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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
  • GC16P089589

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 Metabolism. GO annotations related to this gene include poly(A) RNA binding and structural constituent of ribosome.

Gene Wiki entry for RPL13 Gene

Additional gene information 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
GH16H089558 1.7 Ensembl ENCODE dbSUPER 41.3 +2.0 1969 7 MLX DMAP1 YY1 SLC30A9 ZNF143 SP3 NFYC SSRP1 ZNF610 GLIS1 ANKRD11 AFG3L1P TCF25 ZC3H18 ENSG00000259877 ENSG00000268218 RPL13 LOC101927863 MC1R ACSF3
GH16H089503 1.8 FANTOM5 ENCODE dbSUPER 26.4 -53.7 -53674 6 MLX ZFP64 FEZF1 DMAP1 YY1 SLC30A9 ZNF143 SP3 NFYC SSRP1 AFG3L1P MC1R ANKRD11 ZC3H18 ENSG00000268218 SPG7 TCF25 LOC101927863 RPL13 ACSF3
GH16H089480 2.1 FANTOM5 Ensembl ENCODE dbSUPER 16.6 -73.9 -73904 12 HDGF PKNOX1 MLX ARNT ARID4B SIN3A FEZF1 DMAP1 ZNF2 ZBTB7B SPG7 ZNF778 ZC3H18 AFG3L1P MC1R ANKRD11 ENSG00000259877 RPL13 TCF25 RNU6-430P
GH16H088809 1.4 ENCODE dbSUPER 22.1 -749.4 -749380 4 HNRNPUL1 HDGF PKNOX1 MLX ARNT ZFP64 ARID4B SIN3A FEZF1 DMAP1 ENSG00000259877 ANKRD11 ZC3H18 SNORD68 LOC101927863 GALNS ENSG00000268218 RPL13 ENSG00000260121 ACSF3
GH16H089556 1.4 Ensembl ENCODE dbSUPER 21.1 -3.2 -3188 1 PKNOX1 ARID4B DNMT3B RAD21 ZNF143 RCOR1 RUNX3 MIXL1 SMARCA5 NR2F2 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 PKNOX1 MLX ARID4B SIN3A DMAP1 ZNF2 ZBTB7B YY1 SLC30A9

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 isoforms=123, Lys174, and isoforms=2177
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for RPL13 Gene

Domains & Families for RPL13 Gene

Gene Families for RPL13 Gene

Human Protein Atlas (HPA):
  • Plasma proteins
  • Predicted intracellular proteins
  • Ribosomal proteins

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

Function for RPL13 Gene

Molecular function for RPL13 Gene

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

Phenotypes From GWAS Catalog for RPL13 Gene

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

CRISPR Products

miRNA for RPL13 Gene

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for RPL13
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

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

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (4)
  • Endoplasmic reticulum (4)
  • Nucleoli (4)
See all subcellular structures

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 IBA,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 1993
Thalidomide Approved, Investigational, Withdrawn Pharma Immunomodulatory agent,sedative drug,angiogenesis inhibitor, Immunomodulatory agents, TNF-alpha synthesis inhibitor 1173
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:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for RPL13
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

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 33 34
  • 99.05 (n)
oppossum
(Monodelphis domestica)
Mammalia RPL13 34
  • 98 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia RPL13 34
  • 96 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Rpl13-ps3 34
  • 95 (a)
OneToMany
Rpl13 33 34
  • 86.89 (n)
Rpl13-ps6 16
cow
(Bos Taurus)
Mammalia RPL13 33 34
  • 90.21 (n)
dog
(Canis familiaris)
Mammalia RPL13 33 34
  • 89.57 (n)
rat
(Rattus norvegicus)
Mammalia Rpl13 33
  • 86.1 (n)
chicken
(Gallus gallus)
Aves RPL13 33 34
  • 79.94 (n)
lizard
(Anolis carolinensis)
Reptilia RPL13 34
  • 92 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia rpl13 33
  • 76.94 (n)
MGC75681 33
zebrafish
(Danio rerio)
Actinopterygii rpl13 33 34
  • 76.94 (n)
fruit fly
(Drosophila melanogaster)
Insecta RpL13 35 33 34
  • 64.84 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP001805 33
  • 64.68 (n)
worm
(Caenorhabditis elegans)
Secernentea rpl-13 33 34
  • 60.84 (n)
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_ADR257C 33
  • 54.55 (n)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0E22001g 33
  • 52.6 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes RPL13B 33 34
  • 51.68 (n)
RPL13A 34 36
  • 50 (a)
OneToMany
thale cress
(Arabidopsis thaliana)
eudicotyledons AT5G23900 33
  • 54.39 (n)
rice
(Oryza sativa)
Liliopsida Os03g0576700 33
  • 56.22 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.7858 34
  • 64 (a)
OneToOne
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes rpl13 33
  • 58.33 (n)
bread mold
(Neurospora crassa)
Ascomycetes NCU05554 33
  • 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 (Nature genetics 2004) 3 4 60
  2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 60
  3. A map of 75 human ribosomal protein genes. (PMID: 9582194) Kenmochi N … Page DC (Genome research 1998) 2 3 60
  4. Isolation and characterization of a novel gene with differential expression in benign and malignant human breast tumours. (PMID: 1301162) Adams SM … Varley JM (Human molecular genetics 1992) 3 4 60
  5. Site-specific mapping of the human SUMO proteome reveals co-modification with phosphorylation. (PMID: 28112733) Hendriks IA … Nielsen ML (Nature structural & molecular biology 2017) 4 60

Products for RPL13 Gene

Sources for RPL13 Gene

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