chr20-32983859-C-G
Variant summary
Our verdict is Uncertain significance. Variant got 4 ACMG points: 4P and 0B. PM1PM2
The NM_080675.4(SUN5):c.1075G>C(p.Val359Leu) variant causes a missense change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.00000187 in 1,600,072 control chromosomes in the GnomAD database, with no homozygous occurrence. 12/21 in silico tools predict a benign outcome for this variant. Variant has been reported in ClinVar as Uncertain significance (★).
Frequency
Consequence
NM_080675.4 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Uncertain_significance. Variant got 4 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | MANE | Protein | UniProt |
---|---|---|---|---|---|---|---|---|
SUN5 | NM_080675.4 | c.1075G>C | p.Val359Leu | missense_variant | Exon 13 of 13 | ENST00000356173.8 | NP_542406.2 | |
SUN5 | XM_011528573.2 | c.1144G>C | p.Val382Leu | missense_variant | Exon 14 of 14 | XP_011526875.1 | ||
SUN5 | XM_011528574.2 | c.1000G>C | p.Val334Leu | missense_variant | Exon 12 of 12 | XP_011526876.1 | ||
SUN5 | XM_011528575.2 | c.805G>C | p.Val269Leu | missense_variant | Exon 11 of 11 | XP_011526877.1 |
Ensembl
Frequencies
GnomAD3 genomes AF: 0.00000657 AC: 1AN: 152238Hom.: 0 Cov.: 33
GnomAD3 exomes AF: 0.0000124 AC: 3AN: 242872Hom.: 0 AF XY: 0.00000762 AC XY: 1AN XY: 131164
GnomAD4 exome AF: 0.00000138 AC: 2AN: 1447716Hom.: 0 Cov.: 31 AF XY: 0.00000139 AC XY: 1AN XY: 719040
GnomAD4 genome AF: 0.00000656 AC: 1AN: 152356Hom.: 0 Cov.: 33 AF XY: 0.00 AC XY: 0AN XY: 74502
ClinVar
Submissions by phenotype
not specified Uncertain:1
The c.1075G>C (p.V359L) alteration is located in exon 13 (coding exon 13) of the SUN5 gene. This alteration results from a G to C substitution at nucleotide position 1075, causing the valine (V) at amino acid position 359 to be replaced by a leucine (L). 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