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RPS17

ribosomal protein S17, the group of S ribosomal proteins

Basic information

Region (hg38): 15:82536749-82540459

Previous symbols: [ "RPS17L" ]

Links

ENSG00000182774NCBI:6218OMIM:180472HGNC:10397Uniprot:P08708AlphaFoldGenCCjaxSfariGnomADPubmedClinVar

Phenotypes

GenCC

Source: genCC

  • Diamond-Blackfan anemia 4 (Strong), mode of inheritance: AD
  • Diamond-Blackfan anemia (Supportive), mode of inheritance: AD
  • Diamond-Blackfan anemia 4 (Strong), mode of inheritance: AD
  • Diamond-Blackfan anemia 4 (Strong), mode of inheritance: AD

Clinical Genomic Database

Source: CGD

ConditionInheritanceIntervention CategoriesIntervention/Rationale Manifestation CategoriesReferences
Diamond-Blackfan anemia 4ADHematologic; OncologicSpecific treatment of anemia (eg, steroids, regular transfusions) can be effective; Surveillance for and early treatment of malignancy may be beneficial; Individuals with DBA may manifest a variety of congenital malformations, and awareness may allow prompt detection and managementCraniofacial; Hematologic; Musculoskeletal; Oncologic16317735; 17647292; 19061985; 20301769; 23718193; 23812780

ClinVar

This is a list of variants' phenotypes submitted to ClinVar and linked to the RPS17 gene.

  • Diamond-Blackfan anemia (8 variants)
  • not provided (6 variants)
  • Diamond-Blackfan anemia 4 (4 variants)
  • not specified (2 variants)

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the RPS17 gene is commonly pathogenic or not.

In the table, we include only reliable ClinVar variants with their consequences to MANE Select, Mane Plus Clinical transcripts, or transcripts with TSL equals 1. Click the count to view the source variants.

Warning: slight differences between displayed counts and the number of variants in ClinVar may occur, primarily due to (1) the application of a different transcript and/or consequence by our variant effect predictor or (2) differences in clinical significance: we classify Benign/Likely benign variants as Likely benign and Pathogenic/Likely pathogenic variants as Likely pathogenic.

Variant type Pathogenic Likely pathogenic VUS Likely benign Benign Sum
synonymous
4
clinvar
4
missense
1
clinvar
1
nonsense
0
start loss
2
clinvar
2
frameshift
1
clinvar
1
inframe indel
1
clinvar
1
splice donor/acceptor (+/-2bp)
1
clinvar
1
splice region
1
1
non coding
2
clinvar
2
Total 3 1 2 4 2

Variants in RPS17

This is a list of pathogenic ClinVar variants found in the RPS17 region.

You can filter this list by clicking the number of variants in the Variants pathogenicity by type table.

Position Type Phenotype Significance ClinVar
15-82536819-C-T Diamond-Blackfan anemia Likely benign (Oct 09, 2018)1736105
15-82536888-C-T Diamond-Blackfan anemia 4 Likely benign (Aug 04, 2021)506484
15-82538226-C-T not specified Benign (May 04, 2022)1686316
15-82538321-T-C Diamond-Blackfan anemia • Diamond-Blackfan anemia 4 Likely benign (Oct 18, 2021)1223515
15-82538938-CCT-C Diamond-Blackfan anemia 4 Pathogenic (Dec 01, 2008)13000
15-82538982-A-C Diamond-Blackfan anemia 4 Pathogenic (Aug 01, 2013)100625
15-82538982-A-G not specified • Diamond-Blackfan anemia Conflicting classifications of pathogenicity (Feb 16, 2017)419839
15-82538986-C-T Diamond-Blackfan anemia 4 Likely pathogenic (Dec 16, 2022)2428499
15-82539981-CCTG-C Uncertain significance (Dec 16, 2020)449634
15-82540010-G-A Diamond-Blackfan anemia Likely benign (Oct 19, 2021)1764995
15-82540075-AG-A Diamond-Blackfan anemia Pathogenic (Dec 22, 2015)1751600
15-82540091-G-A Diamond-Blackfan anemia Likely benign (Nov 18, 2015)1741787
15-82540122-C-A Uncertain significance (Dec 21, 2022)2506833
15-82540294-G-C Benign (Sep 15, 2019)1235999
15-82540427-A-C Diamond-Blackfan anemia 4 • Diamond-Blackfan anemia Pathogenic (Oct 14, 2015)12999
15-82540428-T-C Diamond-Blackfan anemia Pathogenic (Mar 25, 2015)1784170
15-82540460-G-A not specified Benign (May 04, 2022)1686317

GnomAD

Source: gnomAD

dbNSFP

Source: dbNSFP

Disease
DISEASE: Diamond-Blackfan anemia 4 (DBA4) [MIM:612527]: A form of Diamond-Blackfan anemia, a congenital non-regenerative hypoplastic anemia that usually presents early in infancy. Diamond-Blackfan anemia is characterized by a moderate to severe macrocytic anemia, erythroblastopenia, and an increased risk of developing leukemia. 30 to 40% of Diamond-Blackfan anemia patients present with short stature and congenital anomalies, the most frequent being craniofacial (Pierre-Robin syndrome and cleft palate), thumb and urogenital anomalies. {ECO:0000269|PubMed:17647292, ECO:0000269|PubMed:19061985}. Note=The disease is caused by mutations affecting the gene represented in this entry.;
Pathway
Ribosome - Homo sapiens (human);Cytoplasmic Ribosomal Proteins;SRP-dependent cotranslational protein targeting to membrane;Formation of the ternary complex, and subsequently, the 43S complex;Translation initiation complex formation;Activation of the mRNA upon binding of the cap-binding complex and eIFs, and subsequent binding to 43S;Eukaryotic Translation Initiation;Eukaryotic Translation Termination;Translation;Selenocysteine synthesis;Metabolism of proteins;Metabolism of amino acids and derivatives;Metabolism of RNA;Formation of a pool of free 40S subunits;Metabolism;Nonsense-Mediated Decay (NMD);Selenoamino acid metabolism;Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC);Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC);Ribosomal scanning and start codon recognition;L13a-mediated translational silencing of Ceruloplasmin expression;Peptide chain elongation;Eukaryotic Translation Elongation;GTP hydrolysis and joining of the 60S ribosomal subunit;Cap-dependent Translation Initiation (Consensus)

Recessive Scores

pRec
0.216

Haploinsufficiency Scores

pHI
0.853
hipred
hipred_score
ghis
0.409

Essentials

essential_gene_CRISPR
E
essential_gene_CRISPR2
essential_gene_gene_trap
N
gene_indispensability_pred
E
gene_indispensability_score
0.801

Mouse Genome Informatics

Gene name
Rps17
Phenotype

Gene ontology

Biological process
nuclear-transcribed mRNA catabolic process, nonsense-mediated decay;rRNA processing;translation;translational initiation;SRP-dependent cotranslational protein targeting to membrane;erythrocyte homeostasis;ribosomal small subunit biogenesis
Cellular component
nucleoplasm;cytosol;ribosome;focal adhesion;membrane;cytosolic small ribosomal subunit
Molecular function
RNA binding;structural constituent of ribosome