Is DISP2 p.Gly445Asp (c.1334G>A) pathogenic?

DISP2 p.Gly445Asp (c.1334G>A) is classified Uncertain significance in DISP2 (ClinVar, Single submitter, 1 submitter; last evaluated 2021-06-11). AlphaMissense: likely benign (0.116); Rare (popmax 0.116%, afr).

How common is DISP2 p.Gly445Asp (c.1334G>A) in the general population?

DISP2 p.Gly445Asp (c.1334G>A) is rare (popmax 0.116%, afr) (gnomAD).

What do computational predictors say about DISP2 p.Gly445Asp (c.1334G>A)?

AlphaMissense predicts likely benign (score 0.116) — an in-silico prediction, not a clinical call.

DISP2 p.Gly445Asp

c.1334G>A · rs75971826 · VCV2403614

Uncertain significance Single submitter

Classification

Uncertain significance

ClinVar

Review

Single submitter ★☆☆☆

ClinVar · 1 submitter

AlphaMissense

likely benign

0.116 · ACMG-weighted

gnomAD v4.1

Rare

rare (popmax 0.116%, afr)

Missense predictors

0/3 damaging

AlphaMissense, REVEL, SaProt

Computational evidence

Protein change
AlphaMissense	0.116	likely benign
REVEL	0.224	benign-leaning
SaProt	LLR -7.80	tolerated
⇒ AlphaMissense, REVEL and SaProt all call this tolerated.
Splicing
SpliceAI	—	not assessed · no allele here is in the release
Constraint at this position
Conservation	phyloP 6.3	GERP -0.078, phastCons 1
Regional constraint	o/e 1.02	unconstrained · MANE · 2,889 bp · p 0.52 · regional, not allelic
Overall
CADD	23.9	PHRED · no single calibrated threshold — expert panels disagree

ClinVar classifies this uncertain; the computational predictors unanimously lean tolerated — a triage signal, not a reclassification

AlphaMissense carries the ACMG weight for missense; REVEL and SaProt are independent agreement signals.

Population frequency

gnomAD v4.1 · exomes + genomes

Grpmax group 0.116% African / African-American · 87/74,862 alleles

Filtering AF 0.0965% ClinGen BA1/BS1 input FAF95, joint · FAF99 0.0892%

Overall 0.00589% 95/1,613,630 alleles · rare

Ancestry group	Frequency	1 in
African / African-Americangrpmax	0.116%	860
Remaining individualsnot grpmax-eligible	0.008%	12,500
European (non-Finnish)	0.000254%	393,317

Rarity supports pathogenicity (ACMG PM2); frequency above a disease-specific BA1/BS1 threshold argues against it. A variant frequent in one ancestry group can be near-absent in others, so a single global figure can mislead.

Variant & gene context

Gene: DISP2
Protein: p.Gly445Asp
Coding: c.1334G>A
MANE Select: NM_033510
dbSNP: rs75971826
Type: single nucleotide variant
Location: chr15:40367446 (GRCh38)
Gene constraint: LOEUF 0.813 · pLI <0.01 (gnomAD)
Structure: AlphaFold pLDDT 68.24

Full DISP2 gene report on Sugi Atlas → Gene function, pathways, protein structure, interactions & more

Similar variants

DISP2 p.Pro194= Benign ★★ same type
DISP2 p.Ala1053Thr Uncertain significance ★ ⚠ same type
DISP2 p.Ala1069Gly Uncertain significance ★ ⚠ same type
DISP2 p.Ala1128Ser Uncertain significance ★ ⚠ same type
DISP2 p.Ala1128Val Uncertain significance ★ ⚠ same type
DISP2 p.Ala1210Gly Uncertain significance ★ ⚠ same type
DISP2 p.Ala1343Pro Uncertain significance ★ ⚠ same type
DISP2 p.Ala1343Val Uncertain significance ★ ⚠ same type

Built on 18 open, versioned datasets — ClinVar, gnomAD, AlphaMissense, REVEL, ClinGen & more — plus Sugi Variant's own cross-source analysis. Source data 2026-01–2026-10, ClinVar 2026-10. Full sources & versions →

Cite Sugi Variant

Gür T. Sugi Variant: A Deterministic Per-Variant Germline Reference from a Knowledge Graph for Humans and AI Agents. 2026. doi:10.5281/zenodo.21509445. This variant: https://sugi.bio/variant/disp2-p-gly445asp (accessed [today's date]).

Preprint & method: sugi.bio/variant/method Machine-readable: this page as Markdown