NRAP p.Pro1635=
c.4905G>A · rs11575691 · VCV1257443
Benign
Multiple submitters
Classification
Benign
ClinVar
Review
Multiple submitters ★★☆☆
ClinVar · 4 submitters
gnomAD v4.1
Common
common (popmax 8.71%, nfe) — too common for a highly-penetrant pathogenic allele
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 -20 | GERP -5.4 |
| Overall | ||
| CADD | 0.061 | PHRED · no single calibrated threshold — expert panels disagree |
Population frequency
gnomAD v4.1 · exomes + genomes
Grpmax group
8.71%
European (non-Finnish) · 102,788/1,179,954 alleles
Filtering AF
8.67%
ClinGen BA1/BS1 input
FAF95, joint · FAF99 8.65%
Overall
7.48%
120,635/1,613,770 alleles · common
exomes 112,459/1,461,602 · genomes 8,176/152,168 · joint denominator
| Ancestry group | Frequency | 1 in |
|---|---|---|
| European (non-Finnish)grpmax | 8.71% | 11 |
| Middle Eastern | 7.03% | 14 |
| Remaining individualsnot grpmax-eligible | 6.61% | 15 |
| Finnishnot grpmax-eligible | 5.87% | 17 |
| Ashkenazi Jewishnot grpmax-eligible | 5.47% | 18 |
| South Asian | 5.02% | 20 |
| Admixed American | 3.92% | 26 |
| Amishnot grpmax-eligible | 2.52% | 40 |
| African / African-American | 1.24% | 81 |
| East Asian | 0.109% | 916 |
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
- NRAP
- Protein
- p.Pro1635=
- Coding
- c.4905G>A
- MANE Select
- NM_198060
- dbSNP
- rs11575691
- Type
- single nucleotide variant
- Location
- chr10:113590629 (GRCh38)
- Gene constraint
- LOEUF 1.045 · pLI <0.01 (gnomAD)
- Structure
- AlphaFold pLDDT 51.98
Similar variants
- NRAP p.Pro1635Leu Uncertain significance ★ ⚠ same residue
- NRAP p.Pro1635Ser Uncertain significance ★ ⚠ same residue
- NRAP p.Arg1037Ter Pathogenic/Likely pathogenic ★★ same type
- NRAP p.Trp1033Ter Pathogenic/Likely pathogenic ★★ same type
- NRAP c.360+1G>A Uncertain significance ★★ same type
- NRAP p.Ala29Gly Uncertain significance ★★ ⚠ same type
- NRAP p.Ala571Thr Uncertain significance ★★ same type
- NRAP p.Arg1330Gln Uncertain significance ★★ ⚠ 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/nrap-p-pro1635 (accessed [today's date]).
Preprint & method: sugi.bio/variant/method Machine-readable: this page as Markdown