11-65883993-A-C
Variant summary
Our verdict is Likely benign. Variant got -5 ACMG points: 0P and 5B. BP4BS2
The NM_004214.5(FIBP):āc.1055T>Gā(p.Leu352Arg) variant causes a missense change. The variant allele was found at a frequency of 0.000772 in 1,613,996 control chromosomes in the GnomAD database, including 2 homozygotes. In-silico tool predicts a benign outcome for this variant. Variant has been reported in ClinVar as Uncertain significance (ā ā ).
Frequency
Consequence
NM_004214.5 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Likely_benign. Variant got -5 ACMG points.
Transcripts
RefSeq
Ensembl
Frequencies
GnomAD3 genomes AF: 0.000394 AC: 60AN: 152214Hom.: 0 Cov.: 32
GnomAD3 exomes AF: 0.000389 AC: 97AN: 249474Hom.: 0 AF XY: 0.000400 AC XY: 54AN XY: 135066
GnomAD4 exome AF: 0.000811 AC: 1186AN: 1461664Hom.: 2 Cov.: 32 AF XY: 0.000748 AC XY: 544AN XY: 727124
GnomAD4 genome AF: 0.000394 AC: 60AN: 152332Hom.: 0 Cov.: 32 AF XY: 0.000268 AC XY: 20AN XY: 74490
ClinVar
Submissions by phenotype
Inborn genetic diseases Uncertain:1
The c.1076T>G (p.L359R) alteration is located in exon 10 (coding exon 10) of the FIBP gene. This alteration results from a T to G substitution at nucleotide position 1076, causing the leucine (L) at amino acid position 359 to be replaced by an arginine (R). Based on insufficient or conflicting evidence, the clinical significance of this alteration remains unclear. -
Tall stature-intellectual disability-renal anomalies syndrome Uncertain:1
This sequence variant is a single nucleotide substitution (T>G) at position 1055 of the coding sequence of the FIBP gene that results in a leucine to arginine amino acid change at residue 352 of the FIBP protein. This variant is present in control population datasets (gnomAD database, 106 of 280,878 alleles, 0.04%) but is absent from online datasets of clinically annotated variants (ClinVar). To our knowledge, this variant has not been observed in an individual with an FIBP-related disorder in the published literature. Multiple bioinformatic tools predict that this leucine to arginine amino acid change would be damaging, and the Leu352 residue is strongly conserved across the vertebrate species examined. Studies examining the functiol consequence of this variant have not been published, to our knowledge. At this time, there is insufficient evidence to determine if this variant is pathogenic or benign. Therefore, we consider this a variant of uncertain significance. ACMG Criteria: PP3 -
Computational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at