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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
  • GC16P089593

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 Influenza Viral RNA Transcription and Replication. Gene Ontology (GO) annotations related to this gene include 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

GeneHancer (GH) Regulatory Elements for RPL13 Gene

Promoters and enhancers for RPL13 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
GH16I089558 Promoter/Enhancer 2.5 EPDnew Ensembl ENCODE dbSUPER 602.3 +2.0 1969 7.9 CLOCK MLX DMAP1 YY1 SLC30A9 ZNF213 E2F8 ZNF143 SP3 NFYC RPL13 SNORD68 GC16P089560 GC16P089561 PIR32702 AFG3L1P ANKRD11 TCF25 ENSG00000268218 ENSG00000259877
GH16I089503 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 26.4 -53.7 -53674 6.1 CLOCK MLX ZFP64 FEZF1 DMAP1 YY1 SLC30A9 E2F8 ZNF143 SP3 SPG7 LOC101927863 AFG3L1P MC1R RPL13 ENSG00000268218 ANKRD11 ZC3H18 TCF25 ACSF3
GH16I088809 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 22.1 -749.4 -749380 4.4 CLOCK MLX ZFP64 FEZF1 DMAP1 YY1 ZNF213 E2F8 ZNF143 ZNF548 APRT ENSG00000259877 SNORD68 GALNS ANKRD11 LOC101927863 RPL13 ENSG00000260121 ZC3H18 ACSF3
GH16I089920 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE dbSUPER 22.2 +361.6 361617 4.2 MLX ZFP64 ARID4B SIN3A DMAP1 ZNF2 POLR2B FOS DEK PAF1 TUBB3 ENSG00000259006 ANKRD11 SNORD68 ACSF3 RPL13 TCF25 ENSG00000268218 ENSG00000259877 AFG3L1P
GH16I089480 Promoter/Enhancer 2.9 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 16.6 -73.9 -73903 12 CLOCK MLX FEZF1 DMAP1 IRF4 YY1 SLC30A9 E2F8 ZNF143 ZNF548 ANKRD11 SPG7 ZNF778 ZC3H18 AFG3L1P MC1R ENSG00000259877 RPL13 TCF25 RNU6-430P
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around RPL13 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the RPL13 gene promoter:

Genomic Locations for RPL13 Gene

Genomic Locations for RPL13 Gene
chr16:89,560,657-89,566,829
(GRCh38/hg38)
Size:
6,173 bases
Orientation:
Plus strand
chr16:89,627,065-89,630,950
(GRCh37/hg19)

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, isoforms=2174, 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 TAS,IBA --
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

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 HDA,IDA 21630459
GO:0005730 nucleolus IDA --
GO:0005783 endoplasmic reticulum IDA --
GO:0005829 cytosol TAS --
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 2040
Thalidomide Approved, Investigational, Withdrawn Pharma Immunomodulatory agent,sedative drug,angiogenesis inhibitor, TNF-alpha synthesis inhibitor, Immunomodulatory agents 1195
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

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

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 Variation AA Info Type
rs1000041999 -- 89,563,015(+) A/G coding_sequence_variant, synonymous_variant
rs1000505502 -- 89,566,178(+) G/A 3_prime_UTR_variant
rs1000677952 -- 89,567,139(+) A/G downstream_transcript_variant
rs1000776510 -- 89,564,140(+) T/C 3_prime_UTR_variant
rs1000993157 -- 89,563,803(+) G/C 3_prime_UTR_variant

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)

Additional Variant Information for RPL13 Gene

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

SNP Genotyping and Copy Number Assay Products

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

Disorders for RPL13 Gene

Additional Disease Information for 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 58
  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 58
  3. A map of 75 human ribosomal protein genes. (PMID: 9582194) Kenmochi N … Page DC (Genome research 1998) 2 3 58
  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 58
  5. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58

Products for RPL13 Gene

Sources for RPL13 Gene

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