17-43127866-GAC-G
Variant summary
Our verdict is Benign. Variant got -16 ACMG points: 0P and 16B. BP6_Very_StrongBA1
The NM_001408458.1(BRCA1):c.-61-12089_-61-12088delGT variant causes a intron change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.105 in 151,448 control chromosomes in the GnomAD database, including 2,600 homozygotes. Variant has been reported in ClinVar as Benign (★★★).
Frequency
Consequence
NM_001408458.1 intron
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Benign. Variant got -16 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | MANE | Protein | UniProt |
---|---|---|---|---|---|---|---|---|
BRCA1 | NM_001408458.1 | c.-61-12089_-61-12088delGT | intron_variant | Intron 1 of 21 | NP_001395387.1 | |||
NBR2 | NR_003108.2 | n.214+2098_214+2099delCA | intron_variant | Intron 1 of 4 | ||||
NBR2 | NR_138145.1 | n.214+2098_214+2099delCA | intron_variant | Intron 1 of 7 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | TSL | MANE | Protein | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|---|
NBR2 | ENST00000356906.7 | n.131+2097_131+2098delAC | intron_variant | Intron 1 of 3 | 1 | |||||
BRCA1 | ENST00000634433.2 | c.-19-3753_-19-3752delGT | intron_variant | Intron 1 of 20 | 5 | ENSP00000489431.2 | ||||
NBR2 | ENST00000460115.5 | n.161+2097_161+2098delAC | intron_variant | Intron 1 of 4 | 2 |
Frequencies
GnomAD3 genomes AF: 0.105 AC: 15890AN: 151332Hom.: 2580 Cov.: 26
GnomAD4 genome AF: 0.105 AC: 15953AN: 151448Hom.: 2600 Cov.: 26 AF XY: 0.102 AC XY: 7532AN XY: 74012
ClinVar
Submissions by phenotype
Breast-ovarian cancer, familial, susceptibility to, 1 Benign:1
Class 1 not pathogenic based on frequency >1% in an outbred sampleset. Frequency 0.37 (African), derived from 1000 genomes (2012-04-30). -
Computational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at