chr17-1634845-C-G
Variant summary
Our verdict is Uncertain significance. Variant got 0 ACMG points: 2P and 2B. PM2BP4_Moderate
The NM_003693.4(SCARF1):āc.2406G>Cā(p.Gln802His) variant causes a missense change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.00000137 in 1,461,708 control chromosomes in the GnomAD database, with no homozygous occurrence. 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 (ā ).
Frequency
Consequence
NM_003693.4 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 |
---|---|---|---|---|---|---|---|
SCARF1 | NM_003693.4 | c.2406G>C | p.Gln802His | missense_variant | 11/11 | ENST00000263071.9 | |
SCARF1 | NM_145350.3 | c.*659G>C | 3_prime_UTR_variant | 11/11 | |||
SCARF1 | NR_028075.3 | n.2371G>C | non_coding_transcript_exon_variant | 11/11 | |||
SCARF1 | NR_102409.2 | n.2478G>C | non_coding_transcript_exon_variant | 11/11 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | TSL | MANE | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|
SCARF1 | ENST00000263071.9 | c.2406G>C | p.Gln802His | missense_variant | 11/11 | 1 | NM_003693.4 | P2 |
Frequencies
GnomAD3 genomes Cov.: 33
GnomAD4 exome AF: 0.00000137 AC: 2AN: 1461708Hom.: 0 Cov.: 30 AF XY: 0.00000275 AC XY: 2AN XY: 727142
GnomAD4 genome Cov.: 33
ClinVar
Submissions by phenotype
not specified Uncertain:1
Uncertain significance, criteria provided, single submitter | clinical testing | Ambry Genetics | Mar 23, 2022 | The c.2406G>C (p.Q802H) alteration is located in exon 11 (coding exon 11) of the SCARF1 gene. This alteration results from a G to C substitution at nucleotide position 2406, causing the glutamine (Q) at amino acid position 802 to be replaced by a histidine (H). 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