CST8

cystatin 8, the group of Cystatins, type 2

Basic information

Region (hg38): 20:23491101-23496010

Links

ENSG00000125815 ∙ NCBI:10047 ∙ OMIM:608683 ∙ HGNC:2480 ∙ Uniprot:O60676 ∙ 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 CST8 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the CST8 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 CST8

This is a list of pathogenic ClinVar variants found in the CST8 region.

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

Position	Type	Phenotype	Significance	ClinVar
20-23491681-G-A		not specified	Uncertain significance (Dec 12, 2024)
20-23491743-A-C		not specified	Uncertain significance (Oct 29, 2024)
20-23491752-A-G		not specified	Uncertain significance (May 15, 2024)
20-23491759-T-A		not specified	Uncertain significance (Sep 29, 2023)
20-23491782-A-G		not specified	Uncertain significance (Aug 11, 2024)
20-23491799-C-A		not specified	Uncertain significance (May 11, 2022)
20-23491800-G-A		not specified	Uncertain significance (Sep 26, 2024)
20-23491815-T-C		not specified	Uncertain significance (Aug 14, 2024)
20-23491842-G-C		not specified	Uncertain significance (May 31, 2024)
20-23491846-G-A		not specified	Uncertain significance (Aug 28, 2023)
20-23491847-C-G		not specified	Uncertain significance (Oct 01, 2024)
20-23492998-C-T		not specified	Uncertain significance (Sep 27, 2024)
20-23493005-C-A		not specified	Uncertain significance (Oct 12, 2021)
20-23493006-G-T		not specified	Uncertain significance (Mar 19, 2024)
20-23493015-A-C		not specified	Uncertain significance (May 31, 2022)
20-23493030-A-G		not specified	Uncertain significance (Feb 06, 2023)
20-23495845-C-G		not specified	Uncertain significance (Jun 06, 2023)
20-23495850-T-C		not specified	Uncertain significance (Oct 03, 2023)
20-23495855-G-A		not specified	Uncertain significance (Oct 04, 2022)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
CST8	protein_coding	protein_coding	ENST00000246012	3	4918

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.00337	0.630	125694	0	53	125747	0.000211

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	-1.26	106	75.3	1.41	0.00000399	928
Missense in Polyphen		30	21.358	1.4046		274
Synonymous	-0.842	36	30.1	1.20	0.00000167	266
Loss of Function	0.490	4	5.21	0.768	2.22e-7	63

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.0000289	0.0000289
Ashkenazi Jewish	0.00	0.00
East Asian	0.00174	0.00174
Finnish	0.00	0.00
European (Non-Finnish)	0.000149	0.000149
Middle Eastern	0.00174	0.00174
South Asian	0.0000653	0.0000653
Other	0.000163	0.000163

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Performs a specialized role during sperm development and maturation.

Recessive Scores

• pRec: 0.275

Intolerance Scores

• loftool: 0.515
• rvis_EVS: 0.15
• rvis_percentile_EVS: 64.51

Haploinsufficiency Scores

• pHI: 0.0464
• hipred: N
• hipred_score: 0.146
• ghis: 0.393

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.317

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Cst8

Gene ontology

• Biological process: negative regulation of endopeptidase activity
• Cellular component: extracellular region;cytoplasm;cell surface
• Molecular function: cysteine-type endopeptidase inhibitor activity