14-85622436-C-T
Variant summary
Our verdict is Uncertain significance. Variant got 3 ACMG points: 3P and 0B. PM2PP3
The NM_013231.6(FLRT2):c.922C>T(p.Arg308Trp) variant causes a missense change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.00000137 in 1,461,880 control chromosomes in the GnomAD database, with no homozygous occurrence. In-silico tool predicts a pathogenic outcome for this variant. Variant has been reported in ClinVar as Uncertain significance (★).
Frequency
Consequence
NM_013231.6 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Uncertain_significance. Variant got 3 ACMG points.
Transcripts
RefSeq
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | TSL | MANE | Protein | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|---|
FLRT2 | ENST00000330753.6 | c.922C>T | p.Arg308Trp | missense_variant | Exon 2 of 2 | 1 | NM_013231.6 | ENSP00000332879.4 | ||
FLRT2 | ENST00000554746.1 | c.922C>T | p.Arg308Trp | missense_variant | Exon 2 of 2 | 1 | ENSP00000451050.1 | |||
FLRT2 | ENST00000682132.1 | c.922C>T | p.Arg308Trp | missense_variant | Exon 2 of 2 | ENSP00000507088.1 | ||||
FLRT2 | ENST00000683129.1 | c.922C>T | p.Arg308Trp | missense_variant | Exon 2 of 2 | ENSP00000507815.1 |
Frequencies
GnomAD3 genomes Cov.: 32
GnomAD4 exome AF: 0.00000137 AC: 2AN: 1461880Hom.: 0 Cov.: 37 AF XY: 0.00000275 AC XY: 2AN XY: 727242
GnomAD4 genome Cov.: 32
ClinVar
Submissions by phenotype
not specified Uncertain:1
The c.922C>T (p.R308W) alteration is located in exon 2 (coding exon 1) of the FLRT2 gene. This alteration results from a C to T substitution at nucleotide position 922, causing the arginine (R) at amino acid position 308 to be replaced by a tryptophan (W). Based on insufficient or conflicting evidence, the clinical significance of this alteration remains unclear. -
Computational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at