MRPL23

mitochondrial ribosomal protein L23, the group of Large subunit mitochondrial ribosomal proteins|Mitochondrial ribosomal proteins

Basic information

Region (hg38): 11:1947278-1984522

Previous symbols: [ "RPL23L" ]

Links

ENSG00000214026 ∙ NCBI:6150 ∙ OMIM:600789 ∙ HGNC:10322 ∙ Uniprot:Q16540 ∙ AlphaFold ∙ GenCC ∙ jax ∙ Sfari ∙ GnomAD ∙ Pubmed ∙ ClinVar

Phenotypes

GenCC

Source: genCC

No genCC data.

ClinVar

This is a list of variants' phenotypes submitted to ClinVar and linked to the MRPL23 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the MRPL23 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						0
missense			15			15
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region					1	1
non coding						0
Total	0	0	15	0	0

Variants in MRPL23

This is a list of pathogenic ClinVar variants found in the MRPL23 region.

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

Position	Type	Phenotype	Significance	ClinVar
11-1947366-G-C		not specified	Uncertain significance (Mar 04, 2024)
11-1947374-T-A		not specified	Uncertain significance (Apr 30, 2024)
11-1950912-C-T		not specified	Uncertain significance (Mar 31, 2023)
11-1950950-C-A		not specified	Uncertain significance (Apr 20, 2024)
11-1950951-T-G		not specified	Uncertain significance (Nov 23, 2021)
11-1950990-G-A		not specified	Uncertain significance (Aug 02, 2022)
11-1952119-G-A			Benign (Apr 12, 2018)
11-1952182-G-A		not specified	Uncertain significance (Aug 02, 2021)
11-1952192-G-A		not specified	Uncertain significance (Jul 26, 2021)
11-1952197-C-T		not specified	Uncertain significance (Oct 27, 2022)
11-1952201-T-A		not specified	Uncertain significance (Feb 03, 2022)
11-1952827-C-T		not specified	Uncertain significance (May 26, 2023)
11-1956275-C-T		not specified	Uncertain significance (Apr 04, 2024)
11-1956280-C-A		not specified	Uncertain significance (Oct 10, 2023)
11-1956383-C-T		not specified	Uncertain significance (Nov 29, 2021)
11-1956386-G-A		not specified	Uncertain significance (Jun 16, 2023)
11-1956388-C-T		not specified	Uncertain significance (Oct 05, 2022)
11-1956389-G-A		not specified	Uncertain significance (Sep 15, 2021)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
MRPL23	protein_coding	protein_coding	ENST00000397298	5	37245

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
1.63e-8	0.0352	125730	0	16	125746	0.0000636

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	-0.379	117	106	1.10	0.00000743	987
Missense in Polyphen		47	41.162	1.1418		377
Synonymous	-0.531	54	49.3	1.10	0.00000402	298
Loss of Function	-1.21	10	6.64	1.51	3.69e-7	68

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000152	0.000152
Ashkenazi Jewish	0.00	0.00
East Asian	0.000220	0.000217
Finnish	0.0000463	0.0000462
European (Non-Finnish)	0.0000533	0.0000527
Middle Eastern	0.000220	0.000217
South Asian	0.0000653	0.0000653
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Pathway: Ribosome - Homo sapiens (human);Mitochondrial translation initiation;Translation;Metabolism of proteins;Mitochondrial translation elongation;Mitochondrial translation termination;Mitochondrial translation (Consensus)

Intolerance Scores

• loftool: 0.771
• rvis_EVS: 1.11
• rvis_percentile_EVS: 91.99

Haploinsufficiency Scores

• pHI: 0.117
• hipred: N
• hipred_score: 0.329
• ghis: 0.397

Essentials

• essential_gene_CRISPR: E
• essential_gene_CRISPR2: S
• essential_gene_gene_trap: E
• gene_indispensability_pred: E
• gene_indispensability_score: 0.775

Gene Damage Prediction

	All	Recessive	Dominant
Mendelian	Medium	Medium	Medium
Primary Immunodeficiency	Medium	Medium	Medium
Cancer	Medium	Medium	Medium

Mouse Genome Informatics

• Gene name: Mrpl23

Gene ontology

• Biological process: translation;mitochondrial translation;mitochondrial translational elongation;mitochondrial translational termination
• Cellular component: fibrillar center;mitochondrion;mitochondrial inner membrane;mitochondrial large ribosomal subunit
• Molecular function: RNA binding;structural constituent of ribosome;protein binding