NM_000038.6(APC):c.532-32T>C AND not provided

Germline classification:: Benign/Likely benign (2 submissions)
Last evaluated:: Dec 26, 2019
Review status:: 2 stars out of maximum of 4 stars
criteria provided, multiple submitters, no conflicts

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:: RCV000833671.14

Allele description [Variation Report for NM_000038.6(APC):c.532-32T>C]

NM_000038.6(APC):c.532-32T>C

Gene:

APC:APC regulator of WNT signaling pathway [Gene - OMIM - HGNC]

Variant type:

single nucleotide variant

Cytogenetic location:

5q22.2

Genomic location:

Preferred name:

NM_000038.6(APC):c.532-32T>C

HGVS:

NC_000005.10:g.112780758T>C
NG_008481.4:g.93238T>C
NM_000038.6:c.532-32T>CMANE SELECT
NM_001127510.3:c.532-32T>C
NM_001127511.3:c.562-32T>C
NM_001354895.2:c.532-32T>C
NM_001354896.2:c.532-32T>C
NM_001354897.2:c.562-32T>C
NM_001354898.2:c.457-32T>C
NM_001354899.2:c.532-32T>C
NM_001354900.2:c.355-32T>C
NM_001354901.2:c.355-32T>C
NM_001354902.2:c.562-32T>C
NM_001354903.2:c.532-32T>C
NM_001354904.2:c.457-32T>C
NM_001354905.2:c.355-32T>C
NM_001354906.2:c.-504-32T>C
LRG_130:g.93238T>C
NC_000005.9:g.112116455T>C
NM_000038.5:c.532-32T>C

Links:

dbSNP: rs112108777

NCBI 1000 Genomes Browser:

rs112108777

Molecular consequence:

NM_000038.6:c.532-32T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001127510.3:c.532-32T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001127511.3:c.562-32T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001354895.2:c.532-32T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001354896.2:c.532-32T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001354897.2:c.562-32T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001354898.2:c.457-32T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001354899.2:c.532-32T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001354900.2:c.355-32T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001354901.2:c.355-32T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001354902.2:c.562-32T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001354903.2:c.532-32T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001354904.2:c.457-32T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001354905.2:c.355-32T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001354906.2:c.-504-32T>C - intron variant - [Sequence Ontology: SO:0001627]

Condition(s)

Synonyms:: none provided
Identifiers:: MedGen: C3661900

Recent activity

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PREDICTED: Homo sapiens mutL homolog 3 (MLH3), transcript variant X14, mRNA
PREDICTED: Homo sapiens mutL homolog 3 (MLH3), transcript variant X14, mRNA
gi|2217297156|ref|XM_047431268.1|

Nucleotide
262190 (1)
OMIM

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV000975435	GeneDx	criteria provided, single submitter (GeneDx Variant Classification (06012015))	Likely benign (Jun 12, 2018)	germline	clinical testing	Citation Link,
SCV001474388	ARUP Laboratories, Molecular Genetics and Genomics, ARUP Laboratories	criteria provided, single submitter (ARUP Molecular Germline Variant Investigation Process)	Benign (Dec 26, 2019)	germline	clinical testing	Citation Link

Submission Accession

Submitter

Review Status
(Assertion method)

Clinical Significance
(Last evaluated)

Origin

Method

Citations

SCV000975435

GeneDx

criteria provided, single submitter

(GeneDx Variant Classification (06012015))

Likely benign
(Jun 12, 2018)

germline

clinical testing

Citation Link,

SCV001474388

ARUP Laboratories, Molecular Genetics and Genomics, ARUP Laboratories

criteria provided, single submitter

(ARUP Molecular Germline Variant Investigation Process)

Benign
(Dec 26, 2019)

germline

clinical testing

Citation Link

Help

Summary from all submissions

Ethnicity	Origin	Affected	Individuals	Families	Chromosomes tested	Number Tested	Family history	Method
not provided	germline	unknown	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

Details of each submission

From GeneDx, SCV000975435.1

#	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 considered likely benign or benign based on one or more of the following criteria: it is a conservative change, it occurs at a poorly conserved position in the protein, it is predicted to be benign by multiple in silico algorithms, and/or has population frequency not consistent with disease.

#	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 ARUP Laboratories, Molecular Genetics and Genomics, ARUP Laboratories, SCV001474388.1

#	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	unknown	not provided	not provided	not provided		not provided	not provided	not provided	not provided

Last Updated: Oct 13, 2024

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