NM_001081.4(CUBN):c.9618G>A (p.Leu3206=) AND Imerslund-Gräsbeck syndrome

Clinical significance:Uncertain significance (Last evaluated: Jan 8, 2019)

Review status:1 star out of maximum of 4 stars

criteria provided, single submitter

Based on:
1 submission [Details]
Record status:

Allele description [Variation Report for NM_001081.4(CUBN):c.9618G>A (p.Leu3206=)]

NM_001081.4(CUBN):c.9618G>A (p.Leu3206=)

CUBN:cubilin [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
Genomic location:
Preferred name:
NM_001081.4(CUBN):c.9618G>A (p.Leu3206=)
  • NC_000010.11:g.16851280C>T
  • NG_008967.1:g.283538G>A
  • NM_001081.3:c.9618G>A
  • NM_001081.4:c.9618G>AMANE SELECT
  • NP_001072.2:p.Leu3206=
  • NP_001072.2:p.Leu3206=
  • LRG_540t1:c.9618G>A
  • LRG_540:g.283538G>A
  • LRG_540p1:p.Leu3206=
  • NC_000010.10:g.16893279C>T
dbSNP: rs559567467
NCBI 1000 Genomes Browser:
Molecular consequence:
  • NM_001081.3:c.9618G>A - synonymous variant - [Sequence Ontology: SO:0001819]
  • NM_001081.4:c.9618G>A - synonymous variant - [Sequence Ontology: SO:0001819]


Imerslund-Gräsbeck syndrome (MGA1)
Megaloblastic anemia due to inborn errors of metabolism; Imerslund-Grasbeck syndrome; Pernicious anemia, juvenile, due to selective intestinal malabsorption of vitamin b12, with proteinuria; See all synonyms [MedGen]
MONDO: MONDO:0009853; MedGen: C4551825; Orphanet: 35858; OMIM: PS261100

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Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
SCV001232049Invitaecriteria provided, single submitter
Uncertain significance
(Jan 8, 2019)
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



Sherloc: a comprehensive refinement of the ACMG-AMP variant classification criteria.

Nykamp K, Anderson M, Powers M, Garcia J, Herrera B, Ho YY, Kobayashi Y, Patil N, Thusberg J, Westbrook M; Invitae Clinical Genomics Group., Topper S.

Genet Med. 2017 Oct;19(10):1105-1117. doi: 10.1038/gim.2017.37. Epub 2017 May 11. Erratum in: Genet Med. 2020 Jan;22(1):240-242.

PubMed [citation]

Details of each submission

From Invitae, SCV001232049.2

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


This sequence change affects codon 3206 of the CUBN mRNA. It is a 'silent' change, meaning that it does not change the encoded amino acid sequence of the CUBN protein. This variant is not present in population databases (ExAC no frequency). This variant has not been reported in the literature in individuals with CUBN-related conditions. ClinVar contains an entry for this variant (Variation ID: 299376). Algorithms developed to predict the effect of sequence changes on RNA splicing suggest that this variant may create or strengthen a splice site, but this prediction has not been confirmed by published transcriptional studies. In summary, the available evidence is currently insufficient to determine the role of this variant in disease. Therefore, it has been classified as a Variant of Uncertain Significance.

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

Last Updated: Oct 30, 2021

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