MRPL2

mitochondrial ribosomal protein L2, the group of Large subunit mitochondrial ribosomal proteins|Mitochondrial ribosomal proteins

Basic information

Region (hg38): 6:43054029-43059438

Links

ENSG00000112651 ∙ NCBI:51069 ∙ OMIM:611822 ∙ HGNC:14056 ∙ Uniprot:Q5T653 ∙ 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 MRPL2 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the MRPL2 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			25	2		27
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	25	2	0

Variants in MRPL2

This is a list of pathogenic ClinVar variants found in the MRPL2 region.

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

Position	Type	Phenotype	Significance	ClinVar
6-43054321-G-C		not specified	Uncertain significance (May 11, 2022)
6-43054333-G-A		not specified	Uncertain significance (Feb 28, 2025)
6-43054341-C-T			Uncertain significance (Aug 09, 2019)
6-43054381-T-C		not specified	Uncertain significance (Feb 18, 2025)
6-43054387-T-C		not specified	Uncertain significance (Sep 17, 2021)
6-43054402-G-A		not specified	Uncertain significance (Dec 19, 2023)
6-43054471-C-T		not specified	Likely benign (Jul 08, 2022)
6-43055594-T-G		not specified	Uncertain significance (Dec 22, 2023)
6-43055597-C-T		not specified	Uncertain significance (Aug 05, 2024)
6-43055601-G-C		not specified	Uncertain significance (Jul 16, 2024)
6-43055951-T-C		not specified	Uncertain significance (May 05, 2023)
6-43055963-C-T		not specified	Uncertain significance (Dec 11, 2024)
6-43056099-G-A		not specified	Uncertain significance (Jan 01, 2025)
6-43056182-G-A		not specified	Uncertain significance (Feb 12, 2025)
6-43056323-G-C		not specified	Uncertain significance (Oct 09, 2024)
6-43056326-C-T		not specified	Uncertain significance (Jan 19, 2024)
6-43056355-G-A		not specified	Uncertain significance (Oct 25, 2023)
6-43056374-G-A		not specified	Uncertain significance (Jun 03, 2022)
6-43056380-G-A		not specified	Uncertain significance (May 08, 2023)
6-43056403-C-A		not specified	Uncertain significance (May 10, 2024)
6-43056404-G-A		not specified	Uncertain significance (Apr 12, 2024)
6-43056430-T-C		not specified	Uncertain significance (Nov 09, 2022)
6-43056434-C-A		not specified	Uncertain significance (Feb 13, 2023)
6-43056436-C-T		not specified	Likely benign (May 27, 2022)
6-43056437-G-A		not specified	Uncertain significance (Dec 16, 2021)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
MRPL2	protein_coding	protein_coding	ENST00000388752	7	5778

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
1.43e-7	0.619	125697	0	51	125748	0.000203

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.134	201	206	0.974	0.0000131	1939
Missense in Polyphen		91	90.104	1.0099		872
Synonymous	0.595	67	73.5	0.912	0.00000388	668
Loss of Function	1.09	13	18.0	0.722	0.00000135	141

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000174	0.000174
Ashkenazi Jewish	0.00	0.00
East Asian	0.000163	0.000163
Finnish	0.0000463	0.0000462
European (Non-Finnish)	0.000299	0.000299
Middle Eastern	0.000163	0.000163
South Asian	0.000196	0.000196
Other	0.000163	0.000163

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: 0.0661

Intolerance Scores

• loftool: 0.649
• rvis_EVS: -0.56
• rvis_percentile_EVS: 19.31

Haploinsufficiency Scores

• pHI: 0.0734
• hipred: Y
• hipred_score: 0.608
• ghis: 0.558

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: S
• essential_gene_gene_trap: E
• gene_indispensability_pred: E
• gene_indispensability_score: 0.696

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Mrpl2

Gene ontology

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