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NM_000617.3(SLC11A2):c.1678G>A (p.Val560Ile) AND Inborn genetic diseases

Germline classification:
Uncertain significance (1 submission)
Last evaluated:
Jan 30, 2024
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:
RCV004456207.1

Allele description [Variation Report for NM_000617.3(SLC11A2):c.1678G>A (p.Val560Ile)]

NM_000617.3(SLC11A2):c.1678G>A (p.Val560Ile)

Gene:
SLC11A2:solute carrier family 11 member 2 [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
12q13.12
Genomic location:
Preferred name:
NM_000617.3(SLC11A2):c.1678G>A (p.Val560Ile)
HGVS:
  • NC_000012.12:g.50988333C>T
  • NG_021139.1:g.44943G>A
  • NM_000617.3:c.1678G>AMANE SELECT
  • NM_001174125.2:c.1765G>A
  • NM_001174126.2:c.1629+49G>A
  • NM_001174127.2:c.1629+49G>A
  • NM_001174128.2:c.1678G>A
  • NM_001174129.2:c.1678G>A
  • NM_001174130.2:c.1666G>A
  • NM_001379446.1:c.1716+49G>A
  • NM_001379447.2:c.1629+49G>A
  • NM_001379448.1:c.1617+49G>A
  • NM_001379455.1:c.1765G>A
  • NM_001414744.1:c.1678G>A
  • NM_001414745.1:c.1678G>A
  • NM_001414746.1:c.1678G>A
  • NM_001414747.1:c.1518+49G>A
  • NM_001414748.1:c.1567G>A
  • NM_001414749.1:c.1441G>A
  • NM_001414750.1:c.1441G>A
  • NP_000608.1:p.Val560Ile
  • NP_001167596.1:p.Val589Ile
  • NP_001167599.1:p.Val560Ile
  • NP_001167600.1:p.Val560Ile
  • NP_001167601.1:p.Val556Ile
  • NP_001366384.1:p.Val589Ile
  • NP_001401673.1:p.Val560Ile
  • NP_001401674.1:p.Val560Ile
  • NP_001401675.1:p.Val560Ile
  • NP_001401677.1:p.Val523Ile
  • NP_001401678.1:p.Val481Ile
  • NP_001401679.1:p.Val481Ile
  • LRG_1160t1:c.1678G>A
  • LRG_1160t2:c.1765G>A
  • LRG_1160t3:c.1666G>A
  • LRG_1160t4:c.1629+49G>A
  • LRG_1160:g.44943G>A
  • LRG_1160p1:p.Val560Ile
  • LRG_1160p2:p.Val589Ile
  • LRG_1160p3:p.Val556Ile
  • NC_000012.11:g.51382116C>T
  • NM_000617.2:c.1678G>A
  • NR_033421.2:n.1711G>A
  • NR_183175.1:n.2027G>A
  • NR_183176.1:n.1864G>A
  • NR_183179.1:n.2032G>A
Protein change:
V481I
Molecular consequence:
  • NM_001174126.2:c.1629+49G>A - intron variant - [Sequence Ontology: SO:0001627]
  • NM_001174127.2:c.1629+49G>A - intron variant - [Sequence Ontology: SO:0001627]
  • NM_001379446.1:c.1716+49G>A - intron variant - [Sequence Ontology: SO:0001627]
  • NM_001379447.2:c.1629+49G>A - intron variant - [Sequence Ontology: SO:0001627]
  • NM_001379448.1:c.1617+49G>A - intron variant - [Sequence Ontology: SO:0001627]
  • NM_001414747.1:c.1518+49G>A - intron variant - [Sequence Ontology: SO:0001627]
  • NM_000617.3:c.1678G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001174125.2:c.1765G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001174128.2:c.1678G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001174129.2:c.1678G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001174130.2:c.1666G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001379455.1:c.1765G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001414744.1:c.1678G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001414745.1:c.1678G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001414746.1:c.1678G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001414748.1:c.1567G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001414749.1:c.1441G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001414750.1:c.1441G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NR_033421.2:n.1711G>A - non-coding transcript variant - [Sequence Ontology: SO:0001619]
  • NR_183175.1:n.2027G>A - non-coding transcript variant - [Sequence Ontology: SO:0001619]
  • NR_183176.1:n.1864G>A - non-coding transcript variant - [Sequence Ontology: SO:0001619]
  • NR_183179.1:n.2032G>A - non-coding transcript variant - [Sequence Ontology: SO:0001619]

Condition(s)

Name:
Inborn genetic diseases
Identifiers:
MeSH: D030342; MedGen: C0950123

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Assertion and evidence details

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Submission AccessionSubmitterReview Status
(Assertion method)		Clinical Significance
(Last evaluated)		OriginMethodCitations
SCV004951034Ambry Genetics
criteria provided, single submitter

(Ambry Variant Classification Scheme 2023)		Uncertain significance
(Jan 30, 2024) 		germlineclinical testing

Citation Link

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Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlineunknownnot providednot providednot providednot providednot providedclinical testing

Details of each submission

From Ambry Genetics, SCV004951034.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testingnot provided

Description

The c.1678G>A (p.V560I) alteration is located in exon 16 (coding exon 15) of the SLC11A2 gene. This alteration results from a G to A substitution at nucleotide position 1678, causing the valine (V) at amino acid position 560 to be replaced by an isoleucine (I). Based on insufficient or conflicting evidence, the clinical significance of this alteration remains unclear.

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

Last Updated: May 7, 2024