rs104893685
Variant summary
Our verdict is Likely benign. Variant got -1 ACMG points: 2P and 3B. PM2BP6_ModerateBP7
The ENST00000302334.3(BFSP2):c.859C>A(p.Arg287=) variant causes a synonymous change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.00000342 in 1,461,838 control chromosomes in the GnomAD database, with no homozygous occurrence. Variant has been reported in ClinVar as Likely benign (★). Synonymous variant affecting the same amino acid position (i.e. R287R) has been classified as Uncertain significance.
Frequency
Consequence
ENST00000302334.3 synonymous
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Likely_benign. Variant got -1 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | MANE | Protein | UniProt |
---|---|---|---|---|---|---|---|---|
BFSP2 | NM_003571.4 | c.859C>A | p.Arg287= | synonymous_variant | 4/7 | ENST00000302334.3 | NP_003562.1 | |
BFSP2-AS1 | NR_135277.1 | n.381-4857G>T | intron_variant, non_coding_transcript_variant |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | TSL | MANE | Protein | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|---|
BFSP2 | ENST00000302334.3 | c.859C>A | p.Arg287= | synonymous_variant | 4/7 | 1 | NM_003571.4 | ENSP00000304987 | P1 | |
BFSP2-AS1 | ENST00000515542.1 | n.168-1537G>T | intron_variant, non_coding_transcript_variant | 1 | ||||||
BFSP2 | ENST00000510039.1 | n.10C>A | non_coding_transcript_exon_variant | 1/4 | 3 | |||||
BFSP2 | ENST00000511434.1 | n.325C>A | non_coding_transcript_exon_variant | 2/4 | 3 |
Frequencies
GnomAD3 genomes Cov.: 31
GnomAD3 exomes AF: 0.00000398 AC: 1AN: 251152Hom.: 0 AF XY: 0.00000737 AC XY: 1AN XY: 135736
GnomAD4 exome AF: 0.00000342 AC: 5AN: 1461838Hom.: 0 Cov.: 31 AF XY: 0.00000550 AC XY: 4AN XY: 727220
GnomAD4 genome Cov.: 31
ClinVar
Submissions by phenotype
Cataract 12 multiple types Benign:1
Likely benign, criteria provided, single submitter | clinical testing | Labcorp Genetics (formerly Invitae), Labcorp | May 08, 2023 | - - |
Computational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at