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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.

rs368742622

Current Build 155

Released April 9, 2021

Organism
Homo sapiens
Position
chr1:83945-83964 (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.

Alleles
del(GAAA)3 / del(GAAA)2 / delGAAA …

del(GAAA)3 / del(GAAA)2 / delGAAA / dupGAAA

Variation Type
Indel Insertion and Deletion
Frequency
del(GAAA)3=0.00000 (0/11698, ALFA)
delGAAA=0.00000 (0/11698, ALFA)
dupGAAA=0.00000 (0/11698, ALFA) (+ 1 more)
delGAAA=0.0017 (3/1812, Korea1K)
Clinical Significance
Not Reported in ClinVar
Gene : Consequence
None
Publications
0 citations
Genomic View
See rs on genome

ALFA Allele Frequency
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 11698 GAAAGAAAGAAAGAAAGAAA=1.00000 GAAAGAAA=0.00000, GAAAGAAAGAAAGAAA=0.00000, GAAAGAAAGAAAGAAAGAAAGAAA=0.00000
European Sub 7612 GAAAGAAAGAAAGAAAGAAA=1.0000 GAAAGAAA=0.0000, GAAAGAAAGAAAGAAA=0.0000, GAAAGAAAGAAAGAAAGAAAGAAA=0.0000
African Sub 2668 GAAAGAAAGAAAGAAAGAAA=1.0000 GAAAGAAA=0.0000, GAAAGAAAGAAAGAAA=0.0000, GAAAGAAAGAAAGAAAGAAAGAAA=0.0000
African Others Sub 104 GAAAGAAAGAAAGAAAGAAA=1.000 GAAAGAAA=0.000, GAAAGAAAGAAAGAAA=0.000, GAAAGAAAGAAAGAAAGAAAGAAA=0.000
African American Sub 2564 GAAAGAAAGAAAGAAAGAAA=1.0000 GAAAGAAA=0.0000, GAAAGAAAGAAAGAAA=0.0000, GAAAGAAAGAAAGAAAGAAAGAAA=0.0000
Asian Sub 108 GAAAGAAAGAAAGAAAGAAA=1.000 GAAAGAAA=0.000, GAAAGAAAGAAAGAAA=0.000, GAAAGAAAGAAAGAAAGAAAGAAA=0.000
East Asian Sub 84 GAAAGAAAGAAAGAAAGAAA=1.00 GAAAGAAA=0.00, GAAAGAAAGAAAGAAA=0.00, GAAAGAAAGAAAGAAAGAAAGAAA=0.00
Other Asian Sub 24 GAAAGAAAGAAAGAAAGAAA=1.00 GAAAGAAA=0.00, GAAAGAAAGAAAGAAA=0.00, GAAAGAAAGAAAGAAAGAAAGAAA=0.00
Latin American 1 Sub 146 GAAAGAAAGAAAGAAAGAAA=1.000 GAAAGAAA=0.000, GAAAGAAAGAAAGAAA=0.000, GAAAGAAAGAAAGAAAGAAAGAAA=0.000
Latin American 2 Sub 610 GAAAGAAAGAAAGAAAGAAA=1.000 GAAAGAAA=0.000, GAAAGAAAGAAAGAAA=0.000, GAAAGAAAGAAAGAAAGAAAGAAA=0.000
South Asian Sub 92 GAAAGAAAGAAAGAAAGAAA=1.00 GAAAGAAA=0.00, GAAAGAAAGAAAGAAA=0.00, GAAAGAAAGAAAGAAAGAAAGAAA=0.00
Other Sub 462 GAAAGAAAGAAAGAAAGAAA=1.000 GAAAGAAA=0.000, GAAAGAAAGAAAGAAA=0.000, GAAAGAAAGAAAGAAAGAAAGAAA=0.000


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
Korean Genome Project KOREAN Study-wide 1812 (GAAA)5=0.9983 delGAAA=0.0017
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.

Genomic Placements
Sequence name Change
GRCh38.p13 chr 1 NC_000001.11:g.83945GAAA[2]
GRCh38.p13 chr 1 NC_000001.11:g.83945GAAA[3]
GRCh38.p13 chr 1 NC_000001.11:g.83945GAAA[4]
GRCh38.p13 chr 1 NC_000001.11:g.83945GAAA[6]
GRCh37.p13 chr 1 NC_000001.10:g.83945GAAA[2]
GRCh37.p13 chr 1 NC_000001.10:g.83945GAAA[3]
GRCh37.p13 chr 1 NC_000001.10:g.83945GAAA[4]
GRCh37.p13 chr 1 NC_000001.10:g.83945GAAA[6]
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.

Not Reported in ClinVar
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 (GAAA)5= del(GAAA)3 del(GAAA)2 delGAAA dupGAAA
GRCh38.p13 chr 1 NC_000001.11:g.83945_83964= NC_000001.11:g.83945GAAA[2] NC_000001.11:g.83945GAAA[3] NC_000001.11:g.83945GAAA[4] NC_000001.11:g.83945GAAA[6]
GRCh37.p13 chr 1 NC_000001.10:g.83945_83964= NC_000001.10:g.83945GAAA[2] NC_000001.10:g.83945GAAA[3] NC_000001.10:g.83945GAAA[4] NC_000001.10:g.83945GAAA[6]
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#.

9 SubSNP, 6 Frequency submissions
No Submitter Submission ID Date (Build)
1 LUNTER ss550899110 Apr 25, 2013 (138)
2 MCHAISSO ss3065282393 Nov 08, 2017 (151)
3 TOPMED ss3066326884 Nov 08, 2017 (151)
4 EVA_DECODE ss3685990616 Jul 12, 2019 (153)
5 KOGIC ss3943623097 Apr 25, 2020 (154)
6 GNOMAD ss3986893811 Apr 25, 2021 (155)
7 GNOMAD ss3986893812 Apr 25, 2021 (155)
8 TOMMO_GENOMICS ss5142034260 Apr 25, 2021 (155)
9 TOMMO_GENOMICS ss5142034261 Apr 25, 2021 (155)
10 gnomAD - Genomes

Submission ignored due to conflicting rows:
Row 8963 (NC_000001.11:83944::GAAA 1/56634)
Row 8964 (NC_000001.11:83944:GAAA: 2313/55224)

- Apr 25, 2021 (155)
11 gnomAD - Genomes

Submission ignored due to conflicting rows:
Row 8963 (NC_000001.11:83944::GAAA 1/56634)
Row 8964 (NC_000001.11:83944:GAAA: 2313/55224)

- Apr 25, 2021 (155)
12 Korean Genome Project NC_000001.11 - 83945 Apr 25, 2020 (154)
13 8.3KJPN

Submission ignored due to conflicting rows:
Row 3567 (NC_000001.10:83944:GAAAGAAA: 6/16412)
Row 3568 (NC_000001.10:83944:GAAA: 2/16412)

- Apr 25, 2021 (155)
14 8.3KJPN

Submission ignored due to conflicting rows:
Row 3567 (NC_000001.10:83944:GAAAGAAA: 6/16412)
Row 3568 (NC_000001.10:83944:GAAA: 2/16412)

- Apr 25, 2021 (155)
15 ALFA NC_000001.11 - 83945 Apr 25, 2021 (155)
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
4750555398 NC_000001.11:83944:GAAAGAAAGAAAGAA…

NC_000001.11:83944:GAAAGAAAGAAAGAAAGAAA:GAAAGAAA

NC_000001.11:83944:GAAAGAAAGAAAGAA…

NC_000001.11:83944:GAAAGAAAGAAAGAAAGAAA:GAAAGAAA

ss5142034260 NC_000001.10:83944:GAAAGAAA: NC_000001.11:83944:GAAAGAAAGAAAGAA…

NC_000001.11:83944:GAAAGAAAGAAAGAAAGAAA:GAAAGAAAGAAA

ss550899110 NC_000001.9:73807:GAAA: NC_000001.11:83944:GAAAGAAAGAAAGAA…

NC_000001.11:83944:GAAAGAAAGAAAGAAAGAAA:GAAAGAAAGAAAGAAA

(self)
ss5142034261 NC_000001.10:83944:GAAA: NC_000001.11:83944:GAAAGAAAGAAAGAA…

NC_000001.11:83944:GAAAGAAAGAAAGAAAGAAA:GAAAGAAAGAAAGAAA

(self)
1098, ss3065282393, ss3066326884, ss3685990616, ss3943623097, ss3986893812 NC_000001.11:83944:GAAA: NC_000001.11:83944:GAAAGAAAGAAAGAA…

NC_000001.11:83944:GAAAGAAAGAAAGAAAGAAA:GAAAGAAAGAAAGAAA

(self)
4750555398 NC_000001.11:83944:GAAAGAAAGAAAGAA…

NC_000001.11:83944:GAAAGAAAGAAAGAAAGAAA:GAAAGAAAGAAAGAAA

NC_000001.11:83944:GAAAGAAAGAAAGAA…

NC_000001.11:83944:GAAAGAAAGAAAGAAAGAAA:GAAAGAAAGAAAGAAA

ss3986893811 NC_000001.11:83944::GAAA NC_000001.11:83944:GAAAGAAAGAAAGAA…

NC_000001.11:83944:GAAAGAAAGAAAGAAAGAAA:GAAAGAAAGAAAGAAAGAAAGAAA

4750555398 NC_000001.11:83944:GAAAGAAAGAAAGAA…

NC_000001.11:83944:GAAAGAAAGAAAGAAAGAAA:GAAAGAAAGAAAGAAAGAAAGAAA

NC_000001.11:83944:GAAAGAAAGAAAGAA…

NC_000001.11:83944:GAAAGAAAGAAAGAAAGAAA:GAAAGAAAGAAAGAAAGAAAGAAA

Help

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

No publications for rs368742622

Help

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.post629+eb05767