2-69830092-A-G
Variant summary
Our verdict is Uncertain significance. Variant got 0 ACMG points: 2P and 2B. PM2BP4_Moderate
The NM_178439.5(GMCL1):āc.200A>Gā(p.Glu67Gly) variant causes a missense change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.0000154 in 1,426,014 control chromosomes in the GnomAD database, with no homozygous occurrence. In-silico tool predicts a benign outcome for this variant. 13/20 in silico tools predict a benign outcome for this variant. Variant has been reported in ClinVar as Uncertain significance (ā ).
Frequency
Consequence
NM_178439.5 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Uncertain_significance. Variant got 0 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | MANE | UniProt |
---|---|---|---|---|---|---|---|
GMCL1 | NM_178439.5 | c.200A>G | p.Glu67Gly | missense_variant | 1/14 | ENST00000282570.4 | |
GMCL1 | XM_011533033.3 | c.200A>G | p.Glu67Gly | missense_variant | 1/13 | ||
GMCL1 | XR_007079574.1 | n.433A>G | non_coding_transcript_exon_variant | 1/13 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | TSL | MANE | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|
GMCL1 | ENST00000282570.4 | c.200A>G | p.Glu67Gly | missense_variant | 1/14 | 1 | NM_178439.5 | P1 | |
GMCL1 | ENST00000468386.2 | n.407A>G | non_coding_transcript_exon_variant | 1/4 | 5 |
Frequencies
GnomAD3 genomes Cov.: 33
GnomAD3 exomes AF: 0.0000157 AC: 3AN: 190866Hom.: 0 AF XY: 0.0000294 AC XY: 3AN XY: 102052
GnomAD4 exome AF: 0.0000154 AC: 22AN: 1426014Hom.: 0 Cov.: 31 AF XY: 0.0000184 AC XY: 13AN XY: 705714
GnomAD4 genome Cov.: 33
ClinVar
Submissions by phenotype
not specified Uncertain:1
Uncertain significance, criteria provided, single submitter | clinical testing | Ambry Genetics | Jan 30, 2024 | The c.200A>G (p.E67G) alteration is located in exon 1 (coding exon 1) of the GMCL1 gene. This alteration results from a A to G substitution at nucleotide position 200, causing the glutamic acid (E) at amino acid position 67 to be replaced by a glycine (G). 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