NM_152906.7(TANGO2):c.56+148C>T AND not provided

This record was updated by the submitter. Please see the current version.

Germline classification:: Likely benign (1 submission)
Last evaluated:: Jun 16, 2018
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:: RCV000833149.1

Allele description

NM_152906.7(TANGO2):c.56+148C>T

Gene:

TANGO2:transport and golgi organization 2 homolog [Gene - OMIM - HGNC]

Variant type:

single nucleotide variant

Cytogenetic location:

22q11.21

Genomic location:

Preferred name:

NM_152906.7(TANGO2):c.56+148C>T

HGVS:

NC_000022.11:g.20037002C>T
NG_046857.1:g.25003C>T
NM_001283106.3:c.56+148C>T
NM_001283116.3:c.56+148C>T
NM_001283129.3:c.87C>T
NM_001283148.3:c.56+148C>T
NM_001283154.3:c.56+148C>T
NM_001283179.3:c.56+148C>T
NM_001283186.3:c.56+148C>T
NM_001283199.3:c.56+148C>T
NM_001283215.3:c.87C>T
NM_001283235.3:c.-124+148C>T
NM_001283248.3:c.56+148C>T
NM_001322141.2:c.87C>T
NM_001322142.2:c.56+148C>T
NM_001322143.2:c.87C>T
NM_001322144.2:c.87C>T
NM_001322145.2:c.87C>T
NM_001322146.2:c.-124+148C>T
NM_001322147.2:c.87C>T
NM_001322148.2:c.-216C>T
NM_001322149.2:c.87C>T
NM_001322150.2:c.-216C>T
NM_001322153.2:c.-124+148C>T
NM_001322155.2:c.-124+148C>T
NM_001322160.2:c.-124+148C>T
NM_001322163.2:c.56+148C>T
NM_001322166.2:c.56+148C>T
NM_001322167.2:c.56+148C>T
NM_001322169.2:c.56+148C>T
NM_001322171.2:c.-124+148C>T
NM_001322172.2:c.-216C>T
NM_001322173.2:c.-216C>T
NM_001322174.2:c.-124+148C>T
NM_001322175.2:c.-124+148C>T
NM_152906.7:c.56+148C>TMANE SELECT
NP_001270058.1:p.His29=
NP_001270144.1:p.His29=
NP_001309070.1:p.His29=
NP_001309072.1:p.His29=
NP_001309073.1:p.His29=
NP_001309074.1:p.His29=
NP_001309076.1:p.His29=
NP_001309078.1:p.His29=
NC_000022.10:g.20024525C>T
NM_152906.4:c.56+148C>T
NR_104275.3:n.268C>T

Links:

dbSNP: rs183601770

NCBI 1000 Genomes Browser:

rs183601770

Molecular consequence:

NM_001322148.2:c.-216C>T - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
NM_001322150.2:c.-216C>T - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
NM_001322172.2:c.-216C>T - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
NM_001322173.2:c.-216C>T - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
NM_001283106.3:c.56+148C>T - intron variant - [Sequence Ontology: SO:0001627]
NM_001283116.3:c.56+148C>T - intron variant - [Sequence Ontology: SO:0001627]
NM_001283148.3:c.56+148C>T - intron variant - [Sequence Ontology: SO:0001627]
NM_001283154.3:c.56+148C>T - intron variant - [Sequence Ontology: SO:0001627]
NM_001283179.3:c.56+148C>T - intron variant - [Sequence Ontology: SO:0001627]
NM_001283186.3:c.56+148C>T - intron variant - [Sequence Ontology: SO:0001627]
NM_001283199.3:c.56+148C>T - intron variant - [Sequence Ontology: SO:0001627]
NM_001283235.3:c.-124+148C>T - intron variant - [Sequence Ontology: SO:0001627]
NM_001283248.3:c.56+148C>T - intron variant - [Sequence Ontology: SO:0001627]
NM_001322142.2:c.56+148C>T - intron variant - [Sequence Ontology: SO:0001627]
NM_001322146.2:c.-124+148C>T - intron variant - [Sequence Ontology: SO:0001627]
NM_001322153.2:c.-124+148C>T - intron variant - [Sequence Ontology: SO:0001627]
NM_001322155.2:c.-124+148C>T - intron variant - [Sequence Ontology: SO:0001627]
NM_001322160.2:c.-124+148C>T - intron variant - [Sequence Ontology: SO:0001627]
NM_001322163.2:c.56+148C>T - intron variant - [Sequence Ontology: SO:0001627]
NM_001322166.2:c.56+148C>T - intron variant - [Sequence Ontology: SO:0001627]
NM_001322167.2:c.56+148C>T - intron variant - [Sequence Ontology: SO:0001627]
NM_001322169.2:c.56+148C>T - intron variant - [Sequence Ontology: SO:0001627]
NM_001322171.2:c.-124+148C>T - intron variant - [Sequence Ontology: SO:0001627]
NM_001322174.2:c.-124+148C>T - intron variant - [Sequence Ontology: SO:0001627]
NM_001322175.2:c.-124+148C>T - intron variant - [Sequence Ontology: SO:0001627]
NM_152906.7:c.56+148C>T - intron variant - [Sequence Ontology: SO:0001627]
NR_104275.3:n.268C>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NM_001283129.3:c.87C>T - synonymous variant - [Sequence Ontology: SO:0001819]
NM_001283215.3:c.87C>T - synonymous variant - [Sequence Ontology: SO:0001819]
NM_001322141.2:c.87C>T - synonymous variant - [Sequence Ontology: SO:0001819]
NM_001322143.2:c.87C>T - synonymous variant - [Sequence Ontology: SO:0001819]
NM_001322144.2:c.87C>T - synonymous variant - [Sequence Ontology: SO:0001819]
NM_001322145.2:c.87C>T - synonymous variant - [Sequence Ontology: SO:0001819]
NM_001322147.2:c.87C>T - synonymous variant - [Sequence Ontology: SO:0001819]
NM_001322149.2:c.87C>T - synonymous variant - [Sequence Ontology: SO:0001819]

Condition(s)

Synonyms:: none provided
Identifiers:: MedGen: C3661900

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NP_706367 (0)
dbVar
AAA23461 (0)
MeSH
PREDICTED: Medicago truncatula putative calcium-binding protein CML23 (LOC114225...
PREDICTED: Medicago truncatula putative calcium-binding protein CML23 (LOC11422542), mRNA
gi|1995140922|ref|XM_003618775.4|

Nucleotide
NADH dehydrogenase subunit 1, partial (mitochondrion) [Zygaena transalpina]
NADH dehydrogenase subunit 1, partial (mitochondrion) [Zygaena transalpina]
gi|117615391|gb|ABK50712.1|

Protein
LOC130001593 [Homo sapiens]
LOC130001593 [Homo sapiens]
Gene ID:130001593

Gene

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV000974908	GeneDx	criteria provided, single submitter (GeneDx Variant Classification (06012015))	Likely benign (Jun 16, 2018)	germline	clinical testing	Citation Link

Submission Accession

Submitter

Review Status
(Assertion method)

Clinical Significance
(Last evaluated)

Origin

Method

Citations

SCV000974908

GeneDx

criteria provided, single submitter

(GeneDx Variant Classification (06012015))

Likely benign
(Jun 16, 2018)

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	yes	not provided	not provided	not provided	not provided	not provided	clinical testing

Details of each submission

From GeneDx, SCV000974908.1

#	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

Last Updated: Dec 24, 2023

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