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dbSNP Short Genetic Variations

Welcome to the Reference SNP (rs) Report

All alleles are reported in the Forward orientation. Click on the Variant Details tab for details on Genomic Placement, Gene, and Amino Acid changes. HGVS names are in the HGVS tab.

Reference SNP (rs) Report

This page reports data for a single dbSNP Reference SNP variation (RefSNP or rs) from the new redesigned dbSNP build.
Top of the page reports a concise summary for the rs, with more specific details included in the corresponding tabs below.
All alleles are reported in the Forward orientation. Use the Genomic View to inspect the nucleotides flanking the variant, and its neighbors.
For more information see Help documentation.

rs267606617

Current Build 157

Released September 3, 2024

Organism
Homo sapiens
Position
chrMT:1555 (GRCh38.p14) Help

The anchor position for this RefSNP. Includes all nucleotides potentially affected by this change, thus it can differ from HGVS, which is right-shifted. See here for details.

Alleles
A>G
Variation Type
SNV Single Nucleotide Variation
Frequency
G=0.00142 (55/38722, 38KJPN)
G=0.0007 (2/2922, KOREAN)
G=0.004 (2/534, MGP)
Clinical Significance
Reported in ClinVar
Gene : Consequence
MT-ND1 : 2KB Upstream Variant
Publications
76 citations
Genomic View
See rs on genome
Help

Frequency tab displays a table of the reference and alternate allele frequencies reported by various studies and populations. Table lines, where Population="Global" refer to the entire study population, whereas lines, where Group="Sub", refer to a study-specific population subgroupings (i.e. AFR, CAU, etc.), if available. Frequency for the alternate allele (Alt Allele) is a ratio of samples observed-to-total, where the numerator (observed samples) is the number of chromosomes in the study with the minor allele present (found in "Sample size", where Group="Sub"), and the denominator (total samples) is the total number of all chromosomes in the study for the variant (found in "Sample size", where Group="Study-wide" and Population="Global").

Download
Study Population Group Sample Size Ref Allele Alt Allele
38KJPN JAPANESE Study-wide 38722 A=0.99858 G=0.00142
KOREAN population from KRGDB KOREAN Study-wide 2922 A=0.9993 G=0.0007
Medical Genome Project healthy controls from Spanish population Spanish controls Study-wide 534 A=0.996 G=0.004
Help

Variant Details tab shows known variant placements on genomic sequences: chromosomes (NC_), RefSeqGene, pseudogenes or genomic regions (NG_), and in a separate table: on transcripts (NM_) and protein sequences (NP_). The corresponding transcript and protein locations are listed in adjacent lines, along with molecular consequences from Sequence Ontology. When no protein placement is available, only the transcript is listed. Column "Codon[Amino acid]" shows the actual base change in the format of "Reference > Alternate" allele, including the nucleotide codon change in transcripts, and the amino acid change in proteins, respectively, allowing for known ribosomal slippage sites. To view nucleotides adjacent to the variant use the Genomic View at the bottom of the page - zoom into the sequence until the nucleotides around the variant become visible.

Gene: MT-ND1, mitochondrially encoded NADH dehydrogenase 1 (plus strand) : 2KB Upstream Variant
Molecule type Change Amino acid[Codon] SO Term
MT NC_012920.1:m.1555A>G N/A N/A
Help

Clinical Significance tab shows a list of clinical significance entries from ClinVar associated with the variation, per allele. Click on the RCV accession (i.e. RCV000001615.2) or Allele ID (i.e. 12274) to access full ClinVar report.

Allele: G (allele ID: 24667 )
ClinVar Accession Disease Names Clinical Significance
RCV000010254.17 Aminoglycoside-induced deafness Pathogenic,Drug-Response
RCV000010255.18 Mitochondrial non-syndromic sensorineural hearing loss Pathogenic
RCV000010256.14 Restrictive cardiomyopathy Pathogenic
RCV000224935.10 not provided Pathogenic
RCV000505667.10 Aminoglycoside-induced deafness,Mitochondrial non-syndromic sensorineural hearing loss Pathogenic
RCV000722074.10 Gentamicin response Drug-Response
RCV000844677.12 Rare genetic deafness Pathogenic
RCV001787321.10 aminoglycoside antibacterials response - Toxicity Drug-Response
RCV001787374.10 gentamicin response - Toxicity Drug-Response
RCV001787375.10 amikacin response - Toxicity Drug-Response
RCV001787376.10 kanamycin response - Toxicity Drug-Response
RCV001787377.10 streptomycin response - Toxicity Drug-Response
RCV001787378.10 tobramycin response - Toxicity Drug-Response
RCV003153300.8 Mitochondrial disease Pathogenic
RCV003445067.1 Hearing loss, sensorineural, autosomal-mitochondrial type Likely-Pathogenic
RCV004554597.1 Aminoglycoside induced ototoxicity Pathogenic
Help

Aliases tab displays HGVS names representing the variant placements and allele changes on genomic, transcript and protein sequences, per allele. HGVS name is an expression for reporting sequence accession and version, sequence type, position, and allele change. The column "Note" can have two values: "diff" means that there is a difference between the reference allele (variation interval) at the placement reported in HGVS name and the reference alleles reported in other HGVS names, and "rev" means that the sequence of this variation interval at the placement reported in HGVS name is in reverse orientation to the sequence(s) of this variation in other HGVS names not labeled as "rev".

Placement A= G
MT NC_012920.1:m.1555= NC_012920.1:m.1555A>G
Help

Submissions tab displays variations originally submitted to dbSNP, now supporting this RefSNP cluster (rs). We display Submitter handle, Submission identifier, Date and Build number, when the submission appeared for the first time. Direct submissions to dbSNP have Submission ID in the form of an ss-prefixed number (ss#). Other supporting variations are listed in the table without ss#.

13 SubSNP, 3 Frequency, 16 ClinVar submissions
No Submitter Submission ID Date (Build)
1 OMIM-CURATED-RECORDS ss537712855 Jul 19, 2012 (137)
2 EVA_MGP ss1711594553 Jul 19, 2016 (147)
3 AFFY ss2986125487 Oct 12, 2018 (152)
4 SWEGEN ss3020998456 Oct 12, 2018 (152)
5 KRGDB ss3892820526 Apr 27, 2020 (154)
6 TOMMO_GENOMICS ss6205737268 Nov 02, 2024 (157)
7 TOMMO_GENOMICS ss8236850227 Nov 02, 2024 (157)
8 EVA ss8237630393 Nov 02, 2024 (157)
9 TOMMO_GENOMICS ss8799397932 Nov 02, 2024 (157)
10 EVA ss8799405179 Nov 02, 2024 (157)
11 YY_MCH ss8819539972 Nov 02, 2024 (157)
12 EVA ss8848225711 Nov 02, 2024 (157)
13 EVA ss8979910602 Nov 02, 2024 (157)
14 KOREAN population from KRGDB NC_001807.4 - 1557 Apr 27, 2020 (154)
15 Medical Genome Project healthy controls from Spanish population NC_012920.1 - 1555 Apr 27, 2020 (154)
16 38KJPN NC_012920.1 - 1555 Nov 02, 2024 (157)
17 ClinVar RCV000010254.17 Nov 02, 2024 (157)
18 ClinVar RCV000010255.18 Nov 02, 2024 (157)
19 ClinVar RCV000010256.14 Nov 02, 2024 (157)
20 ClinVar RCV000224935.10 Nov 02, 2024 (157)
21 ClinVar RCV000505667.10 Nov 02, 2024 (157)
22 ClinVar RCV000722074.10 Nov 02, 2024 (157)
23 ClinVar RCV000844677.12 Nov 02, 2024 (157)
24 ClinVar RCV001787321.10 Nov 02, 2024 (157)
25 ClinVar RCV001787374.10 Nov 02, 2024 (157)
26 ClinVar RCV001787375.10 Nov 02, 2024 (157)
27 ClinVar RCV001787376.10 Nov 02, 2024 (157)
28 ClinVar RCV001787377.10 Nov 02, 2024 (157)
29 ClinVar RCV001787378.10 Nov 02, 2024 (157)
30 ClinVar RCV003153300.8 Nov 02, 2024 (157)
31 ClinVar RCV003445067.1 Nov 02, 2024 (157)
32 ClinVar RCV004554597.1 Nov 02, 2024 (157)
Help

History tab displays RefSNPs (Associated ID) from previous builds (Build) that now support the current RefSNP, and the dates, when the history was updated for each Associated ID (History Updated).

Added to this RefSNP Cluster:
Submission IDs Observation SPDI Canonical SPDI Source RSIDs
50799576, ss3892820526 NC_001807.4:1556:A:G NC_012920.1:1554:A:G (self)
RCV000010254.17, RCV000010255.18, RCV000010256.14, RCV000224935.10, RCV000505667.10, RCV000722074.10, RCV000844677.12, RCV001787321.10, RCV001787374.10, RCV001787375.10, RCV001787376.10, RCV001787377.10, RCV001787378.10, RCV003153300.8, RCV003445067.1, RCV004554597.1, 710313, 223113088, ss537712855, ss1711594553, ss2986125487, ss3020998456, ss6205737268, ss8236850227, ss8237630393, ss8799397932, ss8799405179, ss8819539972, ss8848225711, ss8979910602 NC_012920.1:1554:A:G NC_012920.1:1554:A:G (self)
Help

Publications tab displays PubMed articles citing the variation as a listing of PMID, Title, Author, Year, Journal, ordered by Year, descending.

76 citations for rs267606617
PMID Title Author Year Journal
7689389 Mitochondrial ribosomal RNA mutation associated with both antibiotic-induced and non-syndromic deafness. Prezant TR et al. 1993 Nature genetics
8285309 Mitochondrial ribosomal RNA gene mutation in a patient with sporadic aminoglycoside ototoxicity. Fischel-Ghodsian N et al. 1993 American journal of otolaryngology
8414970 A molecular basis for human hypersensitivity to aminoglycoside antibiotics. Hutchin T et al. 1993 Nucleic acids research
9039999 Mutation in the mitochondrial 12S rRNA gene in two families from Mongolia with matrilineal aminoglycoside ototoxicity. Pandya A et al. 1997 Journal of medical genetics
9111378 Genetic and clinical features of sensorineural hearing loss associated with the 1555 mitochondrial mutation. Usami S et al. 1997 The Laryngoscope
9164619 Mitochondrial gene mutation is a significant predisposing factor in aminoglycoside ototoxicity. Fischel-Ghodsian N et al. 1997 American journal of otolaryngology
9391883 Familial streptomycin ototoxicity in a South African family: a mitochondrial disorder. Gardner JC et al. 1997 Journal of medical genetics
9490575 Familial progressive sensorineural deafness is mainly due to the mtDNA A1555G mutation and is enhanced by treatment of aminoglycosides. Estivill X et al. 1998 American journal of human genetics
9779807 Hearing loss due to the mitochondrial A1555G mutation in Italian families. Casano RA et al. 1998 American journal of medical genetics
9831149 Cochlear implantation in a patient with profound hearing loss with the A1555G mitochondrial mutation. Tono T et al. 1998 The American journal of otology
9887373 Phylogenetic analysis of mitochondrial DNA in Japanese pedigrees of sensorineural hearing loss associated with the A1555G mutation. Abe S et al. 1998 European journal of human genetics
9915970 Maternally inherited cardiomyopathy: an atypical presentation of the mtDNA 12S rRNA gene A1555G mutation. Santorelli FM et al. 1999 American journal of human genetics
9950117 Aminoglycoside-induced deafness associated with the mitochondrial DNA mutation A1555G. Shohat M et al. 1999 American journal of otolaryngology
10521300 The A1555G mutation in the 12S rRNA gene of human mtDNA: recurrent origins and founder events in families affected by sensorineural deafness. Torroni A et al. 1999 American journal of human genetics
10577941 Heterogenous point mutations in the mitochondrial tRNA Ser(UCN) precursor coexisting with the A1555G mutation in deaf students from Mongolia. Pandya A et al. 1999 American journal of human genetics
10633132 Prevalence of mitochondrial gene mutations among hearing impaired patients. Usami S et al. 2000 Journal of medical genetics
10788333 Candidate locus for a nuclear modifier gene for maternally inherited deafness. Bykhovskaya Y et al. 2000 American journal of human genetics
10915767 A biochemical basis for the inherited susceptibility to aminoglycoside ototoxicity. Guan MX et al. 2000 Human molecular genetics
11174059 Different clinical characteristics of aminoglycoside-induced profound deafness with and without the 1555 A-->G mitochondrial mutation. Tono T et al. 2001 ORL; journal for oto-rhino-laryngology and its related specialties
11388757 Modifier locus for mitochondrial DNA disease: linkage and linkage disequilibrium mapping of a nuclear modifier gene for maternally inherited deafness. Bykhovskaya Y et al. 2001 Genetics in medicine
11857751 Mutation A1555G in the 12S rRNA gene and its epidemiological importance in German, Hungarian, and Polish patients. Kupka S et al. 2002 Human mutation
12031626 Atypical muscle pathology and a survey of cis-mutations in deaf patients harboring a 1555 A-to-G point mutation in the mitochondrial ribosomal RNA gene. Yamasoba T et al. 2002 Neuromuscular disorders
12372057 The A1555G mtDNA mutation in Danish hearing-impaired patients: frequency and clinical signs. ØStergaard E et al. 2002 Clinical genetics
12624722 Nonsyndromic sensorineural deafness associated with the A1555G mutation in the mitochondrial small subunit ribosomal RNA in a Balinese family. Malik S et al. 2003 Journal of human genetics
12655418 Frequency of mtDNA A1555G and A7445G mutations among children with prelingual deafness in Turkey. Tekin M et al. 2003 European journal of pediatrics
12920080 Heteroplasmy for the 1555A>G mutation in the mitochondrial 12S rRNA gene in six Spanish families with non-syndromic hearing loss. del Castillo FJ et al. 2003 Journal of medical genetics
12939650 Lack of a modulative factor in locus 8p23 in a Finnish family with nonsyndromic sensorineural hearing loss associated with the 1555A>G mitochondrial DNA mutation. Finnilä S et al. 2003 European journal of human genetics
12955586 Prevalence of the mitochondrial DNA A1555G mutation in sensorineural deafness patients in island Southeast Asia. Malik SG et al. 2003 Journal of human genetics
14699607 Cosegregation of C-insertion at position 961 with the A1555G mutation of the mitochondrial 12S rRNA gene in a large Chinese family with maternally inherited hearing loss. Li R et al. 2004 American journal of medical genetics. Part A
14755216 Audiovestibular findings in patients with mitochondrial A1555G mutation. Noguchi Y et al. 2004 The Laryngoscope
15708009 Extremely low penetrance of hearing loss in four Chinese families with the mitochondrial 12S rRNA A1555G mutation. Young WY et al. 2005 Biochemical and biophysical research communications
15841390 Mutational analysis of the mitochondrial 12S rRNA gene in Chinese pediatric subjects with aminoglycoside-induced and non-syndromic hearing loss. Li Z et al. 2005 Human genetics
15917167 Genetic features, clinical phenotypes, and prevalence of sensorineural hearing loss associated with the 961delT mitochondrial mutation. Kobayashi K et al. 2005 Auris, nasus, larynx
16152638 Cosegregation of the G7444A mutation in the mitochondrial COI/tRNA(Ser(UCN)) genes with the 12S rRNA A1555G mutation in a Chinese family with aminoglycoside-induced and nonsyndromic hearing loss. Yuan H et al. 2005 American journal of medical genetics. Part A
16168391 Clinical evaluation and mitochondrial DNA sequence analysis in two Chinese families with aminoglycoside-induced and non-syndromic hearing loss. Zhao L et al. 2005 Biochemical and biophysical research communications
16375862 Extremely low penetrance of deafness associated with the mitochondrial 12S rRNA mutation in 16 Chinese families: implication for early detection and prevention of deafness. Dai P et al. 2006 Biochemical and biophysical research communications
16458854 Mitochondrial 12S rRNA gene mutations affect RNA secondary structure and lead to variable penetrance in hearing impairment. Ballana E et al. 2006 Biochemical and biophysical research communications
16631122 Cochlear alterations in deaf and unaffected subjects carrying the deafness-associated A1555G mutation in the mitochondrial 12S rRNA gene. Bravo O et al. 2006 Biochemical and biophysical research communications
16826519 Mutation in TRMU related to transfer RNA modification modulates the phenotypic expression of the deafness-associated mitochondrial 12S ribosomal RNA mutations. Guan MX et al. 2006 American journal of human genetics
16955413 Variants in mitochondrial tRNAGlu, tRNAArg, and tRNAThr may influence the phenotypic manifestation of deafness-associated 12S rRNA A1555G mutation in three Han Chinese families with hearing loss. Young WY et al. 2006 American journal of medical genetics. Part A
17341440 Very low penetrance of hearing loss in seven Han Chinese pedigrees carrying the deafness-associated 12S rRNA A1555G mutation. Tang X et al. 2007 Gene
17637808 Whole mitochondrial genome screening in maternally inherited non-syndromic hearing impairment using a microarray resequencing mitochondrial DNA chip. Lévêque M et al. 2007 European journal of human genetics
17999439 Detection of unrecognized low-level mtDNA heteroplasmy may explain the variable phenotypic expressivity of apparently homoplasmic mtDNA mutations. Ballana E et al. 2008 Human mutation
18790089 Mutation analysis of mitochondrial DNA 12SrRNA and tRNASer(UCN) genes in non-syndromic hearing loss patients. Konings A et al. 2008 Mitochondrion
18820594 Mitochondrial tRNAThr G15927A mutation may modulate the phenotypic manifestation of ototoxic 12S rRNA A1555G mutation in four Chinese families. Wang X et al. 2008 Pharmacogenetics and genomics
18830133 Frequency of mitochondrial 12S ribosomal RNA variants in an adult cystic fibrosis population. Conrad DJ et al. 2008 Pharmacogenetics and genomics
18983818 Co-segregation of the T1095C with the A1555G mutation of the mitochondrial 12S rRNA gene in a patient with non-syndromic hearing loss. Dai D et al. 2008 Biochemical and biophysical research communications
19196684 Prevalence of mitochondrial 1555A-->G mutation in European children. Bitner-Glindzicz M et al. 2009 The New England journal of medicine
19376484 Mitochondrial tRNA(Glu) A14693G variant may modulate the phenotypic manifestation of deafness-associated 12S rRNA A1555G mutation in a Han Chinese family. Ding Y et al. 2009 Journal of genetics and genomics = Yi chuan xue bao
19475720 Factors that affect hearing level in individuals with the mitochondrial 1555A.G mutation. Lu SY et al. 2009 Clinical genetics
19818876 Mitochondrial haplotypes may modulate the phenotypic manifestation of the deafness-associated 12S rRNA 1555A>G mutation. Lu J et al. 2010 Mitochondrion
20100600 Mitochondrial 12S rRNA variants in 1642 Han Chinese pediatric subjects with aminoglycoside-induced and nonsyndromic hearing loss. Lu J et al. 2010 Mitochondrion
20111055 Extensive and rapid screening for major mitochondrial DNA point mutations in patients with hereditary hearing loss. Kato T et al. 2010 Journal of human genetics
20172897 Aminoglycoside-induced deafness during treatment of acute leukaemia. Bitner-Glindzicz M et al. 2010 Archives of disease in childhood
20353758 Mutation analysis of mitochondrial 12S rRNA gene in Polish patients with non-syndromic and aminoglycoside-induced hearing loss. Rydzanicz M et al. 2010 Biochemical and biophysical research communications
20416460 Genetic mutations and aminoglycoside-induced ototoxicity in neonates. Johnson RF et al. 2010 Otolaryngology--head and neck surgery
21162657 Molecular epidemiological analysis of mitochondrial DNA12SrRNA A1555G, GJB2, and SLC26A4 mutations in sporadic outpatients with nonsyndromic sensorineural hearing loss in China. Ji YB et al. 2011 Acta oto-laryngologica
21329993 Newborn hearing concurrent gene screening can improve care for hearing loss: a study on 14,913 Chinese newborns. Wang QJ et al. 2011 International journal of pediatric otorhinolaryngology
21495045 The prevalence of mitochondrial mutations associated with aminoglycoside-induced sensorineural hearing loss in an NICU population. Ealy M et al. 2011 The Laryngoscope
21504270 Unique penetrance of hearing loss in a five-generation Chinese family with the mitochondrial 12S rRNA 1555A > G mutation. Men M et al. 2011 Acta oto-laryngologica
21725156 Detection of deafness-causing mutations in the Greek mitochondrial genome. Kokotas H et al. 2011 Disease markers
21777984 GJB2 and mitochondrial DNA 1555A>G mutations in students with hearing loss in the Hubei Province of China. Chen G et al. 2011 International journal of pediatric otorhinolaryngology
21811586 Newborn genetic screening for hearing impairment: a preliminary study at a tertiary center. Wu CC et al. 2011 PloS one
21828074 'Progress' renders detrimental an ancient mitochondrial DNA genetic variant. Pacheu-Grau D et al. 2011 Human molecular genetics
22223843 Hearing in 44-45 year olds with m.1555A>G, a genetic mutation predisposing to aminoglycoside-induced deafness: a population based cohort study. Rahman S et al. 2012 BMJ open
22475488 Heteroplasmy levels of mtDNA1555A>G mutation is positively associated with diverse phenotypes and mutation transmission in a Chinese family. Shen SS et al. 2012 Biochemical and biophysical research communications
22992668 Pharmacogenomics knowledge for personalized medicine. Whirl-Carrillo M et al. 2012 Clinical pharmacology and therapeutics
23525847 The clinical and audiologic features of hearing loss due to mitochondrial mutations. Yelverton JC et al. 2013 Otolaryngology--head and neck surgery
24033266 A systematic approach to assessing the clinical significance of genetic variants. Duzkale H et al. 2013 Clinical genetics
24703164 Normal hearing in a child with the m.1555A>G mutation despite repeated exposure to aminoglycosides. Has the penetrance of this pharmacogenetic interaction been overestimated? Al-Malky G et al. 2014 International journal of pediatric otorhinolaryngology
25155176 Mitochondrial mutation m.1555A>G as a risk factor for failed newborn hearing screening in a large cohort of preterm infants. Göpel W et al. 2014 BMC pediatrics
25515069 Mitochondrial mutations associated with aminoglycoside ototoxicity and hearing loss susceptibility identified by meta-analysis. Jing W et al. 2015 Journal of medical genetics
25741868 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 et al. 2015 Genetics in medicine
25744662 Audio profiles in mitochondrial deafness m.1555A>G and m.3243A>G show distinct differences. Iwanicka-Pronicka K et al. 2015 Medical science monitor
27427311 Is deafness mutation screening required in cystic fibrosis patients? Abusamra R et al. 2016 Paediatric respiratory reviews
28049726 Biochemical Evidence for a Nuclear Modifier Allele (A10S) in TRMU (Methylaminomethyl-2-thiouridylate-methyltransferase) Related to Mitochondrial tRNA Modification in the Phenotypic Manifestation of Deafness-associated 12S rRNA Mutation. Meng F et al. 2017 The Journal of biological chemistry
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The Flanks tab provides retrieving flanking sequences of a SNP on all molecules that have placements.

No flank sequence available

Genomic regions, transcripts, and products
Top Help

NCBI Graphical Sequence Viewer display of the genomic region, transcripts and protein products for the reported RefSNP (rs).
Use the zoom option to view the nucleotides around the RefSNP and find other neighboring RefSNPs.
Visit Sequence Viewer for help with navigating inside the display and modifying the selection of displayed data tracks.

Software version is: 2.0.1.post825+45319f0