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 L28E family of ribosomal proteins. It is located in t... See more...

Aliases for RPL28 Gene

Aliases for RPL28 Gene

  • Ribosomal Protein L28 2 3 5
  • 60S Ribosomal Protein L28 2 3 4
  • Large Ribosomal Subunit Protein EL28 3 4
  • L28 2 3
  • FLJ43307 2
  • RPL28 5

External Ids for RPL28 Gene

Previous GeneCards Identifiers for RPL28 Gene

  • GC19P056761
  • GC19P056320
  • GC19P060571
  • GC19P060589
  • GC19P055897
  • GC19P052219
  • GC19P055388
  • GC19P055498
  • GC19P055674

Summaries for RPL28 Gene

Entrez Gene Summary for RPL28 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 L28E family of ribosomal proteins. It is located in the cytoplasm. Variable expression of this gene in colorectal cancers compared to adjacent normal tissues has been observed, although no correlation between the level of expression and the severity of the disease has been found. As is typical for genes encoding ribosomal proteins, there are multiple processed pseudogenes of this gene dispersed through the genome. Alternative splicing results in multiple transcript variants encoding distinct isoforms.[provided by RefSeq, Oct 2008]

GeneCards Summary for RPL28 Gene

RPL28 (Ribosomal Protein L28) is a Protein Coding gene. Diseases associated with RPL28 include Albinism-Deafness Syndrome and Diamond-Blackfan Anemia. Among its related pathways are Viral mRNA Translation and rRNA processing in the nucleus and cytosol. Gene Ontology (GO) annotations related to this gene include structural constituent of ribosome.

UniProtKB/Swiss-Prot Summary for RPL28 Gene

Gene Wiki entry for RPL28 Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for RPL28 Gene

Genomics for RPL28 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for RPL28 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
GH19J055382 Promoter/Enhancer 2.4 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 271.3 +0.7 746 8.6 SP1 ZNF207 MYC ZNF600 SSRP1 ZNF580 ZNF592 POLR2A BRCA1 ZIC2 RPL28 HSALNG0127651 HSALNG0127652 TMEM238 MIR6805 piR-50436 IL11 ZNF628 FIZ1 ZNF542P
GH19J055246 Promoter/Enhancer 2.5 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 21 -132.1 -132073 14.5 BCLAF1 SP1 ZNF207 MYC NCOR1 IKZF1 ZNF600 JUND ZNF580 ZNF592 PPP6R1 LENG8 LENG8-AS1 ENSG00000235681 ZNF581 ENSG00000267523 ZNF628 ENSG00000267096 HSPBP1 RPL28
GH19J055215 Promoter/Enhancer 2 Ensembl ENCODE CraniofacialAtlas dbSUPER 18.6 -169.2 -169227 2.9 SP1 MYC NCOR1 IKZF1 ZNF600 JUND ZNF580 ZNF592 ZMYM3 ATF2 ENSG00000267649 ENSG00000286230 LENG8-AS1 U2AF2 LENG8 ENSG00000235681 ENSG00000267523 SSC5D ZNF580 KMT5C
GH19J055337 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 11.5 -46.0 -46021 4.2 SP1 ZNF207 IKZF1 JUND ZNF580 ATF2 CEBPA ZNF223 ZNF10 ATF3 KMT5C ENSG00000276831 HSALNG0127644 LENG8-AS1 LENG8 ENSG00000235681 ENSG00000267523 ENSG00000267096 ZNF580 FAM71E2
GH19J055406 Promoter/Enhancer 2.4 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas 11 +21.1 21097 4.5 SP1 ZNF207 IKZF1 NCOR1 MYC ZNF580 ZNF592 ZMYM3 ATF2 KLF9 UBE2S LOC105372462 lnc-RPL28-1-001 U2AF2 LENG8-AS1 LENG8 ENSG00000267523 EDDM13 ENSG00000235681 ENSG00000267838
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around RPL28 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for RPL28

Top Transcription factor binding sites by QIAGEN in the RPL28 gene promoter:
  • AML1a
  • HEN1
  • NF-1
  • Pax-5
  • PPAR-gamma1
  • PPAR-gamma2
  • STAT3
  • STAT5A

Genomic Locations for RPL28 Gene

Latest Assembly
chr19:55,385,932-55,403,342
(GRCh38/hg38)
Size:
17,411 bases
Orientation:
Plus strand

Previous Assembly
chr19:55,897,300-55,914,710
(GRCh37/hg19 by Entrez Gene)
Size:
17,411 bases
Orientation:
Plus strand

chr19:55,896,713-55,914,612
(GRCh37/hg19 by Ensembl)
Size:
17,900 bases
Orientation:
Plus strand

Genomic View for RPL28 Gene

Genes around RPL28 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RPL28 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RPL28 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RPL28 Gene

Proteins for RPL28 Gene

  • Protein details for RPL28 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P46779-RL28_HUMAN
    Recommended name:
    60S ribosomal protein L28
    Protein Accession:
    P46779
    Secondary Accessions:
    • B2R4A6
    • B4DEP9
    • C9JB50
    • E9PB24
    • G5E9L2
    • Q6IAY0
    • Q96FX1
    • Q9BWQ0

    Protein attributes for RPL28 Gene

    Size:
    137 amino acids
    Molecular mass:
    15748 Da
    Quaternary structure:
    • Component of the large ribosomal subunit.

    Three dimensional structures from OCA and Proteopedia for RPL28 Gene

    Alternative splice isoforms for RPL28 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for RPL28 Gene

Post-translational modifications for RPL28 Gene

  • Ubiquitination at Lys19, Lys22, Lys33, Lys47, Lys58, Lys65, Lys72, and Lys101
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for RPL28 Gene

Domains & Families for RPL28 Gene

Gene Families for RPL28 Gene

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

Protein Domains for RPL28 Gene

InterPro:
Blocks:
  • Ribosomal L28e protein

Suggested Antigen Peptide Sequences for RPL28 Gene

GenScript: Design optimal peptide antigens:
  • cDNA FLJ57954, highly similar to 60S ribosomal protein L28 (B4DEP9_HUMAN)
  • 60S ribosomal protein L28 (RL28_HUMAN)

Graphical View of Domain Structure for InterPro Entry

P46779

UniProtKB/Swiss-Prot:

RL28_HUMAN :
  • Belongs to the eukaryotic ribosomal protein eL28 family.
Family:
  • Belongs to the eukaryotic ribosomal protein eL28 family.
genes like me logo Genes that share domains with RPL28: view

Function for RPL28 Gene

Molecular function for RPL28 Gene

UniProtKB/Swiss-Prot Function:
Component of the large ribosomal subunit.
GENATLAS Biochemistry:
60S ribosomal protein L28,15kDa

Phenotypes From GWAS Catalog for RPL28 Gene

Gene Ontology (GO) - Molecular Function for RPL28 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding TAS,HDA 22658674
GO:0003735 structural constituent of ribosome IEA,NAS 12962325
GO:0005515 protein binding IPI 20434207
genes like me logo Genes that share ontologies with RPL28: view
genes like me logo Genes that share phenotypes with RPL28: view

miRNA for RPL28 Gene

miRTarBase miRNAs that target RPL28

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for RPL28

Clone products for research

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for RPL28 Gene

Localization for RPL28 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 RPL28 gene
Compartment Confidence
cytosol 5
extracellular 4
mitochondrion 3
nucleus 2
plasma membrane 1
cytoskeleton 1
peroxisome 1
endoplasmic reticulum 1
endosome 1
lysosome 1
golgi apparatus 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (3)
  • Endoplasmic reticulum (3)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for RPL28 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005829 cytosol TAS --
GO:0005840 ribosome IEA --
GO:0016020 membrane HDA 19946888
GO:0022625 cytosolic large ribosomal subunit TAS,IBA 21873635
GO:0030425 dendrite IDA 15121898
genes like me logo Genes that share ontologies with RPL28: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for RPL28 Gene

Pathways & Interactions for RPL28 Gene

genes like me logo Genes that share pathways with RPL28: view

Pathways by source for RPL28 Gene

Gene Ontology (GO) - Biological Process for RPL28 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay TAS --
GO:0006412 translation IEA,NAS 12962325
GO:0006413 translational initiation TAS --
GO:0006614 SRP-dependent cotranslational protein targeting to membrane TAS --
GO:0019083 viral transcription TAS --
genes like me logo Genes that share ontologies with RPL28: view

No data available for SIGNOR curated interactions for RPL28 Gene

Drugs & Compounds for RPL28 Gene

No Compound Related Data Available

Transcripts for RPL28 Gene

mRNA/cDNA for RPL28 Gene

6 REFSEQ mRNAs :
22 NCBI additional mRNA sequence :
11 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for RPL28

Clone products for research

Alternative Splicing Database (ASD) splice patterns (SP) for RPL28 Gene

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

Relevant External Links for RPL28 Gene

GeneLoc Exon Structure for
RPL28

Expression for RPL28 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for RPL28 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for RPL28 Gene

This gene is overexpressed in Nasal epithelium (14.8) and Tlymphocyte (6.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for RPL28 Gene



Protein tissue co-expression partners for RPL28 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for RPL28

SOURCE GeneReport for Unigene cluster for RPL28 Gene:

Hs.652114

Evidence on tissue expression from TISSUES for RPL28 Gene

  • Nervous system(5)
  • Intestine(4.9)
  • Kidney(4.6)
  • Skin(4.6)
  • Pancreas(4.4)
  • Lung(4.3)
  • Blood(4)
  • Liver(3.9)
  • Eye(3.9)
  • Muscle(3.5)
  • Stomach(3)
  • Heart(3)
  • Bone marrow(2.9)
  • Lymph node(2.7)
  • Spleen(2.7)
  • Bone(2.5)
  • Gall bladder(2.4)
  • Thyroid gland(2.4)
  • Adrenal gland(2.4)
genes like me logo Genes that share expression patterns with RPL28: view

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 RPL28 Gene

Orthologs for RPL28 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for RPL28 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia RPL28 30
  • 99 (a)
OneToOne
Cow
(Bos Taurus)
Mammalia RPL28 29 30
  • 90.27 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia RPL28 29 30
  • 90.02 (n)
OneToOne
Mouse
(Mus musculus)
Mammalia Rpl28 29 16 30
  • 89.29 (n)
OneToMany
Rpl28-ps4 30
  • 66 (a)
OneToMany
Rat
(Rattus norvegicus)
Mammalia Rpl28 29
  • 89.05 (n)
Oppossum
(Monodelphis domestica)
Mammalia RPL28 30
  • 76 (a)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia -- 30
  • 72 (a)
OneToMany
-- 30
  • 52 (a)
OneToMany
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia rpl28 29
  • 70.07 (n)
Str.5096 29
African clawed frog
(Xenopus laevis)
Amphibia Xl.17523 29
Zebrafish
(Danio rerio)
Actinopterygii rpl28 29 30
  • 76.96 (n)
OneToOne
zgc66289 29
Rainbow Trout
(Oncorhynchus mykiss)
Actinopterygii Omy.8348 29
Fruit Fly
(Drosophila melanogaster)
Insecta RpL28 29 30
  • 56.49 (n)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP005427 29
  • 56.35 (n)
Sea Squirt
(Ciona savignyi)
Ascidiacea CSA.4607 30
  • 53 (a)
OneToOne
Bread mold
(Neurospora crassa)
Ascomycetes NCU06210 29
  • 51.79 (n)
Fission Yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes rpl44 29
  • 43.44 (n)
Species where no ortholog for RPL28 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Baker's yeast (Saccharomyces cerevisiae)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Chicken (Gallus gallus)
  • 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)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Platypus (Ornithorhynchus anatinus)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Wheat (Triticum aestivum)
  • Worm (Caenorhabditis elegans)

Evolution for RPL28 Gene

ENSEMBL:
Gene Tree for RPL28 (if available)
TreeFam:
Gene Tree for RPL28 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for RPL28: view image
Alliance of Genome Resources:
Additional Orthologs for RPL28

Paralogs for RPL28 Gene

genes like me logo Genes that share paralogs with RPL28: view

No data available for Paralogs for RPL28 Gene

Variants for RPL28 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for RPL28 Gene

SNP ID Clinical significance and condition Chr 19 pos Variation AA Info Type
rs111954966 Likely Benign: not provided 55,401,601(+) A/C
NM_014501.3(UBE2S):c.504T>G (p.Gly168=)
SYNONYMOUS_VARIANT,INTRON
rs114808768 Benign: not provided 55,401,541(+) C/T
NM_014501.3(UBE2S):c.564G>A (p.Pro188=)
SYNONYMOUS_VARIANT,INTRON
rs200103438 Benign: not provided 55,401,610(+) G/A
NM_014501.3(UBE2S):c.495C>T (p.Ala165=)
SYNONYMOUS_VARIANT,INTRON
rs61748180 Benign: not provided 55,401,578(+) T/G
NM_014501.3(UBE2S):c.527A>C (p.Glu176Ala)
MISSENSE_VARIANT,INTRON
rs7260639 Benign: not provided 55,391,634(+) T/C
NM_000991.5(RPL28):c.*3302T>C
SYNONYMOUS_VARIANT,THREE_PRIME_UTR_VARIANT,INTRON

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for RPL28 Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for RPL28 Gene

Variant ID Type Subtype PubMed ID
nsv470162 CNV loss 18288195
nsv516199 CNV loss 19592680
nsv953624 CNV deletion 24416366

Variation tolerance for RPL28 Gene

Residual Variation Intolerance Score: 74.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 10.70; 91.49% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for RPL28 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RPL28
Leiden Open Variation Database (LOVD)
RPL28

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RPL28 Gene

Disorders for RPL28 Gene

MalaCards: The human disease database

(2) MalaCards diseases for RPL28 Gene - From: COP and GCD

Disorder Aliases PubMed IDs
albinism-deafness syndrome
  • adfn
diamond-blackfan anemia
  • blackfan - diamond syndrome
- elite association - COSMIC cancer census association via MalaCards
Search RPL28 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for RPL28

Human Genome Epidemiology Navigator
(HuGE)
Atlas
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
Open Targets Platform
genes like me logo Genes that share disorders with RPL28: view

No data available for UniProtKB/Swiss-Prot and Genatlas for RPL28 Gene

Publications for RPL28 Gene

  1. Cloning, sequencing and expression of the L5, L21, L27a, L28, S5, S9, S10 and S29 human ribosomal protein mRNAs. (PMID: 7772601) Frigerio JM … Iovanna JL (Biochimica et biophysica acta 1995) 2 3 4
  2. Sequential use of transcriptional profiling, expression quantitative trait mapping, and gene association implicates MMP20 in human kidney aging. (PMID: 19834535) Wheeler HE … Kim SK (PLoS genetics 2009) 3 40
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4
  4. 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
  5. Characterization and analysis of posttranslational modifications of the human large cytoplasmic ribosomal subunit proteins by mass spectrometry and Edman sequencing. (PMID: 12962325) Odintsova TI … Karpova GG (Journal of protein chemistry 2003) 3 4

Products for RPL28 Gene

Sources for RPL28 Gene