CD248 p.Ile85=
c.255C>T · rs115512520 · VCV786597
Benign
Single submitter
Classification
Benign
ClinVar
Review
Single submitter ★☆☆☆
ClinVar · 1 submitter
gnomAD v4.1
Rare
low-frequency (popmax 3.24%, afr)
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 -1.2 | GERP -2.6 |
| Overall | ||
| CADD | 5.197 | PHRED · no single calibrated threshold — expert panels disagree |
Population frequency
gnomAD v4.1 · exomes + genomes
Grpmax group
3.24%
African / African-American · 2,429/74,888 alleles
Filtering AF
3.14%
ClinGen BA1/BS1 input
FAF95, joint · FAF99 3.09%
Overall
0.187%
2,981/1,597,340 alleles · low-frequency
| Ancestry group | Frequency | 1 in |
|---|---|---|
| African / African-Americangrpmax | 3.24% | 31 |
| Admixed American | 0.302% | 331 |
| Remaining individualsnot grpmax-eligible | 0.276% | 363 |
| Middle Eastern | 0.242% | 414 |
| South Asian | 0.044% | 2,271 |
| European (non-Finnish) | 0.0126% | 7,909 |
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
- CD248
- Protein
- p.Ile85=
- Coding
- c.255C>T
- MANE Select
- NM_020404
- dbSNP
- rs115512520
- Type
- single nucleotide variant
- Location
- chr11:66316773 (GRCh38)
- Gene constraint
- LOEUF 1.594 · pLI <0.01 (gnomAD)
- Structure
- AlphaFold pLDDT 63.70
- Residue 85
- the c-type lectin domain
Similar variants
- CD248 p.Ala303Val Likely benign ★★ ⚠ same type
- CD248 p.Ala486Thr Benign ★★ same type
- CD248 p.Arg101= Benign ★★ same type
- CD248 p.Asp379= Benign ★★ same type
- CD248 p.Ile485= Benign ★★ same type
- CD248 p.Pro412= Benign ★★ same type
- CD248 p.Ser598= Benign ★★ same type
- CD248 p.Tyr410= Benign ★★ 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/cd248-p-ile85 (accessed [today's date]).
Preprint & method: sugi.bio/variant/method Machine-readable: this page as Markdown