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Aliases for RPL13 Gene

Aliases for RPL13 Gene

  • Ribosomal Protein L13 2 3 5
  • Large Ribosomal Subunit Protein EL13 3 4
  • Breast Basic Conserved Protein 1 3 4
  • BBC1 3 4
  • 60S Ribosomal Protein L13 3
  • OK/SW-Cl.46 3
  • D16S444E 3
  • D16S44E 3
  • L13 3

External Ids for RPL13 Gene

Previous GeneCards Identifiers for RPL13 Gene

  • GC16P081509
  • GC16P090614
  • GC16P089330
  • GC16P089370
  • GC16P088154
  • GC16P089630
  • GC16P089631
  • GC16P075322
  • GC16P089633
  • GC16P089637
  • GC16P089650
  • GC16P089659
  • GC16P089669
  • GC16P089562
  • GC16P089570
  • GC16P089576
  • GC16P089580
  • GC16P089584

Summaries for RPL13 Gene

Entrez Gene Summary for RPL13 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 60S subunit. The protein belongs to the L13E family of ribosomal proteins. It is located in the cytoplasm. This gene is expressed at significantly higher levels in benign breast lesions than in breast carcinomas. Alternatively spliced transcript variants encoding distinct isoforms have been found for this gene. As is typical for genes encoding ribosomal proteins, there are multiple processed pseudogenes of this gene dispersed through the genome. [provided by RefSeq, Jul 2011]

GeneCards Summary for RPL13 Gene

RPL13 (Ribosomal Protein L13) is a Protein Coding gene. Among its related pathways are Viral mRNA Translation and rRNA processing in the nucleus and cytosol. GO annotations related to this gene include poly(A) RNA binding and structural constituent of ribosome.

Gene Wiki entry for RPL13 Gene

No data available for CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RPL13 Gene

Genomics for RPL13 Gene

Regulatory Elements for RPL13 Gene

Enhancers for RPL13 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
GH16G089503 1.8 FANTOM5 ENCODE dbSUPER 35.2 -53.7 -53674 6.1 MLX CREB3L1 AGO1 ZFP64 FEZF1 DMAP1 YY1 SLC30A9 ZNF143 SP3 RPL13 SPG7 SNORD68 ENSG00000268218 AFG3L1P MC1R RNU6-430P ENSG00000260279 ZNF778 LOC101927863
GH16G089558 1.7 Ensembl ENCODE dbSUPER 31.7 +2.0 1969 7.9 CREB3L1 MLX AGO1 DMAP1 YY1 SLC30A9 ZNF143 ZNF263 SP3 NFYC ENSG00000259877 RPL13 AFG3L1P MC1R SPG7 LINC00304 CTU2 LOC101927863 CDK10 SNORD68
GH16G089440 1.9 FANTOM5 Ensembl ENCODE dbSUPER 20 -117.8 -117775 5.8 HNRNPUL1 PKNOX1 FOXA2 CREB3L1 ZFP64 ARID4B SIN3A DMAP1 ZNF2 YY1 SPG7 ENSG00000268218 RPL13 AFG3L1P MC1R DBNDD1 ZNF778 SNORD68 ENSG00000260279 LOC101927863
GH16G089480 2.1 FANTOM5 Ensembl ENCODE dbSUPER 16.6 -73.9 -73904 12.0 MLX CREB3L1 FEZF1 DMAP1 YY1 SLC30A9 ZNF143 ZNF548 SP3 NFYC SPG7 RPL13 ZNF778 RNU6-430P SNORD68 MC1R AFG3L1P ENSG00000260121 ZNF276 ANKRD11
GH16G089556 1.4 Ensembl ENCODE dbSUPER 21.1 -3.2 -3188 1.4 ELF3 PKNOX1 ARID4B DNMT3B ZNF48 RAD21 ZNF143 MIXL1 NR2F2 TGIF2 RPL13 RNU6-430P CDK10 PIR57136
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around RPL13 on UCSC Golden Path with GeneCards custom track

Promoters for RPL13 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000089740 243 1801 HDGF HNRNPUL1 PKNOX1 MLX CREB3L1 AGO1 ARID4B SIN3A DMAP1 ZNF2

Genomic Location for RPL13 Gene

Chromosome:
16
Start:
89,560,657 bp from pter
End:
89,566,829 bp from pter
Size:
6,173 bases
Orientation:
Plus strand

Genomic View for RPL13 Gene

Genes around RPL13 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RPL13 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RPL13 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RPL13 Gene

Proteins for RPL13 Gene

  • Protein details for RPL13 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P26373-RL13_HUMAN
    Recommended name:
    60S ribosomal protein L13
    Protein Accession:
    P26373
    Secondary Accessions:
    • B4DLX3
    • F5H1S2
    • Q3KQT8
    • Q567Q8
    • Q9BPX0

    Protein attributes for RPL13 Gene

    Size:
    211 amino acids
    Molecular mass:
    24261 Da
    Quaternary structure:
    No Data Available

    Three dimensional structures from OCA and Proteopedia for RPL13 Gene

    Alternative splice isoforms for RPL13 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for RPL13 Gene

Post-translational modifications for RPL13 Gene

  • Ubiquitination at Lys123, Lys174, and Lys177
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for RPL13 Gene

Domains & Families for RPL13 Gene

Protein Domains for RPL13 Gene

Graphical View of Domain Structure for InterPro Entry

P26373

UniProtKB/Swiss-Prot:

RL13_HUMAN :
  • Belongs to the eukaryotic ribosomal protein eL13 family.
Family:
  • Belongs to the eukaryotic ribosomal protein eL13 family.
genes like me logo Genes that share domains with RPL13: view

No data available for Gene Families for RPL13 Gene

Function for RPL13 Gene

Molecular function for RPL13 Gene

GENATLAS Biochemistry:
60S ribosomal protein 13,underexpressed in hormone refractory prostate cancer

Gene Ontology (GO) - Molecular Function for RPL13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IDA,TAS 22658674
GO:0003735 structural constituent of ribosome TAS,NAS 12962325
GO:0005515 protein binding IPI 17474147
genes like me logo Genes that share ontologies with RPL13: view
genes like me logo Genes that share phenotypes with RPL13: view

Animal Model Products

miRNA for RPL13 Gene

Inhibitory RNA Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for RPL13 Gene

Localization for RPL13 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 RPL13 gene
Compartment Confidence
nucleus 5
cytosol 5
mitochondrion 1

Gene Ontology (GO) - Cellular Components for RPL13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005622 intracellular IEA --
GO:0005634 nucleus IDA 21630459
GO:0005829 cytosol TAS --
GO:0005840 ribosome IEA --
GO:0016020 membrane IDA 19946888
genes like me logo Genes that share ontologies with RPL13: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for RPL13 Gene

Pathways & Interactions for RPL13 Gene

genes like me logo Genes that share pathways with RPL13: view

Pathways by source for RPL13 Gene

1 KEGG pathway for RPL13 Gene
1 GeneGo (Thomson Reuters) pathway for RPL13 Gene

Gene Ontology (GO) - Biological Process for RPL13 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 TAS,NAS 12962325
GO:0006413 translational initiation TAS --
GO:0006614 SRP-dependent cotranslational protein targeting to membrane TAS --
genes like me logo Genes that share ontologies with RPL13: view

No data available for SIGNOR curated interactions for RPL13 Gene

Drugs & Compounds for RPL13 Gene

(2) Drugs for RPL13 Gene - From: PharmGKB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Docetaxel Approved May 1996, Investigational Pharma Microtubulin disassembly inhibitor, Tubulin and VEGF inhibitor, Taxanes, Microtubule stabilizer 1967
Thalidomide Approved, Investigational, Withdrawn Pharma Immunomodulatory agent,sedative drug,angiogenesis inhibitor, Immunomodulatory agents, TNF-alpha synthesis inhibitor 1142
genes like me logo Genes that share compounds with RPL13: view

Transcripts for RPL13 Gene

Unigene Clusters for RPL13 Gene

Ribosomal protein L13:
Representative Sequences:

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for RPL13 Gene

ExUns: 1a · 1b ^ 2a · 2b ^ 3a · 3b · 3c · 3d ^ 4a · 4b ^ 5a · 5b ^ 6a · 6b · 6c · 6d ^ 7a · 7b · 7c · 7d · 7e
SP1: - - - - -
SP2: -
SP3:
SP4: - - - - - - -
SP5: -
SP6: - - - - -
SP7: - -
SP8:
SP9: -
SP10: - -

Relevant External Links for RPL13 Gene

GeneLoc Exon Structure for
RPL13
ECgene alternative splicing isoforms for
RPL13

Expression for RPL13 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for RPL13 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for RPL13 Gene

This gene is overexpressed in Tlymphocyte (7.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for RPL13 Gene



Protein tissue co-expression partners for RPL13 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of RPL13 Gene:

RPL13

SOURCE GeneReport for Unigene cluster for RPL13 Gene:

Hs.410817

mRNA Expression by UniProt/SwissProt for RPL13 Gene:

P26373-RL13_HUMAN
Tissue specificity: Higher levels of expression in benign breast lesions than in carcinomas.

Evidence on tissue expression from TISSUES for RPL13 Gene

  • Nervous system(5)
  • Lung(4.8)
  • Pancreas(4.8)
  • Eye(4.6)
  • Liver(4.6)
  • Skin(4.6)
  • Intestine(4.4)
  • Kidney(4.4)
  • Muscle(4.3)
  • Stomach(3.4)
  • Blood(2.9)
  • Heart(2.7)
  • Spleen(2.7)
  • Lymph node(2.6)
  • Bone(2.5)
  • Bone marrow(2.4)
  • Adrenal gland(2.3)
  • Gall bladder(2.3)
  • Thyroid gland(2.2)
genes like me logo Genes that share expression patterns with RPL13: view

Primer Products

No data available for mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for RPL13 Gene

Orthologs for RPL13 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for RPL13 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RPL13 34 35
  • 99.05 (n)
oppossum
(Monodelphis domestica)
Mammalia RPL13 35
  • 98 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia RPL13 35
  • 96 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Rpl13-ps3 35
  • 95 (a)
OneToMany
Rpl13 34 35
  • 86.89 (n)
Rpl13-ps6 16
cow
(Bos Taurus)
Mammalia RPL13 34 35
  • 90.21 (n)
dog
(Canis familiaris)
Mammalia RPL13 35 34
  • 89.57 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Rpl13 34
  • 86.1 (n)
chicken
(Gallus gallus)
Aves RPL13 34 35
  • 79.94 (n)
lizard
(Anolis carolinensis)
Reptilia RPL13 35
  • 92 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia rpl13 34
  • 76.94 (n)
MGC75681 34
zebrafish
(Danio rerio)
Actinopterygii rpl13 34 35
  • 76.94 (n)
fruit fly
(Drosophila melanogaster)
Insecta RpL13 36 34 35
  • 64.84 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP001805 34
  • 64.68 (n)
worm
(Caenorhabditis elegans)
Secernentea rpl-13 34 35
  • 60.84 (n)
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_ADR257C 34
  • 54.55 (n)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0E22001g 34
  • 52.6 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes RPL13B 34 35
  • 51.68 (n)
RPL13A 35 37
  • 50 (a)
OneToMany
thale cress
(Arabidopsis thaliana)
eudicotyledons AT5G23900 34
  • 54.39 (n)
rice
(Oryza sativa)
Liliopsida Os03g0576700 34
  • 56.22 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.7858 35
  • 64 (a)
OneToOne
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes rpl13 34
  • 58.33 (n)
bread mold
(Neurospora crassa)
Ascomycetes NCU05554 34
  • 55.93 (n)
Species where no ortholog for RPL13 was found in the sources mined by GeneCards:
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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)
  • corn (Zea mays)
  • 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)
  • rainbow trout (Oncorhynchus mykiss)
  • 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)
  • wheat (Triticum aestivum)

Evolution for RPL13 Gene

ENSEMBL:
Gene Tree for RPL13 (if available)
TreeFam:
Gene Tree for RPL13 (if available)

Paralogs for RPL13 Gene

No data available for Paralogs for RPL13 Gene

Variants for RPL13 Gene

Sequence variations from dbSNP and Humsavar for RPL13 Gene

SNP ID Clin Chr 16 pos Sequence Context AA Info Type
rs1000041999 -- 89,563,015(+) GCCGC(A/G)GAACA reference, synonymous-codon
rs1000505502 -- 89,566,178(+) CATGG(A/G)GCCAG utr-variant-3-prime
rs1000677952 -- 89,567,139(+) AAAAA(A/G)AAAAA downstream-variant-500B
rs1000776510 -- 89,564,140(+) GCAGC(C/T)TCAGG utr-variant-3-prime
rs1000993157 -- 89,563,803(+) AGCTT(C/G)TTGTG utr-variant-3-prime

Structural Variations from Database of Genomic Variants (DGV) for RPL13 Gene

Variant ID Type Subtype PubMed ID
esv2715169 CNV deletion 23290073
esv2758670 CNV gain 17122850
esv3639587 CNV loss 21293372
esv3639588 CNV gain 21293372
esv994856 CNV insertion 20482838
nsv1063483 CNV gain 25217958
nsv1066382 CNV gain 25217958
nsv1110707 CNV insertion 24896259
nsv1133225 CNV tandem duplication 24896259
nsv428331 CNV gain+loss 18775914
nsv471118 CNV gain 18288195
nsv482951 CNV loss 15286789
nsv509639 CNV insertion 20534489
nsv573738 CNV loss 21841781

Variation tolerance for RPL13 Gene

Residual Variation Intolerance Score: 32.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 5.50; 71.79% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for RPL13 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RPL13

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RPL13 Gene

Disorders for RPL13 Gene

Relevant External Links for RPL13

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
RPL13

No disorders were found for RPL13 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for RPL13 Gene

Publications for RPL13 Gene

  1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  2. 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
  3. A map of 75 human ribosomal protein genes. (PMID: 9582194) Kenmochi N. … Page D.C. (Genome Res. 1998) 2 3 64
  4. Isolation and characterization of a novel gene with differential expression in benign and malignant human breast tumours. (PMID: 1301162) Adams S.M. … Varley J.M. (Hum. Mol. Genet. 1992) 3 4 64
  5. The scaffold protein KSR1, a novel therapeutic target for the treatment of Merlin-deficient tumors. (PMID: 26549023) Zhou L. … Hanemann C.O. (Oncogene 2016) 3 64

Products for RPL13 Gene

Sources for RPL13 Gene

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