1-165752099-C-T
Variant summary
Our verdict is Uncertain significance. Variant got 0 ACMG points: 2P and 2B. PM2BP4_Moderate
The NM_019026.6(TMCO1):c.323+3G>A variant causes a splice donor region, intron change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.00000124 in 1,609,224 control chromosomes in the GnomAD database, with no homozygous occurrence. 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_019026.6 splice_donor_region, intron
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 |
---|---|---|---|---|---|---|---|
TMCO1 | NM_019026.6 | c.323+3G>A | splice_donor_region_variant, intron_variant | ENST00000367881.11 | |||
TMCO1 | NM_001256164.1 | c.374+3G>A | splice_donor_region_variant, intron_variant | ||||
TMCO1 | NM_001256165.1 | c.287+3G>A | splice_donor_region_variant, intron_variant | ||||
TMCO1 | NR_045818.1 | n.417+3G>A | splice_donor_region_variant, intron_variant, non_coding_transcript_variant |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | TSL | MANE | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|
TMCO1 | ENST00000367881.11 | c.323+3G>A | splice_donor_region_variant, intron_variant | 1 | NM_019026.6 | P1 |
Frequencies
GnomAD3 genomes AF: 0.00000658 AC: 1AN: 151962Hom.: 0 Cov.: 31
GnomAD4 exome AF: 6.86e-7 AC: 1AN: 1457262Hom.: 0 Cov.: 30 AF XY: 0.00 AC XY: 0AN XY: 725352
GnomAD4 genome AF: 0.00000658 AC: 1AN: 151962Hom.: 0 Cov.: 31 AF XY: 0.00 AC XY: 0AN XY: 74220
ClinVar
Not reported inComputational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at