TMPRSS12

transmembrane serine protease 12, the group of Type II transmembrane serine proteases

Basic information

Region (hg38): 12:50842920-50887884

Links

ENSG00000186452 ∙ NCBI:283471 ∙ ∙ HGNC:28779 ∙ Uniprot:Q86WS5 ∙ 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 TMPRSS12 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the TMPRSS12 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			16	1		17
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region				1		1
non coding						0
Total	0	0	16	1	0

Variants in TMPRSS12

This is a list of pathogenic ClinVar variants found in the TMPRSS12 region.

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

Position	Type	Phenotype	Significance	ClinVar
12-50843043-G-A		not specified	Uncertain significance (Jun 28, 2024)
12-50843092-A-T		not specified	Uncertain significance (Sep 01, 2021)
12-50843118-C-T		not specified	Uncertain significance (Nov 07, 2023)
12-50843143-A-G		not specified	Uncertain significance (Sep 14, 2022)
12-50843883-C-T		not specified	Uncertain significance (Sep 27, 2024)
12-50844000-T-C		not specified	Uncertain significance (Nov 21, 2024)
12-50844019-A-G		not specified	Uncertain significance (Jun 30, 2022)
12-50844030-G-A		not specified	Uncertain significance (Jun 26, 2024)
12-50844036-A-G		not specified	Uncertain significance (May 13, 2024)
12-50858785-C-T		not specified	Likely benign (Jan 23, 2024)
12-50858797-G-A		not specified	Uncertain significance (Oct 26, 2021)
12-50858867-G-A		not specified	Uncertain significance (Apr 17, 2024)
12-50858942-G-A		not specified	Uncertain significance (Aug 21, 2023)
12-50858973-G-A		not specified	Uncertain significance (Sep 01, 2024)
12-50885251-G-A		not specified	Uncertain significance (May 16, 2022)
12-50885275-G-A		not specified	Uncertain significance (Jun 10, 2022)
12-50885335-C-T		not specified	Uncertain significance (Aug 26, 2022)
12-50887269-G-C		not specified	Uncertain significance (Feb 05, 2024)
12-50887271-G-A		not specified	Uncertain significance (Oct 03, 2023)
12-50887349-G-A		not specified	Uncertain significance (Sep 10, 2024)
12-50887370-G-A		not specified	Likely benign (Aug 12, 2022)
12-50887376-A-T		not specified	Uncertain significance (Dec 06, 2024)
12-50887380-G-A		not specified	Uncertain significance (Oct 03, 2022)
12-50887428-G-T		not specified	Uncertain significance (Oct 09, 2024)
12-50887446-C-T		not specified	Uncertain significance (Sep 27, 2021)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
TMPRSS12	protein_coding	protein_coding	ENST00000398458	5	44965

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.00000561	0.453	124633	0	33	124666	0.000132

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.00472	178	178	0.999	0.00000945	2206
Missense in Polyphen		35	43.524	0.80415		572
Synonymous	1.02	58	68.8	0.843	0.00000392	684
Loss of Function	0.564	9	11.0	0.817	5.28e-7	155

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000456	0.000456
Ashkenazi Jewish	0.00	0.00
East Asian	0.000111	0.000111
Finnish	0.000143	0.000139
European (Non-Finnish)	0.0000653	0.0000619
Middle Eastern	0.000111	0.000111
South Asian	0.000253	0.000229
Other	0.00	0.00

dbNSFP

Source: dbNSFP

Recessive Scores

• pRec: 0.0867

Intolerance Scores

• rvis_EVS: 0.82
• rvis_percentile_EVS: 87.95

Haploinsufficiency Scores

• pHI: 0.0665
• hipred: N
• hipred_score: 0.146

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.133

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Tmprss12

Gene ontology

• Biological process: proteolysis
• Cellular component: integral component of membrane
• Molecular function: serine-type endopeptidase activity