19-49487634-C-G
Variant summary
Our verdict is Likely benign. Variant got -3 ACMG points: 2P and 5B. PM1BP4BS2
The NM_012423.4(RPL13A):āc.5C>Gā(p.Ala2Gly) variant causes a missense change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.00000423 in 1,419,726 control chromosomes in the GnomAD database, with no homozygous occurrence. In-silico tool predicts a benign outcome for this variant. 13/19 in silico tools predict a benign outcome for this variant. Variant has been reported in ClinVar as Uncertain significance (ā ).
Frequency
Consequence
NM_012423.4 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Likely_benign. Variant got -3 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | MANE | UniProt |
---|---|---|---|---|---|---|---|
RPL13A | NM_012423.4 | c.5C>G | p.Ala2Gly | missense_variant | 1/8 | ENST00000391857.9 | |
RPL13A | NM_001270491.2 | c.-103C>G | 5_prime_UTR_variant | 1/7 | |||
RPL13A | NR_073024.2 | n.27C>G | non_coding_transcript_exon_variant | 1/8 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | TSL | MANE | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|
RPL13A | ENST00000391857.9 | c.5C>G | p.Ala2Gly | missense_variant | 1/8 | 1 | NM_012423.4 | P1 |
Frequencies
GnomAD3 genomes Cov.: 32
GnomAD3 exomes AF: 0.00000552 AC: 1AN: 181026Hom.: 0 AF XY: 0.00 AC XY: 0AN XY: 97360
GnomAD4 exome AF: 0.00000423 AC: 6AN: 1419726Hom.: 0 Cov.: 31 AF XY: 0.00000142 AC XY: 1AN XY: 702820
GnomAD4 genome Cov.: 32
ClinVar
Not reported inComputational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at