8-21994426-A-C
Variant summary
Our verdict is Likely benign. Variant got -4 ACMG points: 0P and 4B. BS2
The NM_015024.5(XPO7):āc.2212A>Cā(p.Ser738Arg) variant causes a missense change involving the alteration of a conserved nucleotide. The variant allele was found at a frequency of 0.00000411 in 1,459,872 control chromosomes in the GnomAD database, with no homozygous occurrence. Variant has been reported in ClinVar as Uncertain significance (ā ).
Frequency
Consequence
NM_015024.5 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Likely_benign. Variant got -4 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | MANE | Protein | UniProt |
---|---|---|---|---|---|---|---|---|
XPO7 | NM_015024.5 | c.2212A>C | p.Ser738Arg | missense_variant | Exon 20 of 28 | ENST00000252512.14 | NP_055839.3 | |
XPO7 | NM_001100161.2 | c.2239A>C | p.Ser747Arg | missense_variant | Exon 20 of 28 | NP_001093631.1 | ||
XPO7 | NM_001362802.2 | c.2146A>C | p.Ser716Arg | missense_variant | Exon 19 of 27 | NP_001349731.1 | ||
XPO7 | NR_156173.2 | n.2432A>C | non_coding_transcript_exon_variant | Exon 21 of 29 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | TSL | MANE | Protein | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|---|
XPO7 | ENST00000252512.14 | c.2212A>C | p.Ser738Arg | missense_variant | Exon 20 of 28 | 1 | NM_015024.5 | ENSP00000252512.9 | ||
XPO7 | ENST00000433566.8 | c.2215A>C | p.Ser739Arg | missense_variant | Exon 20 of 28 | 5 | ENSP00000410249.3 | |||
XPO7 | ENST00000517551.2 | c.142A>C | p.Ser48Arg | missense_variant | Exon 2 of 6 | 5 | ENSP00000429317.2 |
Frequencies
GnomAD3 genomes Cov.: 31
GnomAD3 exomes AF: 0.00000402 AC: 1AN: 248812Hom.: 0 AF XY: 0.00000741 AC XY: 1AN XY: 134978
GnomAD4 exome AF: 0.00000411 AC: 6AN: 1459872Hom.: 0 Cov.: 30 AF XY: 0.00 AC XY: 0AN XY: 726136
GnomAD4 genome Cov.: 31
ClinVar
Submissions by phenotype
not specified Uncertain:1
The c.2212A>C (p.S738R) alteration is located in exon 20 (coding exon 20) of the XPO7 gene. This alteration results from a A to C substitution at nucleotide position 2212, causing the serine (S) at amino acid position 738 to be replaced by an arginine (R). 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