chr1-147758140-C-T
Variant summary
Our verdict is Benign. Variant got -8 ACMG points: 0P and 8B. BP4_StrongBS2
The NM_181703.4(GJA5):c.*22G>A variant causes a 3 prime UTR change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.00121 in 1,494,698 control chromosomes in the GnomAD database, including 5 homozygotes. In-silico tool predicts a benign outcome for this variant. Variant has been reported in ClinVar as Uncertain significance (★★).
Frequency
Consequence
NM_181703.4 3_prime_UTR
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Benign. Variant got -8 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | MANE | Protein | UniProt |
---|---|---|---|---|---|---|---|---|
GJA5 | NM_181703.4 | c.*22G>A | 3_prime_UTR_variant | Exon 2 of 2 | ENST00000579774.3 | NP_859054.1 | ||
GJA5 | NM_005266.7 | c.*22G>A | 3_prime_UTR_variant | Exon 2 of 2 | NP_005257.2 | |||
LOC102723321 | XR_922079.4 | n.82-19421C>T | intron_variant | Intron 1 of 2 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | TSL | MANE | Protein | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|---|
GJA5 | ENST00000579774 | c.*22G>A | 3_prime_UTR_variant | Exon 2 of 2 | 1 | NM_181703.4 | ENSP00000463851.1 | |||
GJA5 | ENST00000621517 | c.*22G>A | 3_prime_UTR_variant | Exon 2 of 2 | 2 | ENSP00000484552.1 | ||||
ENSG00000274415 | ENST00000612401.1 | n.309-263C>T | intron_variant | Intron 1 of 1 | 5 | |||||
ENSG00000274415 | ENST00000622634.1 | n.480-214C>T | intron_variant | Intron 1 of 1 | 5 |
Frequencies
GnomAD3 genomes AF: 0.000887 AC: 135AN: 152152Hom.: 0 Cov.: 32
GnomAD3 exomes AF: 0.00109 AC: 274AN: 251064Hom.: 2 AF XY: 0.00109 AC XY: 148AN XY: 135780
GnomAD4 exome AF: 0.00125 AC: 1678AN: 1342428Hom.: 5 Cov.: 22 AF XY: 0.00122 AC XY: 824AN XY: 674402
GnomAD4 genome AF: 0.000887 AC: 135AN: 152270Hom.: 0 Cov.: 32 AF XY: 0.000846 AC XY: 63AN XY: 74446
ClinVar
Submissions by phenotype
Atrial fibrillation, familial, 11 Uncertain:1
This variant was observed as part of a predisposition screen in an ostensibly healthy population. A literature search was performed for the gene, cDNA change, and amino acid change (where applicable). No publications were found based on this search. Allele frequency data from public databases did not allow this variant to be ruled in or out of causing disease. Therefore, this variant is classified as a variant of unknown significance. -
not provided Uncertain:1
- -
Computational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at