NM_022725.4(FANCF):c.373G>A (p.Asp125Asn) AND not provided

Germline classification:: Conflicting interpretations of pathogenicity (3 submissions)
Last evaluated:: Aug 1, 2024
Review status:: criteria provided, conflicting classifications

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:: RCV000857633.29

Allele description [Variation Report for NM_022725.4(FANCF):c.373G>A (p.Asp125Asn)]

NM_022725.4(FANCF):c.373G>A (p.Asp125Asn)

Gene:

FANCF:FA complementation group F [Gene - OMIM - HGNC]

Variant type:

single nucleotide variant

Cytogenetic location:

11p14.3

Genomic location:

Preferred name:

NM_022725.4(FANCF):c.373G>A (p.Asp125Asn)

HGVS:

NC_000011.10:g.22625438C>T
NG_007425.1:g.5404G>A
NM_022725.4:c.373G>AMANE SELECT
NP_073562.1:p.Asp125Asn
NP_073562.1:p.Asp125Asn
LRG_527t1:c.373G>A
LRG_527:g.5404G>A
LRG_527p1:p.Asp125Asn
NC_000011.9:g.22646984C>T
NM_022725.3:c.373G>A

Protein change:

D125N

Links:

dbSNP: rs61752920

NCBI 1000 Genomes Browser:

rs61752920

Molecular consequence:

NM_022725.4:c.373G>A - missense variant - [Sequence Ontology: SO:0001583]

Observations:

Condition(s)

Synonyms:: none provided
Identifiers:: MedGen: C3661900

Recent activity

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NP_004371 (0)
Conserved Domains
Homo sapiens ciliogenesis associated kinase 1 (CILK1), RefSeqGene on chromosome ...
Homo sapiens ciliogenesis associated kinase 1 (CILK1), RefSeqGene on chromosome 6
gi|1543388325|ref|NG_012159.2|

Nucleotide
NADH dehydrogenase F, partial (chloroplast) [Anisopappus anemonifolius]
NADH dehydrogenase F, partial (chloroplast) [Anisopappus anemonifolius]
gi|2021357627|gb|QTK16380.1|

Protein
NADH dehydrogenase F, partial (chloroplast) [Anisopappus dentatus subsp. dentatu...
NADH dehydrogenase F, partial (chloroplast) [Anisopappus dentatus subsp. dentatus]
gi|2021357645|gb|QTK16389.1|

Protein
NADH dehydrogenase F, partial (chloroplast) [Anisopappus angolensis]
NADH dehydrogenase F, partial (chloroplast) [Anisopappus angolensis]
gi|2021357625|gb|QTK16379.1|

Protein

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV001148211	CeGaT Center for Human Genetics Tuebingen	criteria provided, single submitter (CeGaT Center For Human Genetics Tuebingen Variant Classification Criteria Version 2)	Likely benign (Aug 1, 2024)	germline	clinical testing	Citation Link,
SCV001793967	GeneDx	criteria provided, single submitter (GeneDx Variant Classification Process June 2021)	Likely benign (Sep 22, 2020)	germline	clinical testing	Citation Link,
SCV002011033	Institute for Clinical Genetics, University Hospital TU Dresden, University Hospital TU Dresden	criteria provided, single submitter (ACMG Guidelines, 2015)	Uncertain significance (Nov 3, 2021)	germline	clinical testing	PubMed (1) [See all records that cite this PMID]

Submission Accession

Submitter

Review Status
(Assertion method)

Clinical Significance
(Last evaluated)

Origin

Method

Citations

SCV001148211

CeGaT Center for Human Genetics Tuebingen

criteria provided, single submitter

(CeGaT Center For Human Genetics Tuebingen Variant Classification Criteria Version 2)

Likely benign
(Aug 1, 2024)

germline

clinical testing

Citation Link,

SCV001793967

GeneDx

criteria provided, single submitter

(GeneDx Variant Classification Process June 2021)

Likely benign
(Sep 22, 2020)

germline

clinical testing

Citation Link,

SCV002011033

Institute for Clinical Genetics, University Hospital TU Dresden, University Hospital TU Dresden

criteria provided, single submitter

(ACMG Guidelines, 2015)

Uncertain significance
(Nov 3, 2021)

germline

clinical testing

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

Help

Summary from all submissions

Ethnicity	Origin	Affected	Individuals	Families	Chromosomes tested	Number Tested	Family history	Method
not provided	germline	yes	28	not provided	not provided	not provided	not provided	clinical testing
not provided	germline	not provided	not provided	not provided	not provided	not provided	not provided	clinical 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 CeGaT Center for Human Genetics Tuebingen, SCV001148211.27

#	Ethnicity	Individuals	Chromosomes Tested	Family History	Method	Citations
1	not provided	28	not provided	not provided	clinical testing	not provided

Description

FANCF: BS2

#	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		28	not provided	not provided	not provided

From GeneDx, SCV001793967.1

#	Ethnicity	Individuals	Chromosomes Tested	Family History	Method	Citations
1	not provided	not provided	not provided	not provided	clinical testing	not provided

Description

This variant is associated with the following publications: (PMID: 24728327)

#	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 Institute for Clinical Genetics, University Hospital TU Dresden, University Hospital TU Dresden, SCV002011033.3

#	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	not provided	not provided	not provided	not provided		not provided	not provided	not provided	not provided

Last Updated: Oct 20, 2024

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