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NM_000104.4(CYP1B1):c.1103G>A (p.Arg368His) AND CYP1B1-related condition

Germline classification:
Uncertain significance (1 submission)
Last evaluated:
Jan 17, 2024
Review status:
1 star out of maximum of 4 stars
criteria provided, single submitter
Somatic classification
of clinical impact:
None
Review status:
(0/4) 0 stars out of maximum of 4 stars
no assertion criteria provided
Somatic classification
of oncogenicity:
None
Review status:
(0/4) 0 stars out of maximum of 4 stars
no assertion criteria provided
Record status:
current
Accession:
RCV003904821.1

Allele description [Variation Report for NM_000104.4(CYP1B1):c.1103G>A (p.Arg368His)]

NM_000104.4(CYP1B1):c.1103G>A (p.Arg368His)

Gene:
CYP1B1:cytochrome P450 family 1 subfamily B member 1 [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
2p22.2
Genomic location:
Preferred name:
NM_000104.4(CYP1B1):c.1103G>A (p.Arg368His)
HGVS:
  • NC_000002.12:g.38071251C>T
  • NG_008386.2:g.9851G>A
  • NM_000104.4:c.1103G>AMANE SELECT
  • NP_000095.2:p.Arg368His
  • NP_000095.2:p.Arg368His
  • NP_000095.2:p.Arg368His
  • NC_000002.11:g.38298394C>T
  • NM_000104.3:c.1103G>A
  • Q16678:p.Arg368His
Protein change:
R368H; ARG368HIS
Links:
UniProtKB: Q16678#VAR_016034; OMIM: 601771.0012; dbSNP: rs79204362
NCBI 1000 Genomes Browser:
rs79204362
Molecular consequence:
  • NM_000104.4:c.1103G>A - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Name:
CYP1B1-related condition
Identifiers:

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Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV004731793PreventionGenetics, part of Exact Sciences
criteria provided, single submitter

(ACMG Guidelines, 2015)
Uncertain significance
(Jan 17, 2024)
germlineclinical testing

PubMed (1)
[See all records that cite this PMID]

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlineunknownnot providednot providednot providednot providednot providedclinical testing

Citations

PubMed

Standards and guidelines for the interpretation of sequence variants: a joint consensus recommendation of the American College of Medical Genetics and Genomics and the Association for Molecular Pathology.

Richards S, Aziz N, Bale S, Bick D, Das S, Gastier-Foster J, Grody WW, Hegde M, Lyon E, Spector E, Voelkerding K, Rehm HL; ACMG Laboratory Quality Assurance Committee..

Genet Med. 2015 May;17(5):405-24. doi: 10.1038/gim.2015.30. Epub 2015 Mar 5.

PubMed [citation]
PMID:
25741868
PMCID:
PMC4544753

Details of each submission

From PreventionGenetics, part of Exact Sciences, SCV004731793.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (1)

Description

The CYP1B1 c.1103G>A variant is predicted to result in the amino acid substitution p.Arg368His. This variant has been reported in the heterozygous and homozygous states in individuals with primary congenital glaucoma (Pasutto et al. 2010. PubMed ID: 19643970; Bejjani et al. 2000. PubMed ID: 10655546). A non-penetrant phenotype has been observed in a family homozygous for this variant (Bejjani et al. 2000. PubMed ID: 10655546). Additionally, digenic inheritance has been reported in an individual who was heterozygous for this variant and a pathogenic variant in the MYOC gene, which has also been associated with glaucoma (Vincent et al. 2002. PubMed ID: 11774072). Potential digenic inheritance has also been reported in two families who were heterozygous for the CYP1B1 c.1103G>A variant as well as a variant in the TEK gene, which has been associated with primary congenital glaucoma (Kabra et al. 2017. PubMed ID: 28620713). In functional studies, the p.Arg368His amino acid change resulted in substantially reduced estradiol and retinol metabolizing activity (Banerjee et al. 2016. PubMed ID: 27243976). Notably, other substitutions of the same amino acid (p.Arg368Cys and p.Arg368Leu) have been documented causative for glaucoma (HGMD - Human Gene Mutation Database). The CYP1B1 c.1103G>A variant has been registered in public databases with allele frequencies up to ~3%, including 13 homozygotes, which is likely too high to be consistent with highly penetrant pathogenic variant. This variant is also registered in the ClinVar database with conflicting interpretations of pathogenicity (https://www.ncbi.nlm.nih.gov/clinvar/variation/7739/). At this time, the clinical significance of this variant is uncertain due to the absence of conclusive functional and genetic evidence.

#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineunknownnot providednot providednot providednot providednot providednot providednot provided

Last Updated: May 7, 2024