS13 Gene

Entrez Gene Summary for RPS13 Gene

  • Ribosomes, the organelles that catalyze protein synthesis, consist of a small 40S subunit and a large 60S subunit. Together these subunits are composed of 4 RNA species and approximately 80 structurally distinct proteins. This gene encodes a ribosomal protein that is a component of the 40S subunit. The protein belongs to the S15P family of ribosomal proteins. It is located in the cytoplasm. The protein has been shown to bind to the 5.8S rRNA in rat. The gene product of the E. coli ortholog (ribosomal protein S15) functions at early steps in ribosome assembly. This gene is co-transcribed with two U14 small nucleolar RNA genes, which are located in its third and fifth introns. As is typical for genes encoding ribosomal proteins, there are multiple processed pseudogenes of this gene dispersed through the genome. [provided by RefSeq, Jul 2008]

GeneCards Summary for RPS13 Gene

RPS13 (Ribosomal Protein S13) is a Protein Coding gene. Diseases associated with RPS13 include Malignant Giant Cell Tumor and Autonomic Nervous System Neoplasm. Among its related pathways are Viral mRNA Translation and Activation of the mRNA upon binding of the cap-binding complex and eIFs, and subsequent binding to 43S. GO annotations related to this gene include poly(A) RNA binding and mRNA binding.

Gene Wiki entry for RPS13 Gene

No data available for CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RPS13 Gene

Genomics for RPS13 Gene

Regulatory Elements for RPS13 Gene

Enhancers for RPS13 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
GH11G016978 1.8 FANTOM5 Ensembl ENCODE dbSUPER 24.7 +93.3 93342 11.2 PKNOX1 ATF1 FOXA2 MLX ZFP64 ZNF133 ARID4B ZNF48 TCF12 FOS RPS13 OR7E14P PLEKHA7 SNORD14B ENSG00000260196 RPL36AP37
GH11G017313 1.4 FANTOM5 Ensembl ENCODE 19.4 -236.3 -236325 2.0 PKNOX1 ZBTB21 INSM2 ZEB1 ZNF324 ZNF316 ZNF366 ZSCAN5C ZNF600 GFI1B NCR3LG1 RPS13 SNORD14B GC11P017338 GC11M017256
GH11G017075 1.1 ENCODE 24.1 +0.4 357 3.6 HDGF PKNOX1 FOXA2 CREB3L1 ARNT ZFP64 ARID4B SIN3A DMAP1 YY1 RPS13 OR7E14P SNORD14A SNORD14B RPL36AP37 GC11M017076 GC11M017077 GC11M017078 GC11M017079
GH11G016919 1.8 FANTOM5 Ensembl ENCODE dbSUPER 10.5 +154.3 154347 7.1 HDGF PKNOX1 ZFP64 SIN3A ARID4B ZNF48 YY1 ZNF143 ZNF207 FOS OR7E14P PLEKHA7 RPL36AP37 RPS13 SNORD14B GC11M016974 RN7SKP90
GH11G016891 1.7 VISTA Ensembl ENCODE dbSUPER 10.5 +184.0 184041 4.9 FOXA2 TEAD4 HLF DPF2 EP300 CTBP1 NFIC ZFHX2 GATA3 SMARCA4 OR7E14P PLEKHA7 RPL36AP37 RPS13 SNORD14B RN7SKP90 GC11M016974
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around RPS13 on UCSC Golden Path with GeneCards custom track

Promoters for RPS13 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000037480 -127 2401 HDGF PKNOX1 FOXA2 CREB3L1 ARNT ZFP64 ARID4B SIN3A DMAP1 YY1

Genomic Location for RPS13 Gene

Chromosome:
11
Start:
17,074,389 bp from pter
End:
17,077,787 bp from pter
Size:
3,399 bases
Orientation:
Minus strand

Genomic View for RPS13 Gene

Genes around RPS13 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RPS13 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RPS13 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RPS13 Gene

Proteins for RPS13 Gene

  • Protein details for RPS13 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P62277-RS13_HUMAN
    Recommended name:
    40S ribosomal protein S13
    Protein Accession:
    P62277
    Secondary Accessions:
    • B2R549
    • P19116
    • Q02546
    • Q29200
    • Q498Y0

    Protein attributes for RPS13 Gene

    Size:
    151 amino acids
    Molecular mass:
    17222 Da
    Quaternary structure:
    No Data Available

    Three dimensional structures from OCA and Proteopedia for RPS13 Gene

neXtProt entry for RPS13 Gene

Post-translational modifications for RPS13 Gene

  • Ubiquitination at Lys9, isoforms=27, isoforms=34, Lys39, Lys43, Lys70, and isoforms=78
  • Modification sites at PhosphoSitePlus

Other Protein References for RPS13 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for RPS13 Gene

Domains & Families for RPS13 Gene

Gene Families for RPS13 Gene

Suggested Antigen Peptide Sequences for RPS13 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

P62277

UniProtKB/Swiss-Prot:

RS13_HUMAN :
  • Belongs to the universal ribosomal protein uS15 family.
Family:
  • Belongs to the universal ribosomal protein uS15 family.
genes like me logo Genes that share domains with RPS13: view

Function for RPS13 Gene

Molecular function for RPS13 Gene

GENATLAS Biochemistry:
60S ribosomal protein S13

Gene Ontology (GO) - Molecular Function for RPS13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IDA 22681889
GO:0003729 mRNA binding IDA 17881366
GO:0003735 structural constituent of ribosome IEA,IBA --
GO:0005515 protein binding IPI 12054647
GO:0048027 mRNA 5-UTR binding IDA 16213212
genes like me logo Genes that share ontologies with RPS13: view
genes like me logo Genes that share phenotypes with RPS13: view

Animal Model Products

miRNA for RPS13 Gene

miRTarBase miRNAs that target RPS13

Inhibitory RNA Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for RPS13 Gene

Localization for RPS13 Gene

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 RPS13 gene
Compartment Confidence
extracellular 5
nucleus 5
cytosol 5
mitochondrion 1

Gene Ontology (GO) - Cellular Components for RPS13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005622 intracellular IEA --
GO:0005634 nucleus IDA 17881366
GO:0005654 nucleoplasm TAS --
GO:0005730 nucleolus IDA 17881366
GO:0005829 cytosol TAS --
genes like me logo Genes that share ontologies with RPS13: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for RPS13 Gene

Pathways & Interactions for RPS13 Gene

SuperPathways for RPS13 Gene

SuperPathway Contained pathways
1 Viral mRNA Translation
.56
2 Activation of the mRNA upon binding of the cap-binding complex and eIFs, and subsequent binding to 43S
3 Influenza Viral RNA Transcription and Replication
4 rRNA processing in the nucleus and cytosol
5 HIV Life Cycle
.45
genes like me logo Genes that share pathways with RPS13: view

Gene Ontology (GO) - Biological Process for RPS13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay TAS --
GO:0006364 rRNA processing TAS --
GO:0006412 translation IC,IEA 8706699
GO:0006413 translational initiation TAS --
GO:0006614 SRP-dependent cotranslational protein targeting to membrane TAS --
genes like me logo Genes that share ontologies with RPS13: view

No data available for SIGNOR curated interactions for RPS13 Gene

Drugs & Compounds for RPS13 Gene

No Compound Related Data Available

Transcripts for RPS13 Gene

Unigene Clusters for RPS13 Gene

Ribosomal protein S13:
Representative Sequences:

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for RPS13 Gene

ExUns: 1a · 1b · 1c · 1d ^ 2 ^ 3a · 3b · 3c · 3d ^ 4 ^ 5 ^ 6
SP1:
SP2: - - -
SP3:
SP4:
SP5:

Relevant External Links for RPS13 Gene

GeneLoc Exon Structure for
RPS13
ECgene alternative splicing isoforms for
RPS13

Expression for RPS13 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for RPS13 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for RPS13 Gene

This gene is overexpressed in Nasal epithelium (11.8) and Tlymphocyte (6.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for RPS13 Gene



Protein tissue co-expression partners for RPS13 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of RPS13 Gene:

RPS13

SOURCE GeneReport for Unigene cluster for RPS13 Gene:

Hs.446588

Evidence on tissue expression from TISSUES for RPS13 Gene

  • Nervous system(4.9)
  • Muscle(4.8)
  • Liver(4.7)
  • Pancreas(4.7)
  • Bone(4.4)
  • Lung(4.1)
  • Blood(4)
  • Intestine(3.9)
  • Heart(3.5)
  • Spleen(3.3)
  • Lymph node(3)
  • Kidney(2.8)
  • Stomach(2.7)
  • Bone marrow(2.4)
  • Skin(2.4)
  • Eye(2.3)
  • Thyroid gland(2.3)
  • Adrenal gland(2.2)
  • Gall bladder(2.2)
genes like me logo Genes that share expression patterns with RPS13: view

Primer Products

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for RPS13 Gene

Orthologs for RPS13 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for RPS13 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RPS13 34
  • 99.78 (n)
oppossum
(Monodelphis domestica)
Mammalia RPS13 35
  • 99 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia RPS13 35
  • 99 (a)
OneToOne
cow
(Bos Taurus)
Mammalia -- 35
  • 98 (a)
OneToMany
RPS13 34 35
  • 90.51 (n)
dog
(Canis familiaris)
Mammalia RPS13 34
  • 91.39 (n)
mouse
(Mus musculus)
Mammalia Rps13 34 16 35
  • 86.98 (n)
chicken
(Gallus gallus)
Aves RPS13 34 35
  • 81.68 (n)
lizard
(Anolis carolinensis)
Reptilia RPS13 35
  • 100 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia rps13 34
  • 80.79 (n)
African clawed frog
(Xenopus laevis)
Amphibia rps13-prov 34
zebrafish
(Danio rerio)
Actinopterygii rps13 34 35
  • 78.15 (n)
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.13839 34
fruit fly
(Drosophila melanogaster)
Insecta RpS13 36 34 35
  • 71.08 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta RS13_ANOGA 34
  • 68.21 (n)
worm
(Caenorhabditis elegans)
Secernentea rps-13 36 34 35
  • 68.43 (n)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0F18040g 34
  • 67.11 (n)
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_AGL030W 34
  • 66.44 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes RPS13 34 35 37
  • 66.22 (n)
thale cress
(Arabidopsis thaliana)
eudicotyledons RPS13A 34
  • 66 (n)
rice
(Oryza sativa)
Liliopsida Os08g0117300 34
  • 62.69 (n)
Os.15168 34
wheat
(Triticum aestivum)
Liliopsida Ta.14203 34
corn
(Zea mays)
Liliopsida Zm.3223 34
sea squirt
(Ciona savignyi)
Ascidiacea CSA.11176 35
  • 88 (a)
OneToOne
bread mold
(Neurospora crassa)
Ascomycetes NCU03038 34
  • 68.21 (n)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes rps13 34
  • 65.56 (n)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.14352 34
Species where no ortholog for RPS13 was found in the sources mined by GeneCards:
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • 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)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)

Evolution for RPS13 Gene

ENSEMBL:
Gene Tree for RPS13 (if available)
TreeFam:
Gene Tree for RPS13 (if available)

Paralogs for RPS13 Gene

No data available for Paralogs for RPS13 Gene

Variants for RPS13 Gene

Sequence variations from dbSNP and Humsavar for RPS13 Gene

SNP ID Clin Chr 11 pos Sequence Context AA Info Type
rs1000196432 -- 17,076,445(+) CACCT(A/G)TTCGG intron-variant, upstream-variant-2KB
rs1000251438 -- 17,076,726(+) GAGTC(A/C/G)GAGAG intron-variant, upstream-variant-2KB
rs1000740367 -- 17,078,103(+) AGCAT(-/G)TGATG upstream-variant-2KB
rs1001198648 -- 17,074,916(+) GATTA(C/T)GTATT intron-variant, upstream-variant-2KB
rs1001651117 -- 17,075,176(+) AATCA(A/G)ACGGA upstream-variant-2KB, reference, synonymous-codon

Structural Variations from Database of Genomic Variants (DGV) for RPS13 Gene

Variant ID Type Subtype PubMed ID
nsv467711 CNV gain 19166990
nsv553567 CNV gain 21841781
nsv553568 CNV gain 21841781

Variation tolerance for RPS13 Gene

Residual Variation Intolerance Score: 37.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.03; 0.78% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for RPS13 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RPS13

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RPS13 Gene

Disorders for RPS13 Gene

MalaCards: The human disease database

(3) MalaCards diseases for RPS13 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
malignant giant cell tumor
  • malignant giant cell neoplasm
autonomic nervous system neoplasm
  • tumor of autonomic nervous system
peripheral nervous system neoplasm
  • neoplasm of peripheral nerve
- elite association - COSMIC cancer census association via MalaCards
Search RPS13 in MalaCards View complete list of genes associated with diseases

Relevant External Links for RPS13

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
RPS13
genes like me logo Genes that share disorders with RPS13: view

No data available for UniProtKB/Swiss-Prot and Genatlas for RPS13 Gene

Publications for RPS13 Gene

  1. Cloning and analysis of the human S13 ribosomal protein cDNA. (PMID: 8332508) Chadeneau C. … Denis M.G. (Nucleic Acids Res. 1993) 2 3 4 64
  2. Human ribosomal protein S13 regulates expression of its own gene at the splicing step by a feedback mechanism. (PMID: 17881366) Malygin A.A. … Karpova G.G. (Nucleic Acids Res. 2007) 3 22 64
  3. Immunoaffinity profiling of tyrosine phosphorylation in cancer cells. (PMID: 15592455) Rush J. … Comb M.J. (Nat. Biotechnol. 2005) 3 4 64
  4. Human ribosomal protein S13: cloning, expression, refolding, and structural stability. (PMID: 15680243) Malygin A. … Karpova G. (Biochim. Biophys. Acta 2005) 3 22 64
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64

Products for RPS13 Gene

Sources for RPS13 Gene

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