Is RECQL4 p.Phe637= (c.1911C>T) pathogenic?

RECQL4 p.Phe637= (c.1911C>T) is classified Likely benign in RECQL4 (ClinVar, Multiple submitters, 2 submitters; last evaluated 2024-08-06). Ultra-rare (popmax 0.033%, mid); Associated with Baller-Gerold syndrome.

What condition is associated with RECQL4 p.Phe637= (c.1911C>T)?

RECQL4 p.Phe637= (c.1911C>T) is associated with Baller-Gerold syndrome (ClinVar).

How common is RECQL4 p.Phe637= (c.1911C>T) in the general population?

RECQL4 p.Phe637= (c.1911C>T) is ultra-rare (popmax 0.033%, mid) (gnomAD).

RECQL4 p.Phe637=

c.1911C>T · rs765491293 · VCV414182

Likely benign Multiple submitters

Classification

Likely benign

ClinVar

Review

Multiple submitters ★★☆☆

ClinVar · 2 submitters

gnomAD v4.1

Rare

ultra-rare (popmax 0.033%, mid)

Conditions

Baller-Gerold syndrome

Computational evidence

Protein change
Missense predictors do not apply to this variant type; conservation carries the signal.
Splicing
SpliceAI	<0.2	no splice effect predicted · four deltas, not one · how we know
Constraint at this position
Conservation	phyloP 1.3	GERP -1.8, phastCons 1
Overall
CADD	3.27	PHRED · no single calibrated threshold — expert panels disagree

Population frequency

gnomAD v4.1 · exomes + genomes

Grpmax group 0.033% Middle Eastern · 2/6,060 alleles

Filtering AF 0.00582% ClinGen BA1/BS1 input FAF95, joint · FAF99 0.00306%

Overall 0.00125% 20/1,594,080 alleles · ultra-rare exomes 15/1,441,960 · genomes 5/152,120 · joint denominator

Ancestry group	Frequency	1 in
Middle Easterngrpmax	0.033%	3,030
Admixed American	0.0105%	9,550
Remaining individualsnot grpmax-eligible	0.00486%	20,576
African / African-American	0.00403%	24,819
East Asian	0.00229%	43,718
European (non-Finnish)	0.000427%	234,322

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: RECQL4
Protein: p.Phe637=
Coding: c.1911C>T
MANE Select: NM_004260
dbSNP: rs765491293
Type: single nucleotide variant
Location: chr8:144514075 (GRCh38)
Gene constraint: LOEUF 1.519 · pLI <0.01 (gnomAD)
Structure: AlphaFold pLDDT 68.32 · 2 PDB
Residue 637: the helicase atp-binding domain; a β-strand

Full RECQL4 gene report on Sugi Atlas → Gene function, pathways, protein structure, interactions & more

Disease context

Baller-Gerold syndrome — disease report on Sugi Atlas → Associated genes, phenotypes, clinical trials & treatments

Similar variants

RECQL4 p.Phe637Leu Uncertain significance ★ ⚠ same residue
RECQL4 p.Phe637Ser Conflicting classifications of pathogenicity ★ ⚠ same residue
RECQL4 c.1132-1G>A Likely pathogenic ★★ same condition
RECQL4 c.1259-1G>A Pathogenic/Likely pathogenic ★★ same condition
RECQL4 c.1391-1G>A Pathogenic ★★ same condition
RECQL4 c.1704+1G>A Pathogenic/Likely pathogenic ★★ same condition
RECQL4 c.1704+2T>G Likely pathogenic ★★ same condition
RECQL4 c.1705-1G>A Likely pathogenic ★★ 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/recql4-p-phe637 (accessed [today's date]).

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