TRA2B p.Met1fs
c.-11_12del · VCV3359950
Uncertain significance
Single submitter
Classification
Uncertain significance
ClinVar
Review
Single submitter ★☆☆☆
ClinVar · 1 submitter
Consequence
frameshift
predicted LoF
gnomAD v4.1
Rare
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 1 of 9 |
| Splicing | ||
| SpliceAI | — | not assessed · substitutions only |
| Constraint at this position | ||
| Conservation | phyloP 7.4 | GERP 2.1, phastCons 1 |
Predicted loss-of-function is descriptive, not an applied PVS1 code.
Variant & gene context
- Gene
- TRA2B
- Protein
- p.Met1fs
- Coding
- c.-11_12del
- MANE Select
- NM_004593
- Type
- Deletion
- Location
- chr3:185937849 (GRCh38)
- Gene constraint
- LOEUF 0.528 · pLI 0.96 (gnomAD)
- Structure
- AlphaFold pLDDT 57.18 · 4 PDB
- Residue 1
- the 'disordered' region
Similar variants
- TRA2B p.Met1del Pathogenic same residue
- TRA2B p.Met1Arg Pathogenic same residue
- TRA2B p.Met1Val Pathogenic same residue
- TRA2B p.Arg15fs Uncertain significance ★ same type
- TRA2B p.His94fs Uncertain significance ★ same type
- TRA2B c.170+1del 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/tra2b-p-met1fs (accessed [today's date]).
Preprint & method: sugi.bio/variant/method Machine-readable: this page as Markdown