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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.

rs2020996

Current Build 156

Released September 21, 2022

Organism
Homo sapiens
Position
chr14:77185008 (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
G>A
Variation Type
SNV Single Nucleotide Variation
Frequency
G=0.406018 (107469/264690, TOPMED)
G=0.322879 (78984/244624, ALFA)
G=0.401801 (56269/140042, GnomAD) (+ 18 more)
G=0.42927 (33764/78654, PAGE_STUDY)
G=0.16254 (4593/28258, 14KJPN)
G=0.16038 (2688/16760, 8.3KJPN)
G=0.3969 (2542/6404, 1000G_30x)
G=0.3866 (1936/5008, 1000G)
G=0.2817 (1262/4480, Estonian)
G=0.3142 (1211/3854, ALSPAC)
G=0.3174 (1177/3708, TWINSUK)
G=0.1481 (434/2930, KOREAN)
G=0.1692 (310/1832, Korea1K)
G=0.345 (344/998, GoNL)
G=0.191 (149/782, PRJEB37584)
G=0.295 (177/600, NorthernSweden)
G=0.227 (110/484, SGDP_PRJ)
G=0.459 (144/314, HapMap)
G=0.310 (67/216, Qatari)
G=0.21 (11/52, Siberian)
G=0.25 (10/40, GENOME_DK)
Clinical Significance
Not Reported in ClinVar
Gene : Consequence
TMEM63C : 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 249658 G=0.324464 A=0.675536
European Sub 220580 G=0.315990 A=0.684010
African Sub 7964 G=0.6190 A=0.3810
African Others Sub 316 G=0.696 A=0.304
African American Sub 7648 G=0.6158 A=0.3842
Asian Sub 3842 G=0.2257 A=0.7743
East Asian Sub 3112 G=0.1745 A=0.8255
Other Asian Sub 730 G=0.444 A=0.556
Latin American 1 Sub 1028 G=0.3813 A=0.6187
Latin American 2 Sub 6586 G=0.2633 A=0.7367
South Asian Sub 366 G=0.322 A=0.678
Other Sub 9292 G=0.3512 A=0.6488


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 G=0.406018 A=0.593982
Allele Frequency Aggregator Total Global 244624 G=0.322879 A=0.677121
Allele Frequency Aggregator European Sub 217488 G=0.315958 A=0.684042
Allele Frequency Aggregator Other Sub 8492 G=0.3486 A=0.6514
Allele Frequency Aggregator African Sub 6822 G=0.6151 A=0.3849
Allele Frequency Aggregator Latin American 2 Sub 6586 G=0.2633 A=0.7367
Allele Frequency Aggregator Asian Sub 3842 G=0.2257 A=0.7743
Allele Frequency Aggregator Latin American 1 Sub 1028 G=0.3813 A=0.6187
Allele Frequency Aggregator South Asian Sub 366 G=0.322 A=0.678
gnomAD - Genomes Global Study-wide 140042 G=0.401801 A=0.598199
gnomAD - Genomes European Sub 75866 G=0.30649 A=0.69351
gnomAD - Genomes African Sub 41936 G=0.61756 A=0.38244
gnomAD - Genomes American Sub 13652 G=0.32508 A=0.67492
gnomAD - Genomes Ashkenazi Jewish Sub 3322 G=0.3537 A=0.6463
gnomAD - Genomes East Asian Sub 3122 G=0.2194 A=0.7806
gnomAD - Genomes Other Sub 2144 G=0.3829 A=0.6171
The PAGE Study Global Study-wide 78654 G=0.42927 A=0.57073
The PAGE Study AfricanAmerican Sub 32502 G=0.60895 A=0.39105
The PAGE Study Mexican Sub 10806 G=0.27374 A=0.72626
The PAGE Study Asian Sub 8310 G=0.1856 A=0.8144
The PAGE Study PuertoRican Sub 7908 G=0.3619 A=0.6381
The PAGE Study NativeHawaiian Sub 4532 G=0.2743 A=0.7257
The PAGE Study Cuban Sub 4228 G=0.3562 A=0.6438
The PAGE Study Dominican Sub 3822 G=0.4589 A=0.5411
The PAGE Study CentralAmerican Sub 2450 G=0.3416 A=0.6584
The PAGE Study SouthAmerican Sub 1980 G=0.2914 A=0.7086
The PAGE Study NativeAmerican Sub 1260 G=0.3460 A=0.6540
The PAGE Study SouthAsian Sub 856 G=0.300 A=0.700
14KJPN JAPANESE Study-wide 28258 G=0.16254 A=0.83746
8.3KJPN JAPANESE Study-wide 16760 G=0.16038 A=0.83962
1000Genomes_30x Global Study-wide 6404 G=0.3969 A=0.6031
1000Genomes_30x African Sub 1786 G=0.6809 A=0.3191
1000Genomes_30x Europe Sub 1266 G=0.3254 A=0.6746
1000Genomes_30x South Asian Sub 1202 G=0.2962 A=0.7038
1000Genomes_30x East Asian Sub 1170 G=0.2368 A=0.7632
1000Genomes_30x American Sub 980 G=0.287 A=0.713
1000Genomes Global Study-wide 5008 G=0.3866 A=0.6134
1000Genomes African Sub 1322 G=0.6785 A=0.3215
1000Genomes East Asian Sub 1008 G=0.2312 A=0.7688
1000Genomes Europe Sub 1006 G=0.3121 A=0.6879
1000Genomes South Asian Sub 978 G=0.294 A=0.706
1000Genomes American Sub 694 G=0.294 A=0.706
Genetic variation in the Estonian population Estonian Study-wide 4480 G=0.2817 A=0.7183
The Avon Longitudinal Study of Parents and Children PARENT AND CHILD COHORT Study-wide 3854 G=0.3142 A=0.6858
UK 10K study - Twins TWIN COHORT Study-wide 3708 G=0.3174 A=0.6826
KOREAN population from KRGDB KOREAN Study-wide 2930 G=0.1481 A=0.8519
Korean Genome Project KOREAN Study-wide 1832 G=0.1692 A=0.8308
Genome of the Netherlands Release 5 Genome of the Netherlands Study-wide 998 G=0.345 A=0.655
CNV burdens in cranial meningiomas Global Study-wide 782 G=0.191 A=0.809
CNV burdens in cranial meningiomas CRM Sub 782 G=0.191 A=0.809
Northern Sweden ACPOP Study-wide 600 G=0.295 A=0.705
SGDP_PRJ Global Study-wide 484 G=0.227 A=0.773
HapMap Global Study-wide 314 G=0.459 A=0.541
HapMap African Sub 118 G=0.754 A=0.246
HapMap American Sub 108 G=0.380 A=0.620
HapMap Asian Sub 88 G=0.16 A=0.84
Qatari Global Study-wide 216 G=0.310 A=0.690
Siberian Global Study-wide 52 G=0.21 A=0.79
The Danish reference pan genome Danish Study-wide 40 G=0.25 A=0.75
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 14 NC_000014.9:g.77185008G>A
GRCh37.p13 chr 14 NC_000014.8:g.77651351G>A
Gene: TMEM63C, transmembrane protein 63C (plus strand)
Molecule type Change Amino acid[Codon] SO Term
TMEM63C transcript NM_020431.4:c.-77+3114G>A N/A Intron 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 G= A
GRCh38.p14 chr 14 NC_000014.9:g.77185008= NC_000014.9:g.77185008G>A
GRCh37.p13 chr 14 NC_000014.8:g.77651351= NC_000014.8:g.77651351G>A
TMEM63C transcript NM_020431.2:c.-77+3114= NM_020431.2:c.-77+3114G>A
TMEM63C transcript NM_020431.4:c.-77+3114= NM_020431.4:c.-77+3114G>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#.

114 SubSNP, 21 Frequency submissions
No Submitter Submission ID Date (Build)
1 TSC-CSHL ss2924132 Apr 12, 2001 (94)
2 WI_SSAHASNP ss6776662 Feb 20, 2003 (111)
3 ABI ss43583800 Mar 13, 2006 (126)
4 PERLEGEN ss69162816 May 17, 2007 (127)
5 BCMHGSC_JDW ss90001175 Mar 24, 2008 (129)
6 HUMANGENOME_JCVI ss96929310 Feb 06, 2009 (130)
7 BGI ss106399707 Feb 06, 2009 (130)
8 1000GENOMES ss108472663 Jan 23, 2009 (130)
9 1000GENOMES ss113556933 Jan 25, 2009 (130)
10 ENSEMBL ss134060154 Dec 01, 2009 (131)
11 ENSEMBL ss136995606 Dec 01, 2009 (131)
12 GMI ss156005216 Dec 01, 2009 (131)
13 ILLUMINA ss160489409 Dec 01, 2009 (131)
14 COMPLETE_GENOMICS ss169985972 Jul 04, 2010 (132)
15 COMPLETE_GENOMICS ss171345219 Jul 04, 2010 (132)
16 BUSHMAN ss200287478 Jul 04, 2010 (132)
17 BCM-HGSC-SUB ss206919442 Jul 04, 2010 (132)
18 1000GENOMES ss226660926 Jul 14, 2010 (132)
19 1000GENOMES ss236610233 Jul 15, 2010 (132)
20 1000GENOMES ss243030590 Jul 15, 2010 (132)
21 BL ss255118852 May 09, 2011 (134)
22 GMI ss282070965 May 04, 2012 (137)
23 GMI ss286872747 Apr 25, 2013 (138)
24 PJP ss291632950 May 09, 2011 (134)
25 ILLUMINA ss480383731 May 04, 2012 (137)
26 ILLUMINA ss480396389 May 04, 2012 (137)
27 ILLUMINA ss481173066 Sep 08, 2015 (146)
28 ILLUMINA ss484989448 May 04, 2012 (137)
29 ILLUMINA ss537023721 Sep 08, 2015 (146)
30 TISHKOFF ss564200005 Apr 25, 2013 (138)
31 SSMP ss659891549 Apr 25, 2013 (138)
32 ILLUMINA ss778476833 Sep 08, 2015 (146)
33 ILLUMINA ss782941039 Sep 08, 2015 (146)
34 ILLUMINA ss783903614 Sep 08, 2015 (146)
35 ILLUMINA ss832196665 Sep 08, 2015 (146)
36 ILLUMINA ss833932662 Sep 08, 2015 (146)
37 EVA-GONL ss991334745 Aug 21, 2014 (142)
38 JMKIDD_LAB ss1079793456 Aug 21, 2014 (142)
39 1000GENOMES ss1351712752 Aug 21, 2014 (142)
40 DDI ss1427475694 Apr 01, 2015 (144)
41 EVA_GENOME_DK ss1577364419 Apr 01, 2015 (144)
42 EVA_UK10K_ALSPAC ss1632118182 Apr 01, 2015 (144)
43 EVA_UK10K_TWINSUK ss1675112215 Apr 01, 2015 (144)
44 EVA_DECODE ss1695339608 Apr 01, 2015 (144)
45 ILLUMINA ss1752143120 Sep 08, 2015 (146)
46 HAMMER_LAB ss1807995945 Sep 08, 2015 (146)
47 WEILL_CORNELL_DGM ss1934705350 Feb 12, 2016 (147)
48 ILLUMINA ss1946381861 Feb 12, 2016 (147)
49 ILLUMINA ss1959568741 Feb 12, 2016 (147)
50 GENOMED ss1968003263 Jul 19, 2016 (147)
51 JJLAB ss2028134424 Sep 14, 2016 (149)
52 USC_VALOUEV ss2156512102 Dec 20, 2016 (150)
53 HUMAN_LONGEVITY ss2203449688 Dec 20, 2016 (150)
54 SYSTEMSBIOZJU ss2628556315 Nov 08, 2017 (151)
55 ILLUMINA ss2633174177 Nov 08, 2017 (151)
56 GRF ss2700944953 Nov 08, 2017 (151)
57 ILLUMINA ss2710805397 Nov 08, 2017 (151)
58 GNOMAD ss2929716812 Nov 08, 2017 (151)
59 SWEGEN ss3012492290 Nov 08, 2017 (151)
60 ILLUMINA ss3021585803 Nov 08, 2017 (151)
61 BIOINF_KMB_FNS_UNIBA ss3027892242 Nov 08, 2017 (151)
62 CSHL ss3350888798 Nov 08, 2017 (151)
63 ILLUMINA ss3625663234 Oct 12, 2018 (152)
64 ILLUMINA ss3627261323 Oct 12, 2018 (152)
65 ILLUMINA ss3631170941 Oct 12, 2018 (152)
66 ILLUMINA ss3633082387 Oct 12, 2018 (152)
67 ILLUMINA ss3633786108 Oct 12, 2018 (152)
68 ILLUMINA ss3634585561 Oct 12, 2018 (152)
69 ILLUMINA ss3635475457 Oct 12, 2018 (152)
70 ILLUMINA ss3636274835 Oct 12, 2018 (152)
71 ILLUMINA ss3637226629 Oct 12, 2018 (152)
72 ILLUMINA ss3640292888 Oct 12, 2018 (152)
73 ILLUMINA ss3644634994 Oct 12, 2018 (152)
74 URBANLAB ss3650242184 Oct 12, 2018 (152)
75 ILLUMINA ss3651980780 Oct 12, 2018 (152)
76 EGCUT_WGS ss3679748136 Jul 13, 2019 (153)
77 EVA_DECODE ss3697033181 Jul 13, 2019 (153)
78 ILLUMINA ss3725463204 Jul 13, 2019 (153)
79 ACPOP ss3740539942 Jul 13, 2019 (153)
80 ILLUMINA ss3744124800 Jul 13, 2019 (153)
81 ILLUMINA ss3744886179 Jul 13, 2019 (153)
82 EVA ss3752541347 Jul 13, 2019 (153)
83 PAGE_CC ss3771801154 Jul 13, 2019 (153)
84 ILLUMINA ss3772384939 Jul 13, 2019 (153)
85 PACBIO ss3787715700 Jul 13, 2019 (153)
86 PACBIO ss3792745952 Jul 13, 2019 (153)
87 PACBIO ss3797630338 Jul 13, 2019 (153)
88 KHV_HUMAN_GENOMES ss3817868187 Jul 13, 2019 (153)
89 EVA ss3834011513 Apr 27, 2020 (154)
90 EVA ss3840596533 Apr 27, 2020 (154)
91 EVA ss3846086225 Apr 27, 2020 (154)
92 SGDP_PRJ ss3881877356 Apr 27, 2020 (154)
93 KRGDB ss3930937386 Apr 27, 2020 (154)
94 KOGIC ss3975291539 Apr 27, 2020 (154)
95 EVA ss3984694360 Apr 26, 2021 (155)
96 EVA ss4017679724 Apr 26, 2021 (155)
97 TOPMED ss4976772410 Apr 26, 2021 (155)
98 TOMMO_GENOMICS ss5214039286 Apr 26, 2021 (155)
99 1000G_HIGH_COVERAGE ss5296847030 Oct 16, 2022 (156)
100 EVA ss5315750698 Oct 16, 2022 (156)
101 EVA ss5416389416 Oct 16, 2022 (156)
102 HUGCELL_USP ss5490829977 Oct 16, 2022 (156)
103 EVA ss5511304223 Oct 16, 2022 (156)
104 1000G_HIGH_COVERAGE ss5597434997 Oct 16, 2022 (156)
105 SANFORD_IMAGENETICS ss5656572702 Oct 16, 2022 (156)
106 TOMMO_GENOMICS ss5767079806 Oct 16, 2022 (156)
107 EVA ss5799925025 Oct 16, 2022 (156)
108 YY_MCH ss5814905804 Oct 16, 2022 (156)
109 EVA ss5841356479 Oct 16, 2022 (156)
110 EVA ss5847727223 Oct 16, 2022 (156)
111 EVA ss5851109905 Oct 16, 2022 (156)
112 EVA ss5902057028 Oct 16, 2022 (156)
113 EVA ss5948023229 Oct 16, 2022 (156)
114 EVA ss5980838782 Oct 16, 2022 (156)
115 1000Genomes NC_000014.8 - 77651351 Oct 12, 2018 (152)
116 1000Genomes_30x NC_000014.9 - 77185008 Oct 16, 2022 (156)
117 The Avon Longitudinal Study of Parents and Children NC_000014.8 - 77651351 Oct 12, 2018 (152)
118 Genetic variation in the Estonian population NC_000014.8 - 77651351 Oct 12, 2018 (152)
119 The Danish reference pan genome NC_000014.8 - 77651351 Apr 27, 2020 (154)
120 gnomAD - Genomes NC_000014.9 - 77185008 Apr 26, 2021 (155)
121 Genome of the Netherlands Release 5 NC_000014.8 - 77651351 Apr 27, 2020 (154)
122 HapMap NC_000014.9 - 77185008 Apr 27, 2020 (154)
123 KOREAN population from KRGDB NC_000014.8 - 77651351 Apr 27, 2020 (154)
124 Korean Genome Project NC_000014.9 - 77185008 Apr 27, 2020 (154)
125 Northern Sweden NC_000014.8 - 77651351 Jul 13, 2019 (153)
126 The PAGE Study NC_000014.9 - 77185008 Jul 13, 2019 (153)
127 CNV burdens in cranial meningiomas NC_000014.8 - 77651351 Apr 26, 2021 (155)
128 Qatari NC_000014.8 - 77651351 Apr 27, 2020 (154)
129 SGDP_PRJ NC_000014.8 - 77651351 Apr 27, 2020 (154)
130 Siberian NC_000014.8 - 77651351 Apr 27, 2020 (154)
131 8.3KJPN NC_000014.8 - 77651351 Apr 26, 2021 (155)
132 14KJPN NC_000014.9 - 77185008 Oct 16, 2022 (156)
133 TopMed NC_000014.9 - 77185008 Apr 26, 2021 (155)
134 UK 10K study - Twins NC_000014.8 - 77651351 Oct 12, 2018 (152)
135 ALFA NC_000014.9 - 77185008 Apr 26, 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
ss90001175, ss108472663, ss113556933, ss169985972, ss171345219, ss200287478, ss206919442, ss255118852, ss282070965, ss286872747, ss291632950, ss480383731, ss1695339608 NC_000014.7:76721103:G:A NC_000014.9:77185007:G:A (self)
64720541, 35966171, 25486384, 3676761, 16060385, 38114780, 13824807, 243878, 16747280, 33894336, 9028456, 72008593, 35966171, ss226660926, ss236610233, ss243030590, ss480396389, ss481173066, ss484989448, ss537023721, ss564200005, ss659891549, ss778476833, ss782941039, ss783903614, ss832196665, ss833932662, ss991334745, ss1079793456, ss1351712752, ss1427475694, ss1577364419, ss1632118182, ss1675112215, ss1752143120, ss1807995945, ss1934705350, ss1946381861, ss1959568741, ss1968003263, ss2028134424, ss2156512102, ss2628556315, ss2633174177, ss2700944953, ss2710805397, ss2929716812, ss3012492290, ss3021585803, ss3350888798, ss3625663234, ss3627261323, ss3631170941, ss3633082387, ss3633786108, ss3634585561, ss3635475457, ss3636274835, ss3637226629, ss3640292888, ss3644634994, ss3651980780, ss3679748136, ss3740539942, ss3744124800, ss3744886179, ss3752541347, ss3772384939, ss3787715700, ss3792745952, ss3797630338, ss3834011513, ss3840596533, ss3881877356, ss3930937386, ss3984694360, ss4017679724, ss5214039286, ss5315750698, ss5416389416, ss5511304223, ss5656572702, ss5799925025, ss5841356479, ss5847727223, ss5948023229, ss5980838782 NC_000014.8:77651350:G:A NC_000014.9:77185007:G:A (self)
84960932, 456322299, 1179759, 31669540, 1022623, 100916910, 192318069, 8264858171, ss2203449688, ss3027892242, ss3650242184, ss3697033181, ss3725463204, ss3771801154, ss3817868187, ss3846086225, ss3975291539, ss4976772410, ss5296847030, ss5490829977, ss5597434997, ss5767079806, ss5814905804, ss5851109905, ss5902057028 NC_000014.9:77185007:G:A NC_000014.9:77185007:G:A (self)
ss2924132, ss6776662, ss43583800, ss69162816, ss96929310, ss106399707, ss134060154, ss136995606, ss156005216, ss160489409 NT_026437.12:58651350:G:A NC_000014.9:77185007:G:A (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 rs2020996

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