MRPL15

mitochondrial ribosomal protein L15, the group of Large subunit mitochondrial ribosomal proteins|Mitochondrial ribosomal proteins

Basic information

Region (hg38): 8:54135241-54148514

Links

ENSG00000137547 ∙ NCBI:29088 ∙ OMIM:611828 ∙ HGNC:14054 ∙ Uniprot:Q9P015 ∙ 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 MRPL15 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the MRPL15 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			32	1		33
nonsense						0
start loss						0
frameshift			1			1
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	33	1	0

Variants in MRPL15

This is a list of pathogenic ClinVar variants found in the MRPL15 region.

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

Position	Type	Phenotype	Significance	ClinVar
8-54135308-G-T		not specified	Uncertain significance (Mar 28, 2023)
8-54135342-C-A		not specified	Uncertain significance (May 18, 2023)
8-54135356-G-A		not specified	Uncertain significance (Jul 22, 2024)
8-54135377-G-A		not specified	Uncertain significance (Aug 13, 2021)
8-54135384-A-G		not specified	Likely benign (Nov 26, 2024)
8-54136514-A-G		not specified	Uncertain significance (Oct 01, 2024)
8-54136520-C-G		not specified	Uncertain significance (Oct 06, 2021)
8-54136530-G-A		not specified	Uncertain significance (Aug 20, 2024)
8-54136541-A-G		not specified	Uncertain significance (Oct 10, 2023)
8-54136587-G-A		not specified	Uncertain significance (Dec 01, 2022)
8-54136600-CT-C			Uncertain significance (Jul 01, 2021)
8-54136604-G-A		not specified	Uncertain significance (Aug 04, 2024)
8-54136626-A-G		not specified	Uncertain significance (Sep 26, 2022)
8-54136628-A-G		not specified	Uncertain significance (Jan 01, 2025)
8-54136654-C-G		not specified	Uncertain significance (Jun 26, 2024)
8-54137299-A-C		not specified	Uncertain significance (Oct 16, 2023)
8-54137329-C-G		not specified	Uncertain significance (Dec 05, 2024)
8-54137341-A-G		not specified	Uncertain significance (Sep 16, 2021)
8-54137390-T-C		not specified	Uncertain significance (Feb 19, 2025)
8-54142691-A-T		not specified	Uncertain significance (Dec 03, 2024)
8-54142699-G-A		not specified	Uncertain significance (Mar 25, 2024)
8-54142700-T-C		not specified	Uncertain significance (Oct 09, 2024)
8-54142714-G-C		not specified	Uncertain significance (Jul 14, 2021)
8-54142769-A-G		not specified	Uncertain significance (Mar 05, 2025)
8-54147382-A-G		not specified	Uncertain significance (Jan 03, 2025)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
MRPL15	protein_coding	protein_coding	ENST00000260102	5	12692

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.00000160	0.426	125614	0	134	125748	0.000533

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.553	143	163	0.878	0.00000879	1894
Missense in Polyphen		44	48.484	0.90751		566
Synonymous	1.36	46	59.3	0.776	0.00000308	616
Loss of Function	0.595	10	12.2	0.816	6.99e-7	150

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000359	0.000359
Ashkenazi Jewish	0.00	0.00
East Asian	0.000272	0.000272
Finnish	0.00	0.00
European (Non-Finnish)	0.00100	0.00100
Middle Eastern	0.000272	0.000272
South Asian	0.000196	0.000196
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)

Recessive Scores

• pRec: 0.120

Intolerance Scores

• loftool: 0.360
• rvis_EVS: 0.28
• rvis_percentile_EVS: 71.41

Haploinsufficiency Scores

• pHI: 0.375
• hipred: Y
• hipred_score: 0.740
• ghis: 0.560

Essentials

• essential_gene_CRISPR: E
• essential_gene_CRISPR2: E
• essential_gene_gene_trap: H
• gene_indispensability_pred: E
• gene_indispensability_score: 0.903

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Mrpl15

Gene ontology

• Biological process: mitochondrial translational elongation;mitochondrial translational termination;cellular response to leukemia inhibitory factor
• Cellular component: mitochondrion;mitochondrial inner membrane;mitochondrial large ribosomal subunit
• Molecular function: RNA binding;structural constituent of ribosome;protein binding