ClinVar Genomic variation as it relates to human health
NM_001267550.2(TTN):c.12580A>T (p.Ile4194Phe)
The aggregate germline classification for this variant, typically for a monogenic or Mendelian disorder as in the ACMG/AMP guidelines, or for response to a drug. This value is calculated by NCBI based on data from submitters. Read our rules for calculating the aggregate classification.
Stars represent the aggregate review status, or the level of review supporting the aggregate germline classification for this VCV record. This value is calculated by NCBI based on data from submitters. Read our rules for calculating the review status. The number of submissions which contribute to this review status is shown in parentheses.
No data submitted for somatic clinical impact
No data submitted for oncogenicity
Variant Details
- Identifiers
-
NM_001267550.2(TTN):c.12580A>T (p.Ile4194Phe)
Variation ID: 47826 Accession: VCV000047826.59
- Type and length
-
single nucleotide variant, 1 bp
- Location
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Cytogenetic: 2q31.2 2: 178740653 (GRCh38) [ NCBI UCSC ] 2: 179605380 (GRCh37) [ NCBI UCSC ]
- Timeline in ClinVar
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First in ClinVar Help The date this variant first appeared in ClinVar with each type of classification.
Last submission Help The date of the most recent submission for each type of classification for this variant.
Last evaluated Help The most recent date that a submitter evaluated this variant for each type of classification.
Germline Jun 4, 2015 Oct 20, 2024 May 1, 2024 - HGVS
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Nucleotide Protein Molecular
consequenceNM_001267550.2:c.12580A>T MANE Select Help Transcripts from the Matched Annotation from the NCBI and EMBL-EBI (MANE) collaboration.
NP_001254479.2:p.Ile4194Phe missense NM_001256850.1:c.11629A>T NP_001243779.1:p.Ile3877Phe missense NM_003319.4:c.11491A>T NP_003310.4:p.Ile3831Phe missense NM_133378.4:c.10361-2293A>T intron variant NM_133432.3:c.11866A>T NP_597676.3:p.Ile3956Phe missense NM_133437.4:c.12067A>T NP_597681.4:p.Ile4023Phe missense NC_000002.12:g.178740653T>A NC_000002.11:g.179605380T>A NG_011618.3:g.95150A>T LRG_391:g.95150A>T - Protein change
- I4194F, I3956F, I3877F, I3831F, I4023F
- Other names
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p.I3877F:ATT>TTT
- Canonical SPDI
- NC_000002.12:178740652:T:A
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Functional
consequence HelpThe effect of the variant on RNA or protein function, based on experimental evidence from submitters.
- -
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Global minor allele
frequency (GMAF) HelpThe global minor allele frequency calculated by the 1000 Genomes Project. The minor allele at this location is indicated in parentheses and may be different from the allele represented by this VCV record.
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0.00300 (A)
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Allele frequency
Help
The frequency of the allele represented by this VCV record.
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1000 Genomes Project 30x 0.00297
1000 Genomes Project 0.00300
Trans-Omics for Precision Medicine (TOPMed) 0.00402
NHLBI Exome Sequencing Project (ESP) Exome Variant Server 0.00497
Exome Aggregation Consortium (ExAC) 0.00546
The Genome Aggregation Database (gnomAD) 0.00613
The Genome Aggregation Database (gnomAD), exomes 0.00628
- Links
Genes
Gene | OMIM | ClinGen Gene Dosage Sensitivity Curation |
Variation Viewer
Help
Links to Variation Viewer, a genome browser to view variation data from NCBI databases. |
Related variants | ||
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HI score
Help
The haploinsufficiency score for the gene, curated by ClinGen’s Dosage Sensitivity Curation task team. |
TS score
Help
The triplosensitivity score for the gene, curated by ClinGen’s Dosage Sensitivity Curation task team. |
Within gene
Help
The number of variants in ClinVar that are contained within this gene, with a link to view the list of variants. |
All
Help
The number of variants in ClinVar for this gene, including smaller variants within the gene and larger CNVs that overlap or fully contain the gene. |
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TTN | Sufficient evidence for dosage pathogenicity | No evidence available |
GRCh38 GRCh37 |
12044 | 32096 |
Conditions - Germline
Condition
Help
The condition for this variant-condition (RCV) record in ClinVar. |
Classification
Help
The aggregate germline classification for this variant-condition (RCV) record in ClinVar. The number of submissions that contribute to this aggregate classification is shown in parentheses. (# of submissions) |
Review status
Help
The aggregate review status for this variant-condition (RCV) record in ClinVar. This value is calculated by NCBI based on data from submitters. Read our rules for calculating the review status. |
Last evaluated
Help
The most recent date that a submitter evaluated this variant for the condition. |
Variation/condition record
Help
The RCV accession number, with most recent version number, for the variant-condition record, with a link to the RCV web page. |
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Benign/Likely benign (7) |
criteria provided, multiple submitters, no conflicts
|
Mar 12, 2018 | RCV000041095.31 | |
Benign (1) |
criteria provided, single submitter
|
Feb 1, 2024 | RCV000229415.21 | |
Benign (1) |
criteria provided, single submitter
|
Feb 24, 2016 | RCV000619226.11 | |
Benign (2) |
criteria provided, multiple submitters, no conflicts
|
Jan 24, 2019 | RCV000770112.11 | |
Benign/Likely benign (6) |
criteria provided, multiple submitters, no conflicts
|
May 1, 2024 | RCV001528764.35 | |
Benign (1) |
criteria provided, single submitter
|
Sep 10, 2021 | RCV001839805.10 | |
Benign (1) |
criteria provided, single submitter
|
Sep 10, 2021 | RCV001839807.10 | |
Benign (1) |
criteria provided, single submitter
|
Sep 10, 2021 | RCV001839806.10 | |
Benign (1) |
criteria provided, single submitter
|
Sep 10, 2021 | RCV001839804.10 | |
Likely benign (1) |
no assertion criteria provided
|
- | RCV004595901.1 |
Submissions - Germline
Classification
Help
The submitted germline classification for each SCV record. (Last evaluated) |
Review status
Help
Stars represent the review status, or the level of review supporting the submitted (SCV) record. This value is calculated by NCBI based on data from the submitter. Read our rules for calculating the review status. This column also includes a link to the submitter’s assertion criteria if provided, and the collection method. (Assertion criteria) |
Condition
Help
The condition for the classification, provided by the submitter for this submitted (SCV) record. This column also includes the affected status and allele origin of individuals observed with this variant. |
Submitter
Help
The submitting organization for this submitted (SCV) record. This column also includes the SCV accession and version number, the date this SCV first appeared in ClinVar, and the date that this SCV was last updated in ClinVar. |
More information
Help
This column includes more information supporting the classification, including citations, the comment on classification, and detailed evidence provided as observations of the variant by the submitter. |
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Benign
(Jun 24, 2013)
|
criteria provided, single submitter
Method: research
|
not specified
Affected status: unknown
Allele origin:
unknown
|
Biesecker Lab/Clinical Genomics Section, National Institutes of Health
Study: ClinSeq
Accession: SCV000051641.1 First in ClinVar: Jun 04, 2015 Last updated: Jun 04, 2015
Comments (2):
The study set was not selected for affection status in relation to any cancer. Pathogenicity categories were based on literature curation. See Pubmed ID:23861362 for … (more)
The study set was not selected for affection status in relation to any cancer. Pathogenicity categories were based on literature curation. See Pubmed ID:23861362 for details. (less)
Medical sequencing
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Number of individuals with the variant: 11
|
|
Benign
(Nov 29, 2023)
|
criteria provided, single submitter
Method: clinical testing
|
not provided
Affected status: unknown
Allele origin:
germline
|
ARUP Laboratories, Molecular Genetics and Genomics, ARUP Laboratories
Accession: SCV001472795.5
First in ClinVar: Jan 26, 2021 Last updated: Feb 20, 2024 |
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Benign
(Feb 24, 2016)
|
criteria provided, single submitter
Method: clinical testing
|
Cardiovascular phenotype
Affected status: unknown
Allele origin:
germline
|
Ambry Genetics
Accession: SCV000735103.5
First in ClinVar: Apr 14, 2018 Last updated: May 01, 2024 |
Comment:
This alteration is classified as benign based on a combination of the following: seen in unaffected individuals, population frequency, intact protein function, lack of segregation … (more)
This alteration is classified as benign based on a combination of the following: seen in unaffected individuals, population frequency, intact protein function, lack of segregation with disease, co-occurrence, RNA analysis, in silico models, amino acid conservation, lack of disease association in case-control studies, and/or the mechanism of disease or impacted region is inconsistent with a known cause of pathogenicity. (less)
|
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Likely benign
(-)
|
criteria provided, single submitter
Method: clinical testing
|
NOT SPECIFIED
Affected status: unknown
Allele origin:
germline
|
PreventionGenetics, part of Exact Sciences
Accession: SCV000307154.1
First in ClinVar: Oct 02, 2016 Last updated: Oct 02, 2016 |
|
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Benign
(Mar 12, 2018)
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criteria provided, single submitter
Method: clinical testing
|
not specified
Affected status: yes
Allele origin:
germline
|
GeneDx
Accession: SCV000238177.6
First in ClinVar: Jul 05, 2015 Last updated: Apr 09, 2018 |
Comment:
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 … (more)
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. (less)
|
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Benign
(Oct 09, 2015)
|
criteria provided, single submitter
Method: clinical testing
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not specified
Affected status: unknown
Allele origin:
germline
|
Eurofins Ntd Llc (ga)
Accession: SCV000336075.4
First in ClinVar: Dec 06, 2016 Last updated: May 03, 2018 |
Number of individuals with the variant: 1
Zygosity: Single Heterozygote
Sex: mixed
|
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Benign
(Dec 28, 2016)
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criteria provided, single submitter
Method: clinical testing
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Cardiomyopathy
Affected status: unknown
Allele origin:
germline
|
CHEO Genetics Diagnostic Laboratory, Children's Hospital of Eastern Ontario
Study: Canadian Open Genetics Repository
Accession: SCV000901538.1 First in ClinVar: May 06, 2019 Last updated: May 06, 2019 |
|
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Benign
(May 20, 2015)
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criteria provided, single submitter
Method: clinical testing
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not specified
Affected status: not provided
Allele origin:
germline
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Laboratory for Molecular Medicine, Mass General Brigham Personalized Medicine
Accession: SCV000064786.6
First in ClinVar: May 03, 2013 Last updated: May 03, 2018 |
Comment:
p.Ile3956Phe in exon 45B of TTN: This variant is not expected to have clinical s ignificance because it has been identified in 2.2% (145/6608) of … (more)
p.Ile3956Phe in exon 45B of TTN: This variant is not expected to have clinical s ignificance because it has been identified in 2.2% (145/6608) of Finnish chromos omes, including 1 homozygote, by the Exome Aggregation Consortium (ExAC, http:// exac.broadinstitute.org; dbSNP rs34618570). (less)
Number of individuals with the variant: 20
|
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Benign
(Jan 24, 2019)
|
criteria provided, single submitter
Method: clinical testing
|
Cardiomyopathy
Affected status: yes
Allele origin:
germline
|
Center for Advanced Laboratory Medicine, UC San Diego Health, University of California San Diego
Accession: SCV000995665.1
First in ClinVar: Oct 12, 2019 Last updated: Oct 12, 2019 |
Number of individuals with the variant: 2
|
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Benign
(Feb 01, 2024)
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criteria provided, single submitter
Method: clinical testing
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Dilated cardiomyopathy 1G
Autosomal recessive limb-girdle muscular dystrophy type 2J
Explanation for multiple conditions: Uncertain.
The variant was classified for several related diseases, possibly a spectrum of disease; the variant may be associated with one or more the diseases.
Affected status: unknown
Allele origin:
germline
|
Labcorp Genetics (formerly Invitae), Labcorp
Accession: SCV000286436.10
First in ClinVar: Jul 01, 2016 Last updated: Feb 28, 2024 |
|
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Benign
(Sep 10, 2021)
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criteria provided, single submitter
Method: clinical testing
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Autosomal recessive limb-girdle muscular dystrophy type 2J
Affected status: no
Allele origin:
germline
|
Genome-Nilou Lab
Accession: SCV002100836.1
First in ClinVar: Mar 05, 2022 Last updated: Mar 05, 2022 |
|
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Benign
(Sep 10, 2021)
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criteria provided, single submitter
Method: clinical testing
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Myopathy, myofibrillar, 9, with early respiratory failure
Affected status: no
Allele origin:
germline
|
Genome-Nilou Lab
Accession: SCV002100837.1
First in ClinVar: Mar 05, 2022 Last updated: Mar 05, 2022 |
|
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Benign
(Sep 10, 2021)
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criteria provided, single submitter
Method: clinical testing
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Early-onset myopathy with fatal cardiomyopathy
Affected status: no
Allele origin:
germline
|
Genome-Nilou Lab
Accession: SCV002100838.1
First in ClinVar: Mar 05, 2022 Last updated: Mar 05, 2022 |
|
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Benign
(Sep 10, 2021)
|
criteria provided, single submitter
Method: clinical testing
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Tibial muscular dystrophy
Affected status: no
Allele origin:
germline
|
Genome-Nilou Lab
Accession: SCV002100839.1
First in ClinVar: Mar 05, 2022 Last updated: Mar 05, 2022 |
|
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Likely benign
(May 01, 2024)
|
criteria provided, single submitter
Method: clinical testing
|
not provided
Affected status: yes
Allele origin:
germline
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CeGaT Center for Human Genetics Tuebingen
Accession: SCV002563639.16
First in ClinVar: Aug 23, 2022 Last updated: Oct 20, 2024 |
Comment:
TTN: BP4, BS2
Number of individuals with the variant: 21
|
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Likely benign
(-)
|
no assertion criteria provided
Method: clinical testing
|
not provided
Affected status: yes
Allele origin:
germline
|
Genome Diagnostics Laboratory, University Medical Center Utrecht
Additional submitter:
Diagnostic Laboratory, Department of Genetics, University Medical Center Groningen
Study: VKGL Data-share Consensus
Accession: SCV001929425.1 First in ClinVar: Sep 24, 2021 Last updated: Sep 24, 2021 |
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Likely benign
(-)
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no assertion criteria provided
Method: clinical testing
|
not provided
Affected status: yes
Allele origin:
germline
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Clinical Genetics DNA and cytogenetics Diagnostics Lab, Erasmus MC, Erasmus Medical Center
Additional submitter:
Diagnostic Laboratory, Department of Genetics, University Medical Center Groningen
Study: VKGL Data-share Consensus
Accession: SCV001973194.1 First in ClinVar: Oct 07, 2021 Last updated: Oct 07, 2021 |
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Likely benign
(-)
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no assertion criteria provided
Method: clinical testing
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Hypertrophic cardiomyopathy 2
Affected status: yes
Allele origin:
unknown
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Institute of Human Genetics, University of Wuerzburg
Accession: SCV005088666.1
First in ClinVar: Aug 04, 2024 Last updated: Aug 04, 2024 |
Number of individuals with the variant: 1
|
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Likely benign
(-)
|
no assertion criteria provided
Method: clinical testing
|
not provided
Affected status: yes
Allele origin:
germline
|
Laboratory of Diagnostic Genome Analysis, Leiden University Medical Center (LUMC)
Study: VKGL Data-share Consensus
Accession: SCV001797932.1 First in ClinVar: Aug 21, 2021 Last updated: Aug 21, 2021 |
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Benign
(-)
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no assertion criteria provided
Method: clinical testing
|
not specified
Affected status: yes
Allele origin:
germline
|
Clinical Genetics, Academic Medical Center
Additional submitter:
Diagnostic Laboratory, Department of Genetics, University Medical Center Groningen
Study: VKGL Data-share Consensus
Accession: SCV001921824.1 First in ClinVar: Sep 24, 2021 Last updated: Sep 24, 2021 |
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Benign
(-)
|
no assertion criteria provided
Method: clinical testing
|
not specified
Affected status: yes
Allele origin:
germline
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Joint Genome Diagnostic Labs from Nijmegen and Maastricht, Radboudumc and MUMC+
Additional submitter:
Diagnostic Laboratory, Department of Genetics, University Medical Center Groningen
Study: VKGL Data-share Consensus
Accession: SCV001958421.1 First in ClinVar: Oct 02, 2021 Last updated: Oct 02, 2021 |
|
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Likely benign
(-)
|
no assertion criteria provided
Method: clinical testing
|
not provided
Affected status: yes
Allele origin:
germline
|
Diagnostic Laboratory, Department of Genetics, University Medical Center Groningen
Study: VKGL Data-share Consensus
Accession: SCV001741079.3 First in ClinVar: Jul 07, 2021 Last updated: Sep 08, 2021 |
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Germline Functional Evidence
There is no functional evidence in ClinVar for this variation. If you have generated functional data for this variation, please consider submitting that data to ClinVar. |
Citations for germline classification of this variant
HelpTitle | Author | Journal | Year | Link |
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http://www.egl-eurofins.com/emvclass/emvclass.php?approved_symbol=TTN | - | - | - | - |
Text-mined citations for rs34618570 ...
HelpRecord last updated Nov 25, 2024
This date represents the last time this VCV record was updated. The update may be due to an update to one of the included submitted records (SCVs), or due to an update that ClinVar made to the variant such as adding HGVS expressions or a rs number. So this date may be different from the date of the “most recent submission” reported at the top of this page.