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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.


Current Build 155

Released April 9, 2021

Homo sapiens
chr1:630555 (GRCh38.p13) 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.

Variation Type
SNV Single Nucleotide Variation
T=0.073958 (8794/118906, GnomAD)
T=0.05266 (850/16140, ALFA)
T=0.0633 (317/5008, 1000G) (+ 5 more)
T=0.0004 (1/2610, KOREAN)
T=0.021 (21/998, GoNL)
T=0.019 (11/588, NorthernSweden)
T=0.082 (15/182, Qatari)
C=0.32 (11/34, SGDP_PRJ)
Clinical Significance
Not Reported in ClinVar
Gene : Consequence
LOC101928626 : 2KB Upstream Variant
0 citations
Genomic View
See rs on genome

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.

Genomic Placements
Sequence name Change
GRCh38.p13 chr 1 NC_000001.11:g.630555C>T
GRCh37.p13 chr 1 NC_000001.10:g.565935C>T
MTND2P28 pseudogene NG_032768.1:g.1016C>T
Gene: LOC101928626, uncharacterized LOC101928626 (minus strand) : 2KB Upstream Variant
Molecule type Change Amino acid[Codon] SO Term
LOC101928626 transcript NR_125957.1:n. N/A Upstream Transcript Variant

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.

Not Reported in ClinVar

ALFA Allele Frequency (New)
The ALFA project provide aggregate allele frequency from dbGaP. More information is available on the project page including descriptions, data access, and terms of use.

Release Version: 20201027095038
Population Group Sample Size Ref Allele Alt Allele
Total Global 16140 C=0.94734 T=0.05266
European Sub 11888 C=0.97754 T=0.02246
African Sub 2816 C=0.8139 T=0.1861
African Others Sub 108 C=0.759 T=0.241
African American Sub 2708 C=0.8161 T=0.1839
Asian Sub 108 C=1.000 T=0.000
East Asian Sub 84 C=1.00 T=0.00
Other Asian Sub 24 C=1.00 T=0.00
Latin American 1 Sub 146 C=0.932 T=0.068
Latin American 2 Sub 610 C=0.970 T=0.030
South Asian Sub 94 C=0.93 T=0.07
Other Sub 478 C=0.950 T=0.050


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").

Study Population Group Sample Size Ref Allele Alt Allele
gnomAD - Genomes Global Study-wide 118906 C=0.926042 T=0.073958
gnomAD - Genomes European Sub 71446 C=0.97996 T=0.02004
gnomAD - Genomes African Sub 27414 C=0.76056 T=0.23944
gnomAD - Genomes American Sub 12216 C=0.95506 T=0.04494
gnomAD - Genomes Ashkenazi Jewish Sub 3128 C=0.9607 T=0.0393
gnomAD - Genomes East Asian Sub 2858 C=0.9983 T=0.0017
gnomAD - Genomes Other Sub 1844 C=0.9344 T=0.0656
1000Genomes Global Study-wide 5008 C=0.9367 T=0.0633
1000Genomes African Sub 1322 C=0.8245 T=0.1755
1000Genomes East Asian Sub 1008 C=1.0000 T=0.0000
1000Genomes Europe Sub 1006 C=0.9761 T=0.0239
1000Genomes South Asian Sub 978 C=0.957 T=0.043
1000Genomes American Sub 694 C=0.973 T=0.027
KOREAN population from KRGDB KOREAN Study-wide 2610 C=0.9996 T=0.0004
Genome of the Netherlands Release 5 Genome of the Netherlands Study-wide 998 C=0.979 T=0.021
Northern Sweden ACPOP Study-wide 588 C=0.981 T=0.019
Qatari Global Study-wide 182 C=0.918 T=0.082
SGDP_PRJ Global Study-wide 34 C=0.32 T=0.68

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 C= T
GRCh38.p13 chr 1 NC_000001.11:g.630555= NC_000001.11:g.630555C>T
GRCh37.p13 chr 1 NC_000001.10:g.565935= NC_000001.10:g.565935C>T
MTND2P28 pseudogene NG_032768.1:g.1016= NG_032768.1:g.1016C>T
MTND2 transcript NM_173709.1:c.916= NM_173709.1:c.916C>T

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#.

22 SubSNP, 8 Frequency submissions
No Submitter Submission ID Date (Build)
1 HGSV ss78621000 Dec 06, 2007 (129)
2 SSMP ss647515490 Apr 25, 2013 (138)
3 EVA-GONL ss974768961 Aug 21, 2014 (142)
4 1000GENOMES ss1289337030 Aug 21, 2014 (142)
5 EVA_DECODE ss1584129287 Apr 01, 2015 (144)
6 WEILL_CORNELL_DGM ss1917959236 Feb 12, 2016 (147)
7 ILLUMINA ss1958229910 Feb 12, 2016 (147)
8 ILLUMINA ss1958229912 Feb 12, 2016 (147)
9 JJLAB ss2019498041 Sep 14, 2016 (149)
10 GNOMAD ss2750622787 Nov 08, 2017 (151)
11 SWEGEN ss2986145845 Nov 08, 2017 (151)
12 ILLUMINA ss3021042951 Nov 08, 2017 (151)
13 ILLUMINA ss3021042952 Nov 08, 2017 (151)
14 TOPMED ss3066367065 Nov 08, 2017 (151)
15 ILLUMINA ss3651365007 Oct 11, 2018 (152)
16 ILLUMINA ss3651365008 Oct 11, 2018 (152)
17 EVA_DECODE ss3685991312 Jul 12, 2019 (153)
18 ACPOP ss3726715702 Jul 12, 2019 (153)
19 KHV_HUMAN_GENOMES ss3798742825 Jul 12, 2019 (153)
20 EVA ss3825981359 Apr 25, 2020 (154)
21 SGDP_PRJ ss3847990508 Apr 25, 2020 (154)
22 KRGDB ss3892830354 Apr 25, 2020 (154)
23 1000Genomes NC_000001.10 - 565935 Oct 11, 2018 (152)
24 gnomAD - Genomes NC_000001.11 - 630555 Apr 25, 2021 (155)
25 Genome of the Netherlands Release 5 NC_000001.10 - 565935 Apr 25, 2020 (154)
26 KOREAN population from KRGDB NC_000001.10 - 565935 Apr 25, 2020 (154)
27 Northern Sweden NC_000001.10 - 565935 Jul 12, 2019 (153)
28 Qatari NC_000001.10 - 565935 Apr 25, 2020 (154)
29 SGDP_PRJ NC_000001.10 - 565935 Apr 25, 2020 (154)
30 ALFA NC_000001.11 - 630555 Apr 25, 2021 (155)

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
ss78621000 NC_000001.8:605797:C:T NC_000001.11:630554:C:T (self)
ss1584129287 NC_000001.9:555797:C:T NC_000001.11:630554:C:T (self)
1664, 102, 7748, 567, 1166, 7488, ss647515490, ss974768961, ss1289337030, ss1917959236, ss1958229910, ss1958229912, ss2019498041, ss2750622787, ss2986145845, ss3021042951, ss3021042952, ss3651365007, ss3651365008, ss3726715702, ss3825981359, ss3847990508, ss3892830354 NC_000001.10:565934:C:T NC_000001.11:630554:C:T (self)
38287, 2343388828, ss3066367065, ss3685991312, ss3798742825 NC_000001.11:630554:C:T NC_000001.11:630554:C:T (self)

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

No publications for rs55973403


The Flanks tab provides retrieving flanking sequences of a SNP on all molecules that have placements.

Genome context:
Select flank length:

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.post596+ae089ad