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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.

rs73122046

Current Build 156

Released September 21, 2022

Organism
Homo sapiens
Position
chr1:241256098 (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
C>T
Variation Type
SNV Single Nucleotide Variation
Frequency
T=0.010072 (2666/264690, TOPMED)
T=0.009536 (1335/140000, GnomAD)
T=0.00735 (106/14420, ALFA) (+ 7 more)
T=0.0111 (71/6404, 1000G_30x)
T=0.0100 (50/5008, 1000G)
T=0.0003 (1/3854, ALSPAC)
T=0.0000 (0/3708, TWINSUK)
T=0.005 (1/216, Qatari)
C=0.5 (2/4, SGDP_PRJ)
T=0.5 (2/4, SGDP_PRJ)
Clinical Significance
Not Reported in ClinVar
Gene : Consequence
RGS7 : Intron Variant
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: 20230706150541
Population Group Sample Size Ref Allele Alt Allele
Total Global 14420 C=0.99265 T=0.00735
European Sub 9824 C=0.9997 T=0.0003
African Sub 2946 C=0.9667 T=0.0333
African Others Sub 114 C=0.974 T=0.026
African American Sub 2832 C=0.9665 T=0.0335
Asian Sub 112 C=1.000 T=0.000
East Asian Sub 86 C=1.00 T=0.00
Other Asian Sub 26 C=1.00 T=0.00
Latin American 1 Sub 146 C=1.000 T=0.000
Latin American 2 Sub 610 C=1.000 T=0.000
South Asian Sub 98 C=1.00 T=0.00
Other Sub 684 C=0.993 T=0.007


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
TopMed Global Study-wide 264690 C=0.989928 T=0.010072
gnomAD - Genomes Global Study-wide 140000 C=0.990464 T=0.009536
gnomAD - Genomes European Sub 75856 C=0.99995 T=0.00005
gnomAD - Genomes African Sub 41924 C=0.96925 T=0.03075
gnomAD - Genomes American Sub 13630 C=0.99787 T=0.00213
gnomAD - Genomes Ashkenazi Jewish Sub 3318 C=1.0000 T=0.0000
gnomAD - Genomes East Asian Sub 3126 C=1.0000 T=0.0000
gnomAD - Genomes Other Sub 2146 C=0.9939 T=0.0061
Allele Frequency Aggregator Total Global 14420 C=0.99265 T=0.00735
Allele Frequency Aggregator European Sub 9824 C=0.9997 T=0.0003
Allele Frequency Aggregator African Sub 2946 C=0.9667 T=0.0333
Allele Frequency Aggregator Other Sub 684 C=0.993 T=0.007
Allele Frequency Aggregator Latin American 2 Sub 610 C=1.000 T=0.000
Allele Frequency Aggregator Latin American 1 Sub 146 C=1.000 T=0.000
Allele Frequency Aggregator Asian Sub 112 C=1.000 T=0.000
Allele Frequency Aggregator South Asian Sub 98 C=1.00 T=0.00
1000Genomes_30x Global Study-wide 6404 C=0.9889 T=0.0111
1000Genomes_30x African Sub 1786 C=0.9602 T=0.0398
1000Genomes_30x Europe Sub 1266 C=1.0000 T=0.0000
1000Genomes_30x South Asian Sub 1202 C=1.0000 T=0.0000
1000Genomes_30x East Asian Sub 1170 C=1.0000 T=0.0000
1000Genomes_30x American Sub 980 C=1.000 T=0.000
1000Genomes Global Study-wide 5008 C=0.9900 T=0.0100
1000Genomes African Sub 1322 C=0.9622 T=0.0378
1000Genomes East Asian Sub 1008 C=1.0000 T=0.0000
1000Genomes Europe Sub 1006 C=1.0000 T=0.0000
1000Genomes South Asian Sub 978 C=1.000 T=0.000
1000Genomes American Sub 694 C=1.000 T=0.000
The Avon Longitudinal Study of Parents and Children PARENT AND CHILD COHORT Study-wide 3854 C=0.9997 T=0.0003
UK 10K study - Twins TWIN COHORT Study-wide 3708 C=1.0000 T=0.0000
Qatari Global Study-wide 216 C=0.995 T=0.005
SGDP_PRJ Global Study-wide 4 C=0.5 T=0.5
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.p14 chr 1 NC_000001.11:g.241256098C>T
GRCh37.p13 chr 1 NC_000001.10:g.241419398C>T
Gene: RGS7, regulator of G protein signaling 7 (minus strand)
Molecule type Change Amino acid[Codon] SO Term
RGS7 transcript variant 2 NM_001282773.2:c.78+99601…

NM_001282773.2:c.78+99601G>A

N/A Intron Variant
RGS7 transcript variant 3 NM_001282775.2:c.78+99601…

NM_001282775.2:c.78+99601G>A

N/A Intron Variant
RGS7 transcript variant 4 NM_001282778.2:c.78+99601…

NM_001282778.2:c.78+99601G>A

N/A Intron Variant
RGS7 transcript variant 5 NM_001350113.2:c.-1+98479…

NM_001350113.2:c.-1+98479G>A

N/A Intron Variant
RGS7 transcript variant 6 NM_001350114.2:c.-1+59466…

NM_001350114.2:c.-1+59466G>A

N/A Intron Variant
RGS7 transcript variant 7 NM_001350115.2:c.-1+98479…

NM_001350115.2:c.-1+98479G>A

N/A Intron Variant
RGS7 transcript variant 8 NM_001350116.1:c.-1+59466…

NM_001350116.1:c.-1+59466G>A

N/A Intron Variant
RGS7 transcript variant 9 NM_001364886.1:c.78+99601…

NM_001364886.1:c.78+99601G>A

N/A Intron Variant
RGS7 transcript variant 10 NM_001374806.1:c.78+99601…

NM_001374806.1:c.78+99601G>A

N/A Intron Variant
RGS7 transcript variant 11 NM_001374807.1:c.78+99601…

NM_001374807.1:c.78+99601G>A

N/A Intron Variant
RGS7 transcript variant 12 NM_001374808.1:c.-147+996…

NM_001374808.1:c.-147+99601G>A

N/A Intron Variant
RGS7 transcript variant 13 NM_001374809.1:c.-212+996…

NM_001374809.1:c.-212+99601G>A

N/A Intron Variant
RGS7 transcript variant 14 NM_001374810.1:c.-212+996…

NM_001374810.1:c.-212+99601G>A

N/A Intron Variant
RGS7 transcript variant 16 NM_001374811.1:c.78+99601…

NM_001374811.1:c.78+99601G>A

N/A Intron Variant
RGS7 transcript variant 15 NM_001374812.1:c.78+99601…

NM_001374812.1:c.78+99601G>A

N/A Intron Variant
RGS7 transcript variant 17 NM_001374813.1:c.-212+996…

NM_001374813.1:c.-212+99601G>A

N/A Intron Variant
RGS7 transcript variant 18 NM_001374814.1:c.78+99601…

NM_001374814.1:c.78+99601G>A

N/A Intron Variant
RGS7 transcript variant 19 NM_001374815.1:c.78+99601…

NM_001374815.1:c.78+99601G>A

N/A Intron Variant
RGS7 transcript variant 20 NM_001374816.1:c.78+99601…

NM_001374816.1:c.78+99601G>A

N/A Intron Variant
RGS7 transcript variant 1 NM_002924.6:c.78+99601G>A N/A Intron Variant
RGS7 transcript variant X2 XM_017002009.2:c. N/A Genic Upstream Transcript Variant
RGS7 transcript variant X1 XM_047426980.1:c. N/A Genic Upstream Transcript Variant
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 C= T
GRCh38.p14 chr 1 NC_000001.11:g.241256098= NC_000001.11:g.241256098C>T
GRCh37.p13 chr 1 NC_000001.10:g.241419398= NC_000001.10:g.241419398C>T
RGS7 transcript variant 2 NM_001282773.2:c.78+99601= NM_001282773.2:c.78+99601G>A
RGS7 transcript variant 3 NM_001282775.2:c.78+99601= NM_001282775.2:c.78+99601G>A
RGS7 transcript variant 4 NM_001282778.2:c.78+99601= NM_001282778.2:c.78+99601G>A
RGS7 transcript variant 5 NM_001350113.2:c.-1+98479= NM_001350113.2:c.-1+98479G>A
RGS7 transcript variant 6 NM_001350114.2:c.-1+59466= NM_001350114.2:c.-1+59466G>A
RGS7 transcript variant 7 NM_001350115.2:c.-1+98479= NM_001350115.2:c.-1+98479G>A
RGS7 transcript variant 8 NM_001350116.1:c.-1+59466= NM_001350116.1:c.-1+59466G>A
RGS7 transcript variant 9 NM_001364886.1:c.78+99601= NM_001364886.1:c.78+99601G>A
RGS7 transcript variant 10 NM_001374806.1:c.78+99601= NM_001374806.1:c.78+99601G>A
RGS7 transcript variant 11 NM_001374807.1:c.78+99601= NM_001374807.1:c.78+99601G>A
RGS7 transcript variant 12 NM_001374808.1:c.-147+99601= NM_001374808.1:c.-147+99601G>A
RGS7 transcript variant 13 NM_001374809.1:c.-212+99601= NM_001374809.1:c.-212+99601G>A
RGS7 transcript variant 14 NM_001374810.1:c.-212+99601= NM_001374810.1:c.-212+99601G>A
RGS7 transcript variant 16 NM_001374811.1:c.78+99601= NM_001374811.1:c.78+99601G>A
RGS7 transcript variant 15 NM_001374812.1:c.78+99601= NM_001374812.1:c.78+99601G>A
RGS7 transcript variant 17 NM_001374813.1:c.-212+99601= NM_001374813.1:c.-212+99601G>A
RGS7 transcript variant 18 NM_001374814.1:c.78+99601= NM_001374814.1:c.78+99601G>A
RGS7 transcript variant 19 NM_001374815.1:c.78+99601= NM_001374815.1:c.78+99601G>A
RGS7 transcript variant 20 NM_001374816.1:c.78+99601= NM_001374816.1:c.78+99601G>A
RGS7 transcript NM_002924.4:c.78+99601= NM_002924.4:c.78+99601G>A
RGS7 transcript variant 1 NM_002924.6:c.78+99601= NM_002924.6:c.78+99601G>A
RGS7 transcript variant X1 XM_005273218.1:c.78+99601= XM_005273218.1:c.78+99601G>A
RGS7 transcript variant X2 XM_005273219.1:c.78+99601= XM_005273219.1:c.78+99601G>A
RGS7 transcript variant X3 XM_005273220.1:c.78+99601= XM_005273220.1:c.78+99601G>A
RGS7 transcript variant X5 XM_005273222.1:c.78+99601= XM_005273222.1:c.78+99601G>A
RGS7 transcript variant X6 XM_005273223.1:c.78+99601= XM_005273223.1:c.78+99601G>A
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#.

20 SubSNP, 9 Frequency submissions
No Submitter Submission ID Date (Build)
1 1000GENOMES ss112040497 Feb 14, 2009 (130)
2 COMPLETE_GENOMICS ss165543169 Jul 04, 2010 (132)
3 1000GENOMES ss218979304 Jul 14, 2010 (132)
4 TISHKOFF ss555255070 Apr 25, 2013 (138)
5 1000GENOMES ss1295344706 Aug 21, 2014 (142)
6 EVA_UK10K_ALSPAC ss1602512911 Apr 01, 2015 (144)
7 EVA_UK10K_TWINSUK ss1645506944 Apr 01, 2015 (144)
8 WEILL_CORNELL_DGM ss1919555065 Feb 12, 2016 (147)
9 HUMAN_LONGEVITY ss2171515836 Dec 20, 2016 (150)
10 GNOMAD ss2768164478 Nov 08, 2017 (151)
11 KHV_HUMAN_GENOMES ss3800559459 Jul 12, 2019 (153)
12 SGDP_PRJ ss3851266247 Apr 25, 2020 (154)
13 TOPMED ss4489559131 Apr 27, 2021 (155)
14 1000G_HIGH_COVERAGE ss5246406523 Oct 17, 2022 (156)
15 EVA ss5325899516 Oct 17, 2022 (156)
16 HUGCELL_USP ss5446785784 Oct 17, 2022 (156)
17 1000G_HIGH_COVERAGE ss5520806952 Oct 17, 2022 (156)
18 SANFORD_IMAGENETICS ss5627797556 Oct 17, 2022 (156)
19 EVA ss5912674941 Oct 17, 2022 (156)
20 EVA ss5939648087 Oct 17, 2022 (156)
21 1000Genomes NC_000001.10 - 241419398 Oct 11, 2018 (152)
22 1000Genomes_30x NC_000001.11 - 241256098 Oct 17, 2022 (156)
23 The Avon Longitudinal Study of Parents and Children NC_000001.10 - 241419398 Oct 11, 2018 (152)
24 gnomAD - Genomes NC_000001.11 - 241256098 Apr 27, 2021 (155)
25 Qatari NC_000001.10 - 241419398 Apr 25, 2020 (154)
26 SGDP_PRJ NC_000001.10 - 241419398 Apr 25, 2020 (154)
27 TopMed NC_000001.11 - 241256098 Apr 27, 2021 (155)
28 UK 10K study - Twins NC_000001.10 - 241419398 Oct 11, 2018 (152)
29 ALFA NC_000001.11 - 241256098 Apr 27, 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
ss112040497, ss165543169 NC_000001.9:239486020:C:T NC_000001.11:241256097:C:T (self)
6225362, 3449729, 1596995, 3283227, 3449729, ss218979304, ss555255070, ss1295344706, ss1602512911, ss1645506944, ss1919555065, ss2768164478, ss3851266247, ss5325899516, ss5627797556, ss5939648087 NC_000001.10:241419397:C:T NC_000001.11:241256097:C:T (self)
8332887, 44538298, 53165466, 3259287431, ss2171515836, ss3800559459, ss4489559131, ss5246406523, ss5446785784, ss5520806952, ss5912674941 NC_000001.11:241256097:C:T NC_000001.11:241256097:C:T (self)
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 rs73122046

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.post761+d5e8e07