8-21999172-C-G
Variant summary
Our verdict is Likely benign. Variant got -4 ACMG points: 0P and 4B. BS2
The NM_015024.5(XPO7):āc.2510C>Gā(p.Ser837Cys) variant causes a missense change involving the alteration of a conserved nucleotide. The variant allele was found at a frequency of 0.00000372 in 1,613,862 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.2510C>G | p.Ser837Cys | missense_variant | Exon 23 of 28 | ENST00000252512.14 | NP_055839.3 | |
XPO7 | NM_001100161.2 | c.2537C>G | p.Ser846Cys | missense_variant | Exon 23 of 28 | NP_001093631.1 | ||
XPO7 | NM_001362802.2 | c.2444C>G | p.Ser815Cys | missense_variant | Exon 22 of 27 | NP_001349731.1 | ||
XPO7 | NR_156173.2 | n.2730C>G | non_coding_transcript_exon_variant | Exon 24 of 29 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | TSL | MANE | Protein | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|---|
XPO7 | ENST00000252512.14 | c.2510C>G | p.Ser837Cys | missense_variant | Exon 23 of 28 | 1 | NM_015024.5 | ENSP00000252512.9 | ||
XPO7 | ENST00000433566.8 | c.2513C>G | p.Ser838Cys | missense_variant | Exon 23 of 28 | 5 | ENSP00000410249.3 | |||
XPO7 | ENST00000517551.2 | c.440C>G | p.Ser147Cys | missense_variant | Exon 5 of 6 | 5 | ENSP00000429317.2 |
Frequencies
GnomAD3 genomes AF: 0.00000657 AC: 1AN: 152150Hom.: 0 Cov.: 32
GnomAD4 exome AF: 0.00000342 AC: 5AN: 1461712Hom.: 0 Cov.: 31 AF XY: 0.00000138 AC XY: 1AN XY: 727138
GnomAD4 genome AF: 0.00000657 AC: 1AN: 152150Hom.: 0 Cov.: 32 AF XY: 0.0000135 AC XY: 1AN XY: 74332
ClinVar
Submissions by phenotype
not specified Uncertain:1
The c.2510C>G (p.S837C) alteration is located in exon 23 (coding exon 23) of the XPO7 gene. This alteration results from a C to G substitution at nucleotide position 2510, causing the serine (S) at amino acid position 837 to be replaced by a cysteine (C). 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