MANSC4

MANSC domain containing 4

Basic information

Region (hg38): 12:27762427-27780236

Links

ENSG00000205693 ∙ NCBI:100287284 ∙ ∙ HGNC:40023 ∙ Uniprot:A6NHS7 ∙ 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 MANSC4 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the MANSC4 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			18			18
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	18	0	0

Variants in MANSC4

This is a list of pathogenic ClinVar variants found in the MANSC4 region.

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

Position	Type	Phenotype	Significance	ClinVar
12-27762802-C-T		not specified	Uncertain significance (Sep 25, 2023)
12-27762817-C-G		not specified	Uncertain significance (Jul 06, 2021)
12-27762829-C-A		not specified	Uncertain significance (Jul 31, 2023)
12-27762866-C-T		not specified	Uncertain significance (Sep 13, 2023)
12-27762920-T-C		not specified	Uncertain significance (Jan 23, 2023)
12-27762953-G-A		not specified	Uncertain significance (May 29, 2024)
12-27762979-T-C		not specified	Uncertain significance (May 22, 2023)
12-27763022-G-A		not specified	Uncertain significance (Nov 02, 2023)
12-27763022-G-T		not specified	Uncertain significance (Oct 18, 2021)
12-27763043-C-T		not specified	Uncertain significance (Aug 08, 2022)
12-27763223-G-C		not specified	Uncertain significance (May 09, 2024)
12-27763228-G-A		not specified	Uncertain significance (Jun 11, 2021)
12-27763231-G-A		not specified	Uncertain significance (Feb 03, 2022)
12-27763309-A-G		not specified	Uncertain significance (Nov 22, 2023)
12-27763325-A-G		not specified	Uncertain significance (Jan 06, 2023)
12-27763342-C-T		not specified	Uncertain significance (Nov 12, 2021)
12-27766751-A-G		not specified	Uncertain significance (May 18, 2023)
12-27766773-G-A		not specified	Uncertain significance (May 02, 2024)
12-27771082-C-G		not specified	Uncertain significance (Sep 20, 2023)
12-27771107-T-C		not specified	Uncertain significance (Jun 24, 2022)
12-27771215-T-A		not specified	Uncertain significance (Jun 21, 2022)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
MANSC4	protein_coding	protein_coding	ENST00000381273	3	8539

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.0000438	0.243	0	0	0	0	0.00

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	1.62	115	175	0.656	0.00000847	2223
Missense in Polyphen		27	48.223	0.55989		624
Synonymous	1.55	50	66.1	0.757	0.00000322	669
Loss of Function	-0.435	6	4.95	1.21	2.09e-7	71

LoF frequencies by population

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

dbNSFP

Source: dbNSFP

Intolerance Scores

• rvis_EVS: 0.53
• rvis_percentile_EVS: 80.58

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.114

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Mansc4

Gene ontology

• Cellular component: integral component of membrane