Is FLRT1 p.Gly571Val (c.1712G>T) pathogenic?

FLRT1 p.Gly571Val (c.1712G>T) is classified Uncertain significance in FLRT1 (ClinVar, Single submitter, 2 submitters; last evaluated 2022-12-06). Rare (popmax 0.171%, nfe); Associated with peripheral neuropathy.

What condition is associated with FLRT1 p.Gly571Val (c.1712G>T)?

FLRT1 p.Gly571Val (c.1712G>T) is associated with peripheral neuropathy (ClinVar).

How common is FLRT1 p.Gly571Val (c.1712G>T) in the general population?

FLRT1 p.Gly571Val (c.1712G>T) is rare (popmax 0.171%, nfe) (gnomAD).

FLRT1 p.Gly571Val

c.1712G>T · rs143309484 · VCV530936

Uncertain significance Single submitter

Classification

Uncertain significance

ClinVar

Review

Single submitter ★☆☆☆

ClinVar · 2 submitters

gnomAD v4.1

Rare

rare (popmax 0.171%, nfe)

Conditions

peripheral neuropathy

Computational evidence

Protein change
Missense predictors do not apply to this variant type; conservation carries the signal.
REVEL	0.085	moderately benign-leaning
Splicing
SpliceAI	—	not assessed · no allele here is in the release
Constraint at this position
Conservation	phyloP 9.9	GERP 1.8, phastCons 1
Regional constraint	o/e 0.78	unconstrained · MANE · 2,021 bp · p 5.7e-12 · regional, not allelic
Overall
CADD	23.9	PHRED · no single calibrated threshold — expert panels disagree

Population frequency

gnomAD v4.1 · exomes + genomes

Grpmax group 0.171% European (non-Finnish) · 2,014/1,180,016 alleles

Filtering AF 0.164% ClinGen BA1/BS1 input FAF95, joint · FAF99 0.162%

Overall 0.133% 2,143/1,613,662 alleles · rare exomes 2,020/1,461,450 · genomes 123/152,212 · joint denominator

Ancestry group	Frequency	1 in
European (non-Finnish)grpmax	0.171%	586
Remaining individualsnot grpmax-eligible	0.157%	637
African / African-American	0.032%	3,123
Middle Eastern	0.0164%	6,084
Admixed American	0.00667%	15,001
Finnishnot grpmax-eligible	0.00157%	63,642
South Asian	0.0011%	91,096

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: FLRT1
Protein: p.Gly571Val
Coding: c.1712G>T
MANE Select: NM_013280
dbSNP: rs143309484
Type: single nucleotide variant
Location: chr11:64117979 (GRCh38)
Gene constraint: LOEUF 0.682 · pLI 0.14 (gnomAD)
Structure: AlphaFold pLDDT 73.46

Full FLRT1 gene report on Sugi Atlas → Gene function, pathways, protein structure, interactions & more

Disease context

peripheral neuropathy — disease report on Sugi Atlas → Associated genes, phenotypes, clinical trials & treatments

Similar variants

FLRT1 p.Ala148Gly Uncertain significance ★★ same condition
FLRT1 p.Ala461Thr Uncertain significance ★★ same condition
FLRT1 p.Arg149Cys Uncertain significance ★★ same condition
FLRT1 p.Arg326Lys Uncertain significance ★★ same condition
FLRT1 p.Arg452His Uncertain significance ★★ same condition
FLRT1 p.Arg586Gln Uncertain significance ★★ same condition
FLRT1 p.Arg592Gln Uncertain significance ★★ same condition
FLRT1 p.Arg592Trp Uncertain significance ★★ same condition

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/flrt1-p-gly571val (accessed [today's date]).

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