Is MET p.Pro210fs (c.629del) pathogenic?

MET p.Pro210fs (c.629del) is classified Uncertain significance in MET (ClinVar, Single submitter, 1 submitter; last evaluated 2021-05-19). No gnomAD frequency available for this variant; Associated with renal cell carcinoma.

What condition is associated with MET p.Pro210fs (c.629del)?

MET p.Pro210fs (c.629del) is associated with renal cell carcinoma (ClinVar).

How common is MET p.Pro210fs (c.629del) in the general population?

MET p.Pro210fs (c.629del) is no gnomAD frequency available for this variant (gnomAD).

MET p.Pro210fs

c.629del · rs1554378645 · VCV454254

Uncertain significance Single submitter

Classification

Uncertain significance

ClinVar

Review

Single submitter ★☆☆☆

ClinVar · 1 submitter

Consequence

frameshift

predicted LoF

gnomAD v4.1

Not reported

no gnomAD frequency available for this variant

Conditions

renal cell carcinoma

Computational evidence

Protein change
Missense predictors do not apply to this variant type; conservation carries the signal.
Consequence	frameshift	predicted loss-of-function in a LoF-intolerant gene
NMD	predicted	premature termination codon in exon 2 of 21
Splicing
SpliceAI	—	not assessed · substitutions only
Constraint at this position
Conservation	phyloP 0.27	GERP -1.9, phastCons 0.8

Predicted loss-of-function is descriptive, not an applied PVS1 code.

Population frequency

dbSNP / gnomAD

No gnomAD frequency available for this variant. This is missing data, not an absence: the variant may or may not be present in gnomAD. Rarity (ACMG PM2) and BA1/BS1 cannot be assessed for it.

Variant & gene context

Gene: MET
Protein: p.Pro210fs
Coding: c.629del
MANE Select: NM_000245
dbSNP: rs1554378645
Type: Deletion
Location: chr7:116699712 (GRCh38)
Gene constraint: LOEUF 0.446 · pLI 1.00 (gnomAD)
Structure: AlphaFold pLDDT 79.28 · 130 PDB
Residue 210: the sema domain

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

Disease context

renal cell carcinoma — disease report on Sugi Atlas → Associated genes, phenotypes, clinical trials & treatments

Similar variants

MET p.Pro210= Benign/Likely benign ★★ same residue
MET p.Pro210Ser Conflicting classifications of pathogenicity ★ ⚠ same residue
MET p.Pro210Thr Conflicting classifications of pathogenicity ★ ⚠ same residue
MET p.Gly1119del Uncertain significance ★★ same condition
MET p.His1052fs Uncertain significance ★★ same condition
MET p.Leu893fs Uncertain significance ★★ same condition
MET p.Met1fs Uncertain significance ★★ same condition
MET p.Phe258fs 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/met-p-pro210fs (accessed [today's date]).

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