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NM_005555.4(KRT6B):c.533T>A (p.Ile178Asn) AND not provided

Germline classification:
Likely pathogenic (1 submission)
Last evaluated:
Jan 14, 2016
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:
RCV000493627.1

Allele description [Variation Report for NM_005555.4(KRT6B):c.533T>A (p.Ile178Asn)]

NM_005555.4(KRT6B):c.533T>A (p.Ile178Asn)

Gene:
KRT6B:keratin 6B [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
12q13.13
Genomic location:
Preferred name:
NM_005555.4(KRT6B):c.533T>A (p.Ile178Asn)
HGVS:
  • NC_000012.12:g.52451546A>T
  • NG_008299.1:g.5581T>A
  • NM_005555.4:c.533T>AMANE SELECT
  • NP_005546.2:p.Ile178Asn
  • NC_000012.11:g.52845330A>T
  • NM_005555.3:c.533T>A
Protein change:
I178N
Links:
dbSNP: rs1131691901
NCBI 1000 Genomes Browser:
rs1131691901
Molecular consequence:
  • NM_005555.4:c.533T>A - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Synonyms:
none provided
Identifiers:
MedGen: CN517202

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Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV000583100GeneDx
criteria provided, single submitter

(GeneDx Variant Classification (06012015))
Likely pathogenic
(Jan 14, 2016)
germlineclinical testing

Citation Link

Summary from all submissions

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

Details of each submission

From GeneDx, SCV000583100.4

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testingnot provided

Description

To our knowledge, the I178N variant has not been published as a pathogenic variant, nor has it been reported as a benign variant. It was not observed in approximately 6,500 individuals of European and African American ancestry in the NHLBI Exome Sequencing Project, indicating it is not a common benign variant in these populations. The I178N variant is a non-conservative amino acid substitution, which is likely to impact secondary protein structure as these residues differ in polarity, charge, size and/or other properties. This substitution occurs within a known mutational hotspot region (helix initiation motif) that is highly conserved across all species and among all members of the keratin family. It is well established that keratin gene mutations affecting the residues at the ends of the central rod domains of the keratin proteins (helix initiation and termination motifs) interfere with proper keratin intermediate filament assembly and function, resulting in hyperkeratosis (Chamcheu et al., 2011). Nevertheless, since only a single pathogenic change in KRT6B has been reported to affect the helix initiation motif, we consider the I178N variant as likely pathogenic

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

Last Updated: Apr 23, 2022