NM_020975.6(RET):c.166C>A (p.Leu56Met) AND not specified
- Germline classification:
- Benign/Likely benign (8 submissions)
- Last evaluated:
- Jul 31, 2024
- Review status:
- 2 stars out of maximum of 4 starscriteria provided, multiple submitters, no conflicts
- Somatic classification
of clinical impact: - None
- Review status:
- (0/4) 0 stars out of maximum of 4 starsno assertion criteria provided
- Somatic classification
of oncogenicity: - None
- Review status:
- (0/4) 0 stars out of maximum of 4 starsno assertion criteria provided
- Record status:
- current
- Accession:
- RCV000121985.42
Allele description [Variation Report for NM_020975.6(RET):c.166C>A (p.Leu56Met)]
NM_020975.6(RET):c.166C>A (p.Leu56Met)
- Gene:
- RET:ret proto-oncogene [Gene - OMIM - HGNC]
- Variant type:
- single nucleotide variant
- Cytogenetic location:
- 10q11.21
- Genomic location:
- Preferred name:
- NM_020975.6(RET):c.166C>A (p.Leu56Met)
- HGVS:
- NC_000010.11:g.43100551C>A
- NG_007489.1:g.28483C>A
- NM_000323.2:c.166C>A
- NM_001406743.1:c.166C>A
- NM_001406744.1:c.166C>A
- NM_001406759.1:c.166C>A
- NM_001406760.1:c.166C>A
- NM_001406761.1:c.166C>A
- NM_001406762.1:c.166C>A
- NM_001406763.1:c.166C>A
- NM_001406764.1:c.166C>A
- NM_001406765.1:c.166C>A
- NM_001406766.1:c.166C>A
- NM_001406767.1:c.166C>A
- NM_001406768.1:c.166C>A
- NM_001406769.1:c.166C>A
- NM_001406770.1:c.166C>A
- NM_001406771.1:c.166C>A
- NM_001406772.1:c.166C>A
- NM_001406773.1:c.166C>A
- NM_001406774.1:c.166C>A
- NM_001406775.1:c.166C>A
- NM_001406776.1:c.166C>A
- NM_001406777.1:c.166C>A
- NM_001406778.1:c.166C>A
- NM_001406779.1:c.166C>A
- NM_001406780.1:c.166C>A
- NM_001406781.1:c.166C>A
- NM_001406782.1:c.166C>A
- NM_001406783.1:c.166C>A
- NM_001406785.1:c.166C>A
- NM_001406786.1:c.166C>A
- NM_001406787.1:c.166C>A
- NM_001406788.1:c.166C>A
- NM_001406789.1:c.166C>A
- NM_001406790.1:c.166C>A
- NM_001406791.1:c.166C>A
- NM_020629.2:c.166C>A
- NM_020630.7:c.166C>A
- NM_020975.6:c.166C>AMANE SELECT
- NP_000314.1:p.Leu56Met
- NP_001393672.1:p.Leu56Met
- NP_001393673.1:p.Leu56Met
- NP_001393688.1:p.Leu56Met
- NP_001393689.1:p.Leu56Met
- NP_001393690.1:p.Leu56Met
- NP_001393691.1:p.Leu56Met
- NP_001393692.1:p.Leu56Met
- NP_001393693.1:p.Leu56Met
- NP_001393694.1:p.Leu56Met
- NP_001393695.1:p.Leu56Met
- NP_001393696.1:p.Leu56Met
- NP_001393697.1:p.Leu56Met
- NP_001393698.1:p.Leu56Met
- NP_001393699.1:p.Leu56Met
- NP_001393700.1:p.Leu56Met
- NP_001393701.1:p.Leu56Met
- NP_001393702.1:p.Leu56Met
- NP_001393703.1:p.Leu56Met
- NP_001393704.1:p.Leu56Met
- NP_001393705.1:p.Leu56Met
- NP_001393706.1:p.Leu56Met
- NP_001393707.1:p.Leu56Met
- NP_001393708.1:p.Leu56Met
- NP_001393709.1:p.Leu56Met
- NP_001393710.1:p.Leu56Met
- NP_001393711.1:p.Leu56Met
- NP_001393712.1:p.Leu56Met
- NP_001393714.1:p.Leu56Met
- NP_001393715.1:p.Leu56Met
- NP_001393716.1:p.Leu56Met
- NP_001393717.1:p.Leu56Met
- NP_001393718.1:p.Leu56Met
- NP_001393719.1:p.Leu56Met
- NP_001393720.1:p.Leu56Met
- NP_065680.1:p.Leu56Met
- NP_065681.1:p.Leu56Met
- NP_065681.1:p.Leu56Met
- NP_065681.1:p.Leu56Met
- NP_066124.1:p.Leu56Met
- NP_066124.1:p.Leu56Met
- LRG_518t1:c.166C>A
- LRG_518t2:c.166C>A
- LRG_518:g.28483C>A
- LRG_518p1:p.Leu56Met
- LRG_518p2:p.Leu56Met
- NC_000010.10:g.43595999C>A
- NM_020630.4:c.166C>A
- NM_020630.6:c.166C>A
- NM_020975.4:c.166C>A
- NM_020975.4:c.166C>A
- NM_020975.5:c.166C>A
- p.L56M
This HGVS expression did not pass validation- Protein change:
- L56M
- Links:
- dbSNP: rs145633958
- NCBI 1000 Genomes Browser:
- rs145633958
- Molecular consequence:
- NM_000323.2:c.166C>A - missense variant - [Sequence Ontology: SO:0001583]
- NM_001406743.1:c.166C>A - missense variant - [Sequence Ontology: SO:0001583]
- NM_001406744.1:c.166C>A - missense variant - [Sequence Ontology: SO:0001583]
- NM_001406759.1:c.166C>A - missense variant - [Sequence Ontology: SO:0001583]
- NM_001406760.1:c.166C>A - missense variant - [Sequence Ontology: SO:0001583]
- NM_001406761.1:c.166C>A - missense variant - [Sequence Ontology: SO:0001583]
- NM_001406762.1:c.166C>A - missense variant - [Sequence Ontology: SO:0001583]
- NM_001406763.1:c.166C>A - missense variant - [Sequence Ontology: SO:0001583]
- NM_001406764.1:c.166C>A - missense variant - [Sequence Ontology: SO:0001583]
- NM_001406765.1:c.166C>A - missense variant - [Sequence Ontology: SO:0001583]
- NM_001406766.1:c.166C>A - missense variant - [Sequence Ontology: SO:0001583]
- NM_001406767.1:c.166C>A - missense variant - [Sequence Ontology: SO:0001583]
- NM_001406768.1:c.166C>A - missense variant - [Sequence Ontology: SO:0001583]
- NM_001406769.1:c.166C>A - missense variant - [Sequence Ontology: SO:0001583]
- NM_001406770.1:c.166C>A - missense variant - [Sequence Ontology: SO:0001583]
- NM_001406771.1:c.166C>A - missense variant - [Sequence Ontology: SO:0001583]
- NM_001406772.1:c.166C>A - missense variant - [Sequence Ontology: SO:0001583]
- NM_001406773.1:c.166C>A - missense variant - [Sequence Ontology: SO:0001583]
- NM_001406774.1:c.166C>A - missense variant - [Sequence Ontology: SO:0001583]
- NM_001406775.1:c.166C>A - missense variant - [Sequence Ontology: SO:0001583]
- NM_001406776.1:c.166C>A - missense variant - [Sequence Ontology: SO:0001583]
- NM_001406777.1:c.166C>A - missense variant - [Sequence Ontology: SO:0001583]
- NM_001406778.1:c.166C>A - missense variant - [Sequence Ontology: SO:0001583]
- NM_001406779.1:c.166C>A - missense variant - [Sequence Ontology: SO:0001583]
- NM_001406780.1:c.166C>A - missense variant - [Sequence Ontology: SO:0001583]
- NM_001406781.1:c.166C>A - missense variant - [Sequence Ontology: SO:0001583]
- NM_001406782.1:c.166C>A - missense variant - [Sequence Ontology: SO:0001583]
- NM_001406783.1:c.166C>A - missense variant - [Sequence Ontology: SO:0001583]
- NM_001406785.1:c.166C>A - missense variant - [Sequence Ontology: SO:0001583]
- NM_001406786.1:c.166C>A - missense variant - [Sequence Ontology: SO:0001583]
- NM_001406787.1:c.166C>A - missense variant - [Sequence Ontology: SO:0001583]
- NM_001406788.1:c.166C>A - missense variant - [Sequence Ontology: SO:0001583]
- NM_001406789.1:c.166C>A - missense variant - [Sequence Ontology: SO:0001583]
- NM_001406790.1:c.166C>A - missense variant - [Sequence Ontology: SO:0001583]
- NM_001406791.1:c.166C>A - missense variant - [Sequence Ontology: SO:0001583]
- NM_020629.2:c.166C>A - missense variant - [Sequence Ontology: SO:0001583]
- NM_020630.7:c.166C>A - missense variant - [Sequence Ontology: SO:0001583]
- NM_020975.6:c.166C>A - missense variant - [Sequence Ontology: SO:0001583]
- Observations:
- 1
Condition(s)
- Synonyms:
- AllHighlyPenetrant
- Identifiers:
- MedGen: CN169374
-
Paraneoplastic Syndromes - StatPearls
Paraneoplastic Syndromes - StatPearls
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See more...Assertion and evidence details
Submission Accession | Submitter | Review Status (Assertion method) | Clinical Significance (Last evaluated) | Origin | Method | Citations |
---|---|---|---|---|---|---|
SCV000086196 | ITMI | no classification provided | not provided | germline | reference population | |
SCV000113984 | Eurofins Ntd Llc (ga) | criteria provided, single submitter (EGL Classification Definitions 2015) | Benign (Jun 19, 2014) | germline | clinical testing | |
SCV000711342 | Laboratory for Molecular Medicine, Mass General Brigham Personalized Medicine | criteria provided, single submitter (LMM Criteria) | Likely benign (Apr 20, 2016) | germline | clinical testing | |
SCV000807009 | PreventionGenetics, part of Exact Sciences | criteria provided, single submitter (ACMG Guidelines, 2015) | Benign (Oct 10, 2016) | germline | clinical testing | |
SCV001807872 | Genome Diagnostics Laboratory, Amsterdam University Medical Center - VKGL Data-share Consensus | no assertion criteria provided | Benign | germline | clinical testing | |
SCV001952151 | Joint Genome Diagnostic Labs from Nijmegen and Maastricht, Radboudumc and MUMC+ - VKGL Data-share Consensus
| no assertion criteria provided | Benign | germline | clinical testing | |
SCV002067079 | Genetic Services Laboratory, University of Chicago | criteria provided, single submitter (ACMG Guidelines, 2015) | Benign (Aug 17, 2020) | germline | clinical testing | |
SCV002550377 | Center for Genomic Medicine, Rigshospitalet, Copenhagen University Hospital | criteria provided, single submitter (ACMG Guidelines, 2015) | Likely benign (Jul 31, 2024) | germline | clinical testing |
Summary from all submissions
Ethnicity | Origin | Affected | Individuals | Families | Chromosomes tested | Number Tested | Family history | Method |
---|---|---|---|---|---|---|---|---|
not provided | germline | unknown | 3 | not provided | not provided | not provided | not provided | clinical testing |
not provided | germline | not provided | 1 | 1 | not provided | not provided | not provided | clinical testing |
not provided | germline | no | not provided | not provided | not provided | not provided | not provided | clinical testing |
not provided | germline | yes | not provided | not provided | not provided | not provided | not provided | clinical testing |
African | germline | unknown | not provided | not provided | not provided | 43 | not provided | reference population |
African_European | germline | unknown | not provided | not provided | not provided | 46 | not provided | reference population |
Central_Asian | germline | unknown | not provided | not provided | not provided | 50 | not provided | reference population |
East_Asian | germline | unknown | not provided | not provided | not provided | 62 | not provided | reference population |
European | germline | unknown | not provided | not provided | not provided | 331 | not provided | reference population |
Hispanic | germline | unknown | not provided | not provided | not provided | 118 | not provided | reference population |
Whole_cohort | germline | unknown | not provided | not provided | not provided | 681 | not provided | reference population |
Citations
PubMed
Bodian DL, McCutcheon JN, Kothiyal P, Huddleston KC, Iyer RK, Vockley JG, Niederhuber JE.
PLoS One. 2014;9(4):e94554. doi: 10.1371/journal.pone.0094554.
PubMed [citation]
- PMID:
- 24728327
- PMCID:
- PMC3984285
Carter TC, Kay DM, Browne ML, Liu A, Romitti PA, Kuehn D, Conley MR, Caggana M, Druschel CM, Brody LC, Mills JL.
J Hum Genet. 2012 Aug;57(8):485-93. doi: 10.1038/jhg.2012.54. Epub 2012 May 31.
PubMed [citation]
- PMID:
- 22648184
- PMCID:
- PMC3503526
Details of each submission
From ITMI, SCV000086196.1
# | Ethnicity | Individuals | Chromosomes Tested | Family History | Method | Citations |
---|---|---|---|---|---|---|
1 | African | not provided | not provided | not provided | reference population | PubMed (1) |
2 | African_European | not provided | not provided | not provided | reference population | PubMed (1) |
3 | Central_Asian | not provided | not provided | not provided | reference population | PubMed (1) |
4 | East_Asian | not provided | not provided | not provided | reference population | PubMed (1) |
5 | European | not provided | not provided | not provided | reference population | PubMed (1) |
6 | Hispanic | not provided | not provided | not provided | reference population | PubMed (1) |
7 | Whole_cohort | not provided | not provided | not provided | reference population | PubMed (1) |
# | Sample | Method | Observation | |||||||
---|---|---|---|---|---|---|---|---|---|---|
Origin | Affected | Number tested | Tissue | Purpose | Method | Individuals | Allele frequency | Families | Co-occurrences | |
1 | germline | unknown | 43 | not provided | discovery | not provided | 0 | not provided | not provided | |
2 | germline | unknown | 46 | not provided | discovery | not provided | 0 | not provided | not provided | |
3 | germline | unknown | 50 | not provided | discovery | not provided | 0 | not provided | not provided | |
4 | germline | unknown | 62 | not provided | discovery | not provided | 0 | not provided | not provided | |
5 | germline | unknown | 331 | not provided | discovery | not provided | 0.0076 | not provided | not provided | |
6 | germline | unknown | 118 | not provided | discovery | not provided | 0.0042 | not provided | not provided | |
7 | germline | unknown | 681 | not provided | discovery | not provided | 0.0044 | not provided | not provided |
From Eurofins Ntd Llc (ga), SCV000113984.8
# | Ethnicity | Individuals | Chromosomes Tested | Family History | Method | Citations |
---|---|---|---|---|---|---|
1 | not provided | 3 | not provided | not provided | clinical testing | not provided |
# | Sample | Method | Observation | |||||||
---|---|---|---|---|---|---|---|---|---|---|
Origin | Affected | Number tested | Tissue | Purpose | Method | Individuals | Allele frequency | Families | Co-occurrences | |
1 | germline | unknown | not provided | not provided | not provided | 3 | not provided | not provided | not provided |
From Laboratory for Molecular Medicine, Mass General Brigham Personalized Medicine, SCV000711342.2
# | Ethnicity | Individuals | Chromosomes Tested | Family History | Method | Citations |
---|---|---|---|---|---|---|
1 | not provided | 1 | not provided | not provided | clinical testing | PubMed (6) |
Description
p.Leu56Met in exon 2 of RET: This variant is not expected to have clinical signi ficance because it has been identified in 0.4% (271/66206) of European chromosom es, including 1 homozygote by the Exome Aggregation Consortium (ExAC, http://exa c.broadinstitute.org; dbSNP rs145633958).
# | Sample | Method | Observation | |||||||
---|---|---|---|---|---|---|---|---|---|---|
Origin | Affected | Number tested | Tissue | Purpose | Method | Individuals | Allele frequency | Families | Co-occurrences | |
1 | germline | not provided | not provided | not provided | not provided | 1 | not provided | 1 | not provided |
From PreventionGenetics, part of Exact Sciences, SCV000807009.1
# | Ethnicity | Individuals | Chromosomes Tested | Family History | Method | Citations |
---|---|---|---|---|---|---|
1 | not provided | not provided | not provided | not provided | clinical testing | PubMed (1) |
# | Sample | Method | Observation | |||||||
---|---|---|---|---|---|---|---|---|---|---|
Origin | Affected | Number tested | Tissue | Purpose | Method | Individuals | Allele frequency | Families | Co-occurrences | |
1 | germline | unknown | not provided | not provided | not provided | not provided | not provided | not provided | not provided |
From Genome Diagnostics Laboratory, Amsterdam University Medical Center - VKGL Data-share Consensus, SCV001807872.1
# | Ethnicity | Individuals | Chromosomes Tested | Family History | Method | Citations |
---|---|---|---|---|---|---|
1 | not provided | not provided | not provided | not provided | clinical testing | not provided |
# | Sample | Method | Observation | |||||||
---|---|---|---|---|---|---|---|---|---|---|
Origin | Affected | Number tested | Tissue | Purpose | Method | Individuals | Allele frequency | Families | Co-occurrences | |
1 | germline | yes | not provided | not provided | not provided | not provided | not provided | not provided | not provided |
From Joint Genome Diagnostic Labs from Nijmegen and Maastricht, Radboudumc and MUMC+ - VKGL Data-share Consensus, SCV001952151.1
# | Ethnicity | Individuals | Chromosomes Tested | Family History | Method | Citations |
---|---|---|---|---|---|---|
1 | not provided | not provided | not provided | not provided | clinical testing | not provided |
# | Sample | Method | Observation | |||||||
---|---|---|---|---|---|---|---|---|---|---|
Origin | Affected | Number tested | Tissue | Purpose | Method | Individuals | Allele frequency | Families | Co-occurrences | |
1 | germline | yes | not provided | not provided | not provided | not provided | not provided | not provided | not provided |
From Genetic Services Laboratory, University of Chicago, SCV002067079.1
# | Ethnicity | Individuals | Chromosomes Tested | Family History | Method | Citations |
---|---|---|---|---|---|---|
1 | not provided | not provided | not provided | not provided | clinical testing | PubMed (1) |
# | Sample | Method | Observation | |||||||
---|---|---|---|---|---|---|---|---|---|---|
Origin | Affected | Number tested | Tissue | Purpose | Method | Individuals | Allele frequency | Families | Co-occurrences | |
1 | germline | no | not provided | not provided | not provided | not provided | not provided | not provided | not provided |
From Center for Genomic Medicine, Rigshospitalet, Copenhagen University Hospital, SCV002550377.6
# | Ethnicity | Individuals | Chromosomes Tested | Family History | Method | Citations |
---|---|---|---|---|---|---|
1 | not provided | not provided | not provided | not provided | clinical testing | PubMed (1) |
# | Sample | Method | Observation | |||||||
---|---|---|---|---|---|---|---|---|---|---|
Origin | Affected | Number tested | Tissue | Purpose | Method | Individuals | Allele frequency | Families | Co-occurrences | |
1 | germline | unknown | not provided | not provided | not provided | not provided | not provided | not provided | not provided |
Last Updated: Nov 3, 2024