10-86658613-G-A
Variant summary
Our verdict is Uncertain significance. Variant got 0 ACMG points: 2P and 2B. PM2BP4_Moderate
The NM_033282.4(OPN4):c.554G>A(p.Arg185Lys) variant causes a missense change involving the alteration of a non-conserved nucleotide. The variant was absent in control chromosomes in GnomAD project. In-silico tool predicts a benign outcome for this variant. 15/21 in silico tools predict a benign outcome for this variant. Variant has been reported in ClinVar as Uncertain significance (★).
Frequency
Consequence
NM_033282.4 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 |
---|---|---|---|---|---|---|---|
OPN4 | NM_033282.4 | c.554G>A | p.Arg185Lys | missense_variant | 4/10 | ENST00000241891.10 | |
LOC105378409 | XR_001747526.2 | n.382-319C>T | intron_variant, non_coding_transcript_variant |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | TSL | MANE | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|
OPN4 | ENST00000241891.10 | c.554G>A | p.Arg185Lys | missense_variant | 4/10 | 1 | NM_033282.4 | P1 | |
OPN4 | ENST00000372071.7 | c.587G>A | p.Arg196Lys | missense_variant | 5/11 | 1 | |||
OPN4 | ENST00000686083.1 | n.1253G>A | non_coding_transcript_exon_variant | 1/3 | |||||
OPN4 | ENST00000690949.1 | n.588G>A | non_coding_transcript_exon_variant | 5/11 |
Frequencies
GnomAD3 genomes ? Cov.: 33
GnomAD4 exome Cov.: 32
GnomAD4 genome ? Cov.: 33
ClinVar
Submissions by phenotype
not specified Uncertain:1
Uncertain significance, criteria provided, single submitter | clinical testing | Ambry Genetics | Jan 09, 2024 | The c.587G>A (p.R196K) alteration is located in exon 5 (coding exon 5) of the OPN4 gene. This alteration results from a G to A substitution at nucleotide position 587, causing the arginine (R) at amino acid position 196 to be replaced by a lysine (K). 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
Publications
No publications associated with this variant yet.