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NM_015972.4(POLR1D):c.265_268delinsTCTGAA (p.Thr89fs) AND POLR1D-related disorder

Germline classification:
Likely pathogenic (1 submission)
Last evaluated:
Aug 17, 2023
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:
RCV003402567.4

Allele description [Variation Report for NM_015972.4(POLR1D):c.265_268delinsTCTGAA (p.Thr89fs)]

NM_015972.4(POLR1D):c.265_268delinsTCTGAA (p.Thr89fs)

Gene:
POLR1D:RNA polymerase I and III subunit D [Gene - OMIM - HGNC]
Variant type:
Indel
Cytogenetic location:
13q12.2
Genomic location:
Preferred name:
NM_015972.4(POLR1D):c.265_268delinsTCTGAA (p.Thr89fs)
HGVS:
  • NC_000013.11:g.27623113_27623116delinsTCTGAA
  • NG_028908.1:g.7371_7374delinsTCTGAA
  • NM_001206559.2:c.-59+1973_-59+1976delinsTCTGAA
  • NM_001374407.1:c.265_268delinsTCTGAA
  • NM_015972.4:c.265_268delinsTCTGAAMANE SELECT
  • NM_152705.3:c.26+1104_26+1107delinsTCTGAA
  • NP_001361336.1:p.Thr89fs
  • NP_057056.1:p.Thr89fs
  • NC_000013.10:g.28197250_28197253delinsTCTGAA
  • NM_015972.3:c.265_268delinsTCTGAA
Protein change:
T89fs
Molecular consequence:
  • NM_001374407.1:c.265_268delinsTCTGAA - frameshift variant - [Sequence Ontology: SO:0001589]
  • NM_015972.4:c.265_268delinsTCTGAA - frameshift variant - [Sequence Ontology: SO:0001589]
  • NM_001206559.2:c.-59+1973_-59+1976delinsTCTGAA - intron variant - [Sequence Ontology: SO:0001627]
  • NM_152705.3:c.26+1104_26+1107delinsTCTGAA - intron variant - [Sequence Ontology: SO:0001627]

Condition(s)

Name:
POLR1D-related disorder
Synonyms:
POLR1D-related condition
Identifiers:

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Assertion and evidence details

Help
Submission AccessionSubmitterReview Status
(Assertion method)		Clinical Significance
(Last evaluated)		OriginMethodCitations
SCV004103008PreventionGenetics, part of Exact Sciences
criteria provided, single submitter

(ACMG Guidelines, 2015)		Likely pathogenic
(Aug 17, 2023) 		germlineclinical testing

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

Help

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlineunknownnot providednot providednot providednot providednot providedclinical 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 PreventionGenetics, part of Exact Sciences, SCV004103008.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (1)

Description

The POLR1D c.265_268delinsTCTGAA variant is predicted to result in a frameshift and premature protein termination (p.Thr89Serfs*13). To our knowledge, this variant has not been reported in the literature or in a large population database (http://gnomad.broadinstitute.org), indicating this variant is rare. A similar frameshift variant (c.263dupG, p.Thr89Tyrfs*6) has been reported in an individual with Treacher Collins syndrome (Table 1, Dauwerse et al. 2011. PubMed ID: 21131976). Frameshift variants in POLR1D are expected to be pathogenic. This variant is interpreted as likely pathogenic.

#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineunknownnot providednot providednot providednot providednot providednot providednot provided

Last Updated: May 19, 2024