8-120432042-G-A
Variant summary
Our verdict is Uncertain significance. Variant got 1 ACMG points: 2P and 1B. PM2BP4
The NM_014078.6(MRPL13):c.233C>T(p.Ser78Phe) variant causes a missense change involving the alteration of a conserved nucleotide. The variant allele was found at a frequency of 0.00000069 in 1,449,404 control chromosomes in the GnomAD database, with no homozygous occurrence. In-silico tool predicts a benign outcome for this variant. Variant has been reported in ClinVar as Uncertain significance (★).
Frequency
Consequence
NM_014078.6 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Uncertain_significance. Variant got 1 ACMG points.
Transcripts
RefSeq
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | TSL | MANE | Protein | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|---|
MRPL13 | ENST00000306185.8 | c.233C>T | p.Ser78Phe | missense_variant | Exon 3 of 7 | 1 | NM_014078.6 | ENSP00000306548.3 | ||
MRPL13 | ENST00000518696.5 | n.152-6676C>T | intron_variant | Intron 2 of 5 | 1 | ENSP00000428867.1 | ||||
MRPL13 | ENST00000518918.1 | c.161C>T | p.Ser54Phe | missense_variant | Exon 3 of 6 | 2 | ENSP00000430545.1 | |||
MRPL13 | ENST00000520677.1 | n.157-6676C>T | intron_variant | Intron 2 of 3 | 3 |
Frequencies
GnomAD3 genomes Cov.: 32
GnomAD3 exomes AF: 0.00000409 AC: 1AN: 244250Hom.: 0 AF XY: 0.00 AC XY: 0AN XY: 132052
GnomAD4 exome AF: 6.90e-7 AC: 1AN: 1449404Hom.: 0 Cov.: 29 AF XY: 0.00 AC XY: 0AN XY: 721000
GnomAD4 genome Cov.: 32
ClinVar
Submissions by phenotype
not specified Uncertain:1
The c.233C>T (p.S78F) alteration is located in exon 3 (coding exon 3) of the MRPL13 gene. This alteration results from a C to T substitution at nucleotide position 233, causing the serine (S) at amino acid position 78 to be replaced by a phenylalanine (F). 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