ABL1 p.Ala567=
c.1701C>T · rs34372796 · VCV710631
Benign/Likely benign
Multiple submitters
Classification
Benign/Likely benign
ClinVar
Review
Multiple submitters ★★☆☆
ClinVar · 4 submitters
gnomAD v4.1
Rare
rare (popmax 0.543%, nfe)
Computational evidence
| Protein change | ||
| Missense predictors do not apply to this variant type; conservation carries the signal. | ||
| Splicing | ||
| SpliceAI | — | not assessed · no allele here is in the release |
|---|---|---|
| Constraint at this position | ||
| Conservation | phyloP -5.2 | GERP -3.7 |
| Overall | ||
| CADD | 1.164 | PHRED · no single calibrated threshold — expert panels disagree |
Population frequency
gnomAD v4.1 · exomes + genomes
Grpmax group
0.543%
European (non-Finnish) · 6,409/1,179,700 alleles
Filtering AF
0.532%
ClinGen BA1/BS1 input
FAF95, joint · FAF99 0.528%
Overall
0.413%
6,658/1,612,888 alleles · rare
| Ancestry group | Frequency | 1 in |
|---|---|---|
| European (non-Finnish)grpmax | 0.543% | 184 |
| Remaining individualsnot grpmax-eligible | 0.211% | 473 |
| African / African-American | 0.0867% | 1,153 |
| Ashkenazi Jewishnot grpmax-eligible | 0.0474% | 2,112 |
| Finnishnot grpmax-eligible | 0.0378% | 2,647 |
| Admixed American | 0.0201% | 4,988 |
| East Asian | 0.00223% | 44,876 |
| South Asian | 0.0011% | 90,984 |
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
- ABL1
- Protein
- p.Ala567=
- Coding
- c.1701C>T
- MANE Select
- NM_005157
- dbSNP
- rs34372796
- Type
- single nucleotide variant
- Location
- chr9:130883991 (GRCh38)
- Gene constraint
- LOEUF 0.19 · pLI 1.00 (gnomAD)
- Structure
- AlphaFold pLDDT 64.68 · 85 PDB
- Residue 567
- the 'disordered' region
Similar variants
- ABL1 p.Ala567Val Uncertain significance ★ ⚠ same residue
- ABL1 p.Ala337Thr Pathogenic ★★ ⚠ same type
- ABL1 p.Ala433Thr Likely pathogenic ★★ same type
- ABL1 p.Asp504Gly Likely pathogenic ★★ ⚠ same type
- ABL1 p.Glu509Lys Pathogenic/Likely pathogenic ★★ same type
- ABL1 p.Gly254Arg Pathogenic/Likely pathogenic ★★ same type
- ABL1 p.Pro230Leu Likely pathogenic ★★ same type
- ABL1 p.Trp99Arg Likely pathogenic ★★ 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/abl1-p-ala567 (accessed [today's date]).
Preprint & method: sugi.bio/variant/method Machine-readable: this page as Markdown