Free for academic non-profit institutions. Other users need a Commercial license

Aliases for RPL3 Gene

Aliases for RPL3 Gene

  • Ribosomal Protein L3 2 3 5
  • Large Ribosomal Subunit Protein UL3 3 4
  • HIV-1 TAR RNA-Binding Protein B 3 4
  • TARBP-B 3 4
  • 60S Ribosomal Protein L3 3
  • ASC-1 3
  • L3 3

External Ids for RPL3 Gene

Previous GeneCards Identifiers for RPL3 Gene

  • GC22M036323
  • GC22M037951
  • GC22M038033
  • GC22M038046
  • GC22M039710
  • GC22M039717
  • GC22M039719
  • GC22M039721
  • GC22M039723
  • GC22M039728
  • GC22M039821
  • GC22M040108
  • GC22M039333
  • GC22M039835
  • GC22M039847
  • GC22M039942
  • GC22M040631

Summaries for RPL3 Gene

Entrez Gene Summary for RPL3 Gene

  • Ribosomes, the complexes 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 L3P family of ribosomal proteins and it is located in the cytoplasm. The protein can bind to the HIV-1 TAR mRNA, and it has been suggested that the protein contributes to tat-mediated transactivation. This gene is co-transcribed with several small nucleolar RNA genes, which are located in several of this gene's introns. Alternate transcriptional splice variants, encoding different isoforms, have been characterized. 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 RPL3 Gene

RPL3 (Ribosomal Protein L3) is a Protein Coding gene. Diseases associated with RPL3 include Diamond-Blackfan Anemia and Hiv-1. 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. An important paralog of this gene is RPL3L.

UniProtKB/Swiss-Prot for RPL3 Gene

  • The L3 protein is a component of the large subunit of cytoplasmic ribosomes.

Gene Wiki entry for RPL3 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RPL3 Gene

Genomics for RPL3 Gene

Regulatory Elements for RPL3 Gene

Enhancers for RPL3 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
GH22G039404 1.7 FANTOM5 Ensembl ENCODE dbSUPER 11.3 -85.2 -85209 1.8 HDAC1 TBL1XR1 FEZF1 ZNF335 TCF12 GATA2 ZNF302 EGR2 CEBPB ZEB2 SYNGR1 MGAT3 RPL3 MIEF1 GC22M041803 TAB1
GH22G039388 1.5 FANTOM5 Ensembl ENCODE 11.2 -68.5 -68476 1.7 HDAC1 PKNOX1 ATF1 AGO1 ZSCAN4 DMAP1 EGR1 KLF7 CREM EGR2 SYNGR1 MGAT3 RPL3 MIEF1 CACNA1I CBX7 APOBEC3G APOBEC3D GC22P039386 PIR49666
GH22G039204 1.6 FANTOM5 Ensembl ENCODE dbSUPER 10.5 +113.5 113472 4.0 PKNOX1 ZSCAN4 KLF17 ZNF48 RARA EGR1 ZNF366 FOS EGR2 SMARCC1 FUNDC2P4 CBX7 PDGFB APOBEC3B-AS1 RPL3 MGAT3 GC22M041766 GC22M041308
GH22G039348 1.2 ENCODE dbSUPER 11.7 -30.4 -30406 3.9 HDGF PKNOX1 ZNF2 ZNF766 GLIS2 ELK1 ZNF263 SP3 JUNB REST SYNGR1 RPL3 SNORD83B PRDX3P1 JOSD1 GC22M041798
GH22G039212 1.3 Ensembl ENCODE dbSUPER 10.5 +106.0 106038 4.4 PKNOX1 RAD21 RARA ZNF121 ZNF143 FOS ZNF592 MAFF RAD51 NR2C1 FUNDC2P4 CBX7 PDGFB APOBEC3B-AS1 RPL3 GC22M041308 GC22M041766
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around RPL3 on UCSC Golden Path with GeneCards custom track

Promoters for RPL3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000146319 265 2401 PKNOX1 FOXA2 ARNT CREB3L1 WRNIP1 ARID4B SIN3A DMAP1 ZNF2 YY1

Genomic Location for RPL3 Gene

Chromosome:
22
Start:
39,312,882 bp from pter
End:
39,320,389 bp from pter
Size:
7,508 bases
Orientation:
Minus strand

Genomic View for RPL3 Gene

Genes around RPL3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RPL3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RPL3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RPL3 Gene

Proteins for RPL3 Gene

  • Protein details for RPL3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P39023-RL3_HUMAN
    Recommended name:
    60S ribosomal protein L3
    Protein Accession:
    P39023
    Secondary Accessions:
    • B2RDV9
    • Q15548
    • Q5I0G0

    Protein attributes for RPL3 Gene

    Size:
    403 amino acids
    Molecular mass:
    46109 Da
    Quaternary structure:
    • Interacts with METTL18.

    Three dimensional structures from OCA and Proteopedia for RPL3 Gene

neXtProt entry for RPL3 Gene

Post-translational modifications for RPL3 Gene

  • Ubiquitination at isoforms=39, Lys286, Lys300, and isoforms=366
  • Modification sites at PhosphoSitePlus

Other Protein References for RPL3 Gene

No data available for DME Specific Peptides for RPL3 Gene

Domains & Families for RPL3 Gene

Gene Families for RPL3 Gene

Protein Domains for RPL3 Gene

Graphical View of Domain Structure for InterPro Entry

P39023

UniProtKB/Swiss-Prot:

RL3_HUMAN :
  • Belongs to the universal ribosomal protein uL3 family.
Family:
  • Belongs to the universal ribosomal protein uL3 family.
genes like me logo Genes that share domains with RPL3: view

Function for RPL3 Gene

Molecular function for RPL3 Gene

GENATLAS Biochemistry:
60S ribosomal protein L3
UniProtKB/Swiss-Prot Function:
The L3 protein is a component of the large subunit of cytoplasmic ribosomes.

Gene Ontology (GO) - Molecular Function for RPL3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IDA,TAS 22658674
GO:0003735 structural constituent of ribosome IEA,NAS 12962325
GO:0005515 protein binding IPI 24965446
GO:0008097 5S rRNA binding IEA --
genes like me logo Genes that share ontologies with RPL3: view
genes like me logo Genes that share phenotypes with RPL3: view

Animal Model Products

Inhibitory RNA Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for RPL3 Gene

Localization for RPL3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for RPL3 Gene

Nucleus, nucleolus. Cytoplasm.

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 RPL3 gene
Compartment Confidence
extracellular 5
nucleus 5
cytosol 5
mitochondrion 1

Gene Ontology (GO) - Cellular Components for RPL3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005622 intracellular IEA --
GO:0005634 nucleus IEA,IDA 21630459
GO:0005730 nucleolus IDA 16791210
GO:0005737 cytoplasm IDA,IEA 16791210
GO:0005829 cytosol TAS,IDA --
genes like me logo Genes that share ontologies with RPL3: view

Pathways & Interactions for RPL3 Gene

genes like me logo Genes that share pathways with RPL3: view

Pathways by source for RPL3 Gene

1 KEGG pathway for RPL3 Gene
1 GeneGo (Thomson Reuters) pathway for RPL3 Gene

Gene Ontology (GO) - Biological Process for RPL3 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 NAS,IEA 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 RPL3: view

No data available for SIGNOR curated interactions for RPL3 Gene

Drugs & Compounds for RPL3 Gene

(5) Drugs for RPL3 Gene - From: DrugBank and FDA Approved Drugs

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Omacetaxine mepesuccinate Approved Pharma Target, antagonist 0
Synribo Approved October 2012 Pharma 0
Alpha-Hydroxy-Beta-Phenyl-Propionic Acid Experimental Pharma Target 0
Anisomycin Experimental Pharma Target JNK agonist, potent and specific 0
puromycin Experimental Pharma Target 0
genes like me logo Genes that share compounds with RPL3: view

Transcripts for RPL3 Gene

Unigene Clusters for RPL3 Gene

Ribosomal protein L3:
Representative Sequences:

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for RPL3 Gene

ExUns: 1 ^ 2a · 2b ^ 3a · 3b · 3c · 3d ^ 4a · 4b ^ 5a · 5b · 5c ^ 6a · 6b · 6c · 6d ^ 7a · 7b · 7c ^ 8a · 8b · 8c ^ 9 ^ 10a · 10b ^ 11 ^
SP1: - - - - - -
SP2: -
SP3: - - -
SP4: - - - - -
SP5: - -
SP6: - - - - - - - - - - - - - -
SP7: - - -
SP8: - - - - -
SP9: - - -
SP10: - - -
SP11: -
SP12:

ExUns: 12a · 12b
SP1:
SP2:
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11:
SP12:

Relevant External Links for RPL3 Gene

GeneLoc Exon Structure for
RPL3
ECgene alternative splicing isoforms for
RPL3

Expression for RPL3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for RPL3 Gene

Protein differential expression in normal tissues from HIPED for RPL3 Gene

This gene is overexpressed in Nasal epithelium (8.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for RPL3 Gene



Protein tissue co-expression partners for RPL3 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of RPL3 Gene:

RPL3

SOURCE GeneReport for Unigene cluster for RPL3 Gene:

Hs.119598

Evidence on tissue expression from TISSUES for RPL3 Gene

  • Intestine(5)
  • Liver(5)
  • Lung(5)
  • Muscle(5)
  • Skin(5)
  • Nervous system(5)
  • Eye(4.9)
  • Pancreas(4.9)
  • Blood(4.7)
  • Kidney(4.7)
  • Stomach(4.6)
  • Bone(4.4)
  • Thyroid gland(4.2)
  • Heart(3.6)
  • Lymph node(2.9)
  • Adrenal gland(2.8)
  • Bone marrow(2.8)
  • Gall bladder(2.7)
  • Spleen(2.7)
genes like me logo Genes that share expression patterns with RPL3: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for RPL3 Gene

Orthologs for RPL3 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for RPL3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RPL3 34
  • 99.65 (n)
oppossum
(Monodelphis domestica)
Mammalia RPL3 35
  • 96 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia RPL3 35
  • 95 (a)
OneToOne
dog
(Canis familiaris)
Mammalia RPL3 34 35
  • 91.56 (n)
cow
(Bos Taurus)
Mammalia RPL3 34 35
  • 90.49 (n)
rat
(Rattus norvegicus)
Mammalia Rpl3 34
  • 89.74 (n)
mouse
(Mus musculus)
Mammalia Rpl3 34 16 35
  • 89.16 (n)
chicken
(Gallus gallus)
Aves RPL3 34 35
  • 84.62 (n)
lizard
(Anolis carolinensis)
Reptilia RPL3 35
  • 95 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia rpl3 34
  • 81.22 (n)
Str.6702 34
African clawed frog
(Xenopus laevis)
Amphibia rpl3-prov 34
zebrafish
(Danio rerio)
Actinopterygii rpl3 34 35
  • 80.31 (n)
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.8466 34
fruit fly
(Drosophila melanogaster)
Insecta RpL3 36 34 35
  • 72.04 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP003556 34
  • 67.87 (n)
worm
(Caenorhabditis elegans)
Secernentea rpl-3 34 35
  • 69.17 (n)
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_ADR206W 34
  • 66.67 (n)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0F16511g 34
  • 63.04 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes RPL3 34 35 37
  • 62.86 (n)
thale cress
(Arabidopsis thaliana)
eudicotyledons RPL3B 34
  • 65.36 (n)
Alicante grape
(Vitis vinifera)
eudicotyledons Vvi.7639 34
barley
(Hordeum vulgare)
Liliopsida Hv.977 34
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 74 (a)
OneToMany
bread mold
(Neurospora crassa)
Ascomycetes NCU06843 34
  • 68.55 (n)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes rpl302 34
  • 64.59 (n)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.3689 34
Species where no ortholog for RPL3 was found in the sources mined by GeneCards:
  • Actinobacteria (Mycobacterium tuberculosis)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • 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)
  • rice (Oryza sativa)
  • 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 RPL3 Gene

ENSEMBL:
Gene Tree for RPL3 (if available)
TreeFam:
Gene Tree for RPL3 (if available)

Paralogs for RPL3 Gene

Variants for RPL3 Gene

Sequence variations from dbSNP and Humsavar for RPL3 Gene

SNP ID Clin Chr 22 pos Sequence Context AA Info Type
rs1000169001 -- 39,318,975(+) GCAAT(A/G)TTAAG intron-variant, downstream-variant-500B
rs1000192525 -- 39,316,190(+) GCTGA(A/G)ATAGG intron-variant, upstream-variant-2KB
rs1000218282 -- 39,314,088(+) CAGAG(A/C)AGAAC intron-variant, upstream-variant-2KB
rs1000404930 -- 39,314,290(+) AGCAC(A/G)CTAGA intron-variant, upstream-variant-2KB
rs1000428722 -- 39,316,470(+) TTCCA(A/G)GAGAG intron-variant, downstream-variant-500B, upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for RPL3 Gene

Variant ID Type Subtype PubMed ID
nsv589033 CNV loss 21841781
nsv834198 CNV loss 17160897
nsv964632 CNV duplication 23825009
nsv966110 CNV duplication 23825009
nsv979677 CNV duplication 23825009

Variation tolerance for RPL3 Gene

Residual Variation Intolerance Score: 15.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.48; 28.85% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for RPL3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RPL3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RPL3 Gene

Disorders for RPL3 Gene

MalaCards: The human disease database

(2) MalaCards diseases for RPL3 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
diamond-blackfan anemia
  • diamond-blackfan anemia 1
hiv-1
  • aids, slow progression to
- elite association - COSMIC cancer census association via MalaCards
Search RPL3 in MalaCards View complete list of genes associated with diseases

Relevant External Links for RPL3

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
RPL3
genes like me logo Genes that share disorders with RPL3: view

No data available for UniProtKB/Swiss-Prot and Genatlas for RPL3 Gene

Publications for RPL3 Gene

  1. A map of 75 human ribosomal protein genes. (PMID: 9582194) Kenmochi N. … Page D.C. (Genome Res. 1998) 2 3 4 64
  2. Molecular cloning and characterization of a TAR-binding nuclear factor from T cells. (PMID: 7576925) Reddy T.R. … Wong-Staal F. (AIDS Res. Hum. Retroviruses 1995) 3 4 22 64
  3. A newly uncovered group of distantly related lysine methyltransferases preferentially interact with molecular chaperones to regulate their activity. (PMID: 23349634) Cloutier P. … Coulombe B. (PLoS Genet. 2013) 3 4 64
  4. NOP132 is required for proper nucleolus localization of DEAD-box RNA helicase DDX47. (PMID: 16963496) Sekiguchi T. … Nishimoto T. (Nucleic Acids Res. 2006) 3 4 64
  5. Genes associated with telomerase activity levels in esophageal carcinoma cell lines. (PMID: 16364039) Bergqvist M. … Paulsson-Karlsson Y. (Dis. Esophagus 2006) 3 22 64

Products for RPL3 Gene

Sources for RPL3 Gene

Content
Loading form....