CST9L

Chr 20

cystatin 9 like

Also known as: CTES7B, bA218C14.1

CST9L encodes a cysteine protease inhibitor with testis-specific expression that likely functions in tissue reorganization during early testis development. The gene is extremely tolerant to loss-of-function variation (very low pLI score), and no established human diseases have been associated with CST9L mutations to date.

Summary from RefSeq
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0
Active trials
0
Pubs (1 yr)
0
P/LP submissions
P/LP missense
1.98
LOEUF
DN
Mechanism· predicted
Clinical SummaryCST9L
Population Constraint (gnomAD)
Low constraint (pLI 0.00) — loss-of-function variants are relatively tolerated in the population.
Some data sources returned errors (1)

ensembl: TimeoutError: The operation was aborted due to timeout

Population Genetics & Constraint

gnomAD v4 — loss-of-function & missense intolerance

Tolerant — LoF & missense variants common in population
LoF Constraint
1.98LOEUF
pLI 0.000
Z-score -2.71
OE 2.21 (1.211.98)
Tolerant

Highly tolerant — LoF variants common in population

Missense Constraint
-0.47Z-score
OE missense 1.15 (0.971.38)
86 obs / 74.6 exp
Tolerant

Tolerant to missense variation

Observed / Expected Ratios
LoF OE2.21 (1.211.98)
00.351.4
Missense OE1.15 (0.971.38)
00.61.4
Synonymous OE0.98
01.21.6
LoF obs/exp: 13 / 5.9Missense obs/exp: 86 / 74.6Syn Z: 0.08
DN
0.6746th %ile
GOF
0.5465th %ile
LOF
0.2874th %ile

The highest-scoring mechanism for this gene is dominant-negative.

DNprediction above median

Note: In-silico variant effect predictors (SIFT, PolyPhen, REVEL, CADD) may underestimate pathogenicity of missense variants in genes with GOF or DN mechanisms. Consider functional evidence and clinical context.

Predictions from Badonyi M, Marsh JA. PLoS ONE. 2024;19(8):e0307312.

ClinVar Variant Classifications

0 submitted variants in ClinVar

Protein Context — Lollipop Plot

CST9L · protein map & ClinVar variants

Showing all ClinVar variants across the protein. Search a specific variant to highlight its position.

Clinical Trials

Active and recruiting trials from ClinicalTrials.gov

No active trials found for this gene.

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Clinical Literature
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