rs717689
Variant summary
Our verdict is Benign. Variant got -12 ACMG points: 0P and 12B. BP4_StrongBA1
The NM_000291.4(PGK1):c.937-436C>T variant causes a intron change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.0953 in 110,429 control chromosomes in the GnomAD database, including 480 homozygotes. There are 3,021 hemizygotes in GnomAD. In-silico tool predicts a benign outcome for this variant. No clinical diagnostic laboratories have submitted clinical-significance assessments for this variant to ClinVar.
Frequency
Consequence
NM_000291.4 intron
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Benign. Variant got -12 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | MANE | UniProt |
---|---|---|---|---|---|---|---|
PGK1 | NM_000291.4 | c.937-436C>T | intron_variant | ENST00000373316.5 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | TSL | MANE | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|
PGK1 | ENST00000373316.5 | c.937-436C>T | intron_variant | 1 | NM_000291.4 | P1 | |||
PGK1 | ENST00000644362.1 | c.853-436C>T | intron_variant |
Frequencies
GnomAD3 genomes AF: 0.0953 AC: 10521AN: 110378Hom.: 478 Cov.: 22 AF XY: 0.0926 AC XY: 3021AN XY: 32632
GnomAD4 genome AF: 0.0953 AC: 10528AN: 110429Hom.: 480 Cov.: 22 AF XY: 0.0924 AC XY: 3021AN XY: 32693
ClinVar
Not reported inComputational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at