Updates for c.1399C>T:
2015-07-17 class changed from non-disease-causing to unclassified
2020-06-23 update class from VUS4 to VUS2




Variant NM_000492.4:c.1399C>T


Variant details:
Name NM_000492.4:c.1399C>T
Protein name NP_000483.3:p.(Leu467Phe)
Genomic name (hg19)     chr7:g.117199524C>T    UCSC    
Genomic name (hg38) chr7:g.117559470C>T    UCSC
#Exon/intron exon 11
Legacy Name 1531C/T (L467F)
Class VUS
Subclass VUS
complex allele in 31.58% of patients associated with
  • c.1521_1523del - p.(Phe508del) : 100.00%
    • WT sequence TGATGGGTTTTATTTCCAGACTTCA C TTCTAATGGTGATTATGGGAGAACT
    Mutant sequence TGATGGGTTTTATTTCCAGACTTCA T TTCTAATGGTGATTATGGGAGAACT

    Other databases:

    Not found    		dbSNP
    rs1800089



    Pathogenicity predictors:




    No patient found in CFTR-NGS catalogue


    19 patients carrying this variant are reported in CFTR-France:

    TOTAL NUMBER OF PATIENTS 19
    CF 13
    CFTR-RD6
    • CBAVD  5
    • Other  1




    Color code:   non disease-causing <   likely benign <   VUS <   likely pathogenic <   disease-causing

    Detailed genotypes:
    Phenotype Patient ID Variant status Additional variants
    CBAVD 4699heterozygoteCFTR-RD-causing- Undef
    CF-causing- Undef
    CBAVD 5460heterozygoteCF-causing - Cis
    VUS3 - Cis
    CFTR-RD-causing - Trans
    CBAVD 1644heterozygoteCFTR-RD-causing- Undef
    CF-causing- Undef
    CBAVD 1327heterozygoteCF-causing - Cis
    varying clinical consequence - Trans
    CBAVD 810heterozygoteCF-causing- Undef
    CFTR-RD-causing- Undef
    CF 4946heterozygoteCF-causing- Undef
    CF-causing- Undef
    CF 6404heterozygoteCF-causing - Cis
    CF-causing- Undef
    CF 6254heterozygoteCF-causing - Cis
    CF-causing - Trans
    CF 6353heterozygoteCF-causing - Cis
    CF-causing - Trans
    CF 6340heterozygoteCF-causing - Cis
    CF-causing - Trans
    CF 5256heterozygoteCF-causing- Undef
    CF-causing- Undef
    CF 920heterozygoteCF-causing- Undef
    CF-causing- Undef
    CF 713heterozygoteCF-causing - Cis
    CF-causing - Trans
    CF 663heterozygoteCF-causing - Cis
    varying clinical consequence - Trans
    CF 662heterozygoteCF-causing - Cis
    varying clinical consequence - Trans
    CF 581heterozygoteCF-causing - Cis
    CF-causing - Trans
    CF 96heterozygoteCF-causing - Cis
    CF-causing - Trans
    CF 4406heterozygoteCF-causing- Undef
    CF-causing- Undef
    Other 6489heterozygoteCF-causing - Cis
    CFTR-RD-causing- Undef


    Color code:   non disease-causing <   likely benign <   VUS <   likely pathogenic <   disease-causing



                CFTR variants are clustered into five groups (click here for more details about the classification of variants):
    • CF-causing: when in trans with another CF-causing mutation, will result in CF.
    • CFTR-RD causing: when in trans with a CF-causing mutation, will result in CFTR-related disorders (CFTR-RD) such as chronic pancreatitis, bronchiectasis, CRS-NP (chronic rhinosinusitis with or without nasal polyposis) or CBAVD (congenital absence of vas deferens), according to Bombieri C et al., 2011.
    • Varying clinical consequence: when in trans with another CF-causing mutation, can either result in CF or in a CFTR-RD.
    • Non disease-causing: when in trans with a CF-causing mutation, will not cause CF, nor CFTR-RD.
    • VUS (Variant of unknown clinical significance): unclassified because of insufficient data.



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