MAGEA10

MAGE family member A10, the group of MAGE family

Basic information

Region (hg38): X:152133310-152138578

Previous symbols: [ "MAGE10" ]

Links

ENSG00000124260 ∙ NCBI:4109 ∙ OMIM:300343 ∙ HGNC:6797 ∙ Uniprot:P43363 ∙ 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 MAGEA10 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the MAGEA10 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			19	3		22
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	19	3	0

Variants in MAGEA10

This is a list of pathogenic ClinVar variants found in the MAGEA10 region.

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

Position	Type	Phenotype	Significance	ClinVar
X-152134536-G-A		not specified	Uncertain significance (Oct 05, 2021)
X-152134624-C-A		not specified	Uncertain significance (Jan 26, 2022)
X-152134743-C-T		not specified	Uncertain significance (Sep 23, 2023)
X-152134755-C-G		not specified	Uncertain significance (Mar 02, 2023)
X-152134803-T-C		not specified	Uncertain significance (Jul 12, 2022)
X-152134849-C-T		not specified	Uncertain significance (Feb 28, 2023)
X-152134912-C-G		not specified	Uncertain significance (Jun 18, 2021)
X-152134932-A-G		not specified	Uncertain significance (May 09, 2022)
X-152135115-T-C		not specified	Uncertain significance (Aug 08, 2023)
X-152135157-A-G		not specified	Likely benign (Dec 28, 2022)
X-152135220-A-G		not specified	Conflicting classifications of pathogenicity (Mar 01, 2023)
X-152135271-G-T		not specified	Uncertain significance (May 25, 2022)
X-152135286-T-C		not specified	Uncertain significance (Apr 12, 2023)
X-152135311-G-T		not specified	Uncertain significance (Aug 12, 2022)
X-152135332-C-T		not specified	Likely benign (Jun 29, 2023)
X-152135337-G-A		not specified	Uncertain significance (Jun 03, 2022)
X-152135352-G-A		not specified	Uncertain significance (Oct 03, 2023)
X-152135508-G-A		not specified	Uncertain significance (Jul 19, 2023)
X-152135545-C-T		not specified	Uncertain significance (Apr 25, 2022)
X-152135550-C-T		not specified	Uncertain significance (Feb 15, 2023)
X-152135596-G-A		not specified	Uncertain significance (Nov 15, 2023)
X-152135601-C-T			Likely benign (Mar 01, 2023)
X-152135602-G-A		not specified	Uncertain significance (Aug 02, 2021)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
MAGEA10	protein_coding	protein_coding	ENST00000370323	1	5252

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.308	124	134	0.925	0.00000943	2421
Missense in Polyphen		17	27.619	0.61552		538
Synonymous	-1.10	64	53.8	1.19	0.00000383	748
Loss of Function

LoF frequencies by population

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

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Not known, though may play a role in embryonal development and tumor transformation or aspects of tumor progression.

Recessive Scores

• pRec: 0.0835

Intolerance Scores

• rvis_EVS: 0.26
• rvis_percentile_EVS: 70.26

Haploinsufficiency Scores

• pHI: 0.0587
• hipred: N
• hipred_score: 0.112
• ghis: 0.387

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.0192

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Magea10

Gene ontology

• Cellular component: nucleoplasm;cytosol