MRPL21

mitochondrial ribosomal protein L21, the group of Large subunit mitochondrial ribosomal proteins|Mitochondrial ribosomal proteins

Basic information

Region (hg38): 11:68891276-68903835

Links

ENSG00000197345 ∙ NCBI:219927 ∙ OMIM:611834 ∙ HGNC:14479 ∙ Uniprot:Q7Z2W9 ∙ 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 MRPL21 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the MRPL21 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			13	1		14
nonsense						0
start loss					1	1
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding				1	2	3
Total	0	0	13	2	3

Variants in MRPL21

This is a list of pathogenic ClinVar variants found in the MRPL21 region.

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

Position	Type	Phenotype	Significance	ClinVar
11-68891365-A-C		not specified	Uncertain significance (Mar 17, 2023)
11-68891368-C-T		not specified	Uncertain significance (Apr 24, 2023)
11-68896525-C-T		not specified	Uncertain significance (May 16, 2022)
11-68896543-G-A		not specified	Uncertain significance (Feb 28, 2023)
11-68896666-T-A		not specified	Uncertain significance (May 09, 2023)
11-68897936-G-C		not specified	Uncertain significance (Dec 14, 2021)
11-68897943-C-A		not specified	Uncertain significance (Feb 05, 2024)
11-68897954-G-C		not specified	Uncertain significance (Mar 07, 2023)
11-68897984-G-A		not specified	Uncertain significance (Mar 29, 2022)
11-68898010-T-C		not specified	Uncertain significance (Sep 27, 2022)
11-68900557-T-C		not specified	Uncertain significance (Feb 28, 2024)
11-68900569-T-C		not specified	Uncertain significance (Dec 17, 2021)
11-68900582-T-C		not specified	Uncertain significance (Jul 12, 2023)
11-68903633-A-G			Likely benign (Jul 12, 2018)
11-68903636-A-G			Benign (Jun 19, 2018)
11-68903732-G-A		not specified	Uncertain significance (Mar 25, 2024)
11-68903737-G-A			Likely benign (Aug 30, 2018)
11-68903761-C-G		not specified	Uncertain significance (Jun 17, 2024)
11-68903809-A-G			Benign (Jul 08, 2018)
11-68903812-G-GCCGCCGCCATCTTC			Benign (Jun 16, 2018)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
MRPL21	protein_coding	protein_coding	ENST00000362034	7	12560

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
2.41e-14	0.00249	125688	0	60	125748	0.000239

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.270	108	116	0.929	0.00000650	1295
Missense in Polyphen		26	33.844	0.76824		406
Synonymous	-0.836	55	47.7	1.15	0.00000276	423
Loss of Function	-1.25	18	13.1	1.37	7.49e-7	135

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000503	0.000503
Ashkenazi Jewish	0.00109	0.00109
East Asian	0.0000544	0.0000544
Finnish	0.00	0.00
European (Non-Finnish)	0.000223	0.000220
Middle Eastern	0.0000544	0.0000544
South Asian	0.000318	0.000294
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: 0.250
• rvis_EVS: 0.95
• rvis_percentile_EVS: 90.01

Haploinsufficiency Scores

• pHI: 0.0497
• hipred: N
• hipred_score: 0.174
• ghis: 0.397

Essentials

• essential_gene_CRISPR: E
• essential_gene_CRISPR2: E
• essential_gene_gene_trap: E
• gene_indispensability_pred: N
• gene_indispensability_score: 0.390

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Mrpl21

Gene ontology

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