rs121912837
Variant summary
Our verdict is Pathogenic. Variant got 17 ACMG points: 17P and 0B. PS1PM1PM2PM5PP2PP3_StrongPP5_Moderate
The NM_000094.4(COL7A1):c.6724G>C(p.Gly2242Arg) variant causes a missense change. The variant was absent in control chromosomes in GnomAD project. In-silico tool predicts a pathogenic outcome for this variant. Variant has been reported in ClinVar as Pathogenic (★). Another nucleotide change resulting in same amino acid change has been previously reported as Pathogenicin ClinVar. Another variant affecting the same amino acid position, but resulting in a different missense (i.e. G2242E) has been classified as Pathogenic.
Frequency
Consequence
NM_000094.4 missense
Scores
Clinical Significance
Conservation
Genome browser will be placed here
ACMG classification
Verdict is Pathogenic. Variant got 17 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | MANE | UniProt |
---|---|---|---|---|---|---|---|
COL7A1 | NM_000094.4 | c.6724G>C | p.Gly2242Arg | missense_variant | 86/119 | ENST00000681320.1 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | TSL | MANE | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|
COL7A1 | ENST00000681320.1 | c.6724G>C | p.Gly2242Arg | missense_variant | 86/119 | NM_000094.4 | P1 | ||
COL7A1 | ENST00000328333.12 | c.6724G>C | p.Gly2242Arg | missense_variant | 85/118 | 1 | P1 | ||
COL7A1 | ENST00000487017.5 | n.2641G>C | non_coding_transcript_exon_variant | 51/83 | 5 |
Frequencies
GnomAD3 genomes ? Cov.: 32
GnomAD4 exome Cov.: 37
GnomAD4 genome ? Cov.: 32
ClinVar
Submissions by phenotype
Inborn genetic diseases Pathogenic:1
Pathogenic, criteria provided, single submitter | clinical testing | Ambry Genetics | Oct 04, 2012 | Co-segregation data for this variant is currently unavailable. This variant has not been detected in conjunction with a pathogenic mutation to date.This variant was previously reported in the SNPDatabase as rs121912837 (Database of Single Nucleotide Polymorphisms (dbSNP). Bethesda (MD): National Center for Biotechnology Information, National Library of Medicine. (dbSNP Build ID: 135). Available from: http://www.ncbi.nlm.nih.gov/SNP. Accessed Jan 2012). To our knowledge, this alteration has not been previously reported in the NHLBI Exome Sequencing Project (ESP) and 1000 Genome databases. This nucleotide position is well conserved in available vertebrate species. This amino acid position is highly conserved in available vertebrate species.This alteration is predicted to be probably damaging with a score of 0.999 (sensitivity: 0.09; specificity: 0.99)This alteration is predicted to be deleterious with a score of 0.000 (conservation: 2.73) - |
Computational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at