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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.

rs77612789

Current Build 155

Released April 9, 2021

Organism
Homo sapiens
Position
chr1:3633435 (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
C>A / C>G
Variation Type
SNV Single Nucleotide Variation
Frequency
G=0.003053 (744/243664, GnomAD_exome)
G=0.012604 (1768/140270, GnomAD)
G=0.003659 (421/115064, ExAC) (+ 7 more)
G=0.01956 (1538/78638, PAGE_STUDY)
G=0.00108 (48/44606, ALFA)
G=0.01319 (171/12960, GO-ESP)
G=0.0132 (66/5008, 1000G)
G=0.005 (1/216, Qatari)
C=0.5 (3/6, SGDP_PRJ)
G=0.5 (3/6, SGDP_PRJ)
Clinical Significance
Not Reported in ClinVar
Gene : Consequence
WRAP73 : Synonymous Variant
Publications
0 citations
Genomic View
See rs on genome
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.3633435C>A
GRCh38.p13 chr 1 NC_000001.11:g.3633435C>G
GRCh37.p13 chr 1 NC_000001.10:g.3549999C>A
GRCh37.p13 chr 1 NC_000001.10:g.3549999C>G
WRAP73 RefSeqGene NG_033937.1:g.21673G>T
WRAP73 RefSeqGene NG_033937.1:g.21673G>C
Gene: WRAP73, WD repeat containing, antisense to TP73 (minus strand)
Molecule type Change Amino acid[Codon] SO Term
WRAP73 transcript NM_017818.4:c.885G>T R [CGG] > R [CGT] Coding Sequence Variant
WD repeat-containing protein WRAP73 NP_060288.3:p.Arg295= R (Arg) > R (Arg) Synonymous Variant
WRAP73 transcript NM_017818.4:c.885G>C R [CGG] > R [CGC] Coding Sequence Variant
WD repeat-containing protein WRAP73 NP_060288.3:p.Arg295= R (Arg) > R (Arg) Synonymous Variant
WRAP73 transcript variant X1 XM_017001387.2:c.885G>T R [CGG] > R [CGT] Coding Sequence Variant
WD repeat-containing protein WRAP73 isoform X1 XP_016856876.1:p.Arg295= R (Arg) > R (Arg) Synonymous Variant
WRAP73 transcript variant X1 XM_017001387.2:c.885G>C R [CGG] > R [CGC] Coding Sequence Variant
WD repeat-containing protein WRAP73 isoform X1 XP_016856876.1:p.Arg295= R (Arg) > R (Arg) Synonymous Variant
WRAP73 transcript variant X2 XM_005244754.2:c.750G>T R [CGG] > R [CGT] Coding Sequence Variant
WD repeat-containing protein WRAP73 isoform X2 XP_005244811.1:p.Arg250= R (Arg) > R (Arg) Synonymous Variant
WRAP73 transcript variant X2 XM_005244754.2:c.750G>C R [CGG] > R [CGC] Coding Sequence Variant
WD repeat-containing protein WRAP73 isoform X2 XP_005244811.1:p.Arg250= R (Arg) > R (Arg) Synonymous Variant
WRAP73 transcript variant X3 XR_946661.3:n.951G>T N/A Non Coding Transcript Variant
WRAP73 transcript variant X3 XR_946661.3:n.951G>C N/A Non Coding 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

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 44606 C=0.99892 A=0.00000, G=0.00108
European Sub 32784 C=0.99982 A=0.00000, G=0.00018
African Sub 3394 C=0.9912 A=0.0000, G=0.0088
African Others Sub 106 C=0.981 A=0.000, G=0.019
African American Sub 3288 C=0.9915 A=0.0000, G=0.0085
Asian Sub 168 C=1.000 A=0.000, G=0.000
East Asian Sub 112 C=1.000 A=0.000, G=0.000
Other Asian Sub 56 C=1.00 A=0.00, G=0.00
Latin American 1 Sub 498 C=0.992 A=0.000, G=0.008
Latin American 2 Sub 624 C=1.000 A=0.000, G=0.000
South Asian Sub 98 C=1.00 A=0.00, G=0.00
Other Sub 7040 C=0.9989 A=0.0000, G=0.0011


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
gnomAD - Exomes Global Study-wide 243664 C=0.996947 G=0.003053
gnomAD - Exomes European Sub 129558 C=0.999846 G=0.000154
gnomAD - Exomes Asian Sub 48788 C=0.99998 G=0.00002
gnomAD - Exomes American Sub 34404 C=0.99753 G=0.00247
gnomAD - Exomes African Sub 15024 C=0.95827 G=0.04173
gnomAD - Exomes Ashkenazi Jewish Sub 9876 C=0.9999 G=0.0001
gnomAD - Exomes Other Sub 6014 C=0.9983 G=0.0017
gnomAD - Genomes Global Study-wide 140270 C=0.987396 G=0.012604
gnomAD - Genomes European Sub 75954 C=0.99988 G=0.00012
gnomAD - Genomes African Sub 42052 C=0.95957 G=0.04043
gnomAD - Genomes American Sub 13664 C=0.99671 G=0.00329
gnomAD - Genomes Ashkenazi Jewish Sub 3322 C=1.0000 G=0.0000
gnomAD - Genomes East Asian Sub 3130 C=1.0000 G=0.0000
gnomAD - Genomes Other Sub 2148 C=0.9935 G=0.0065
ExAC Global Study-wide 115064 C=0.996341 G=0.003659
ExAC Europe Sub 68708 C=0.99988 G=0.00012
ExAC Asian Sub 24984 C=1.00000 G=0.00000
ExAC American Sub 11454 C=0.99756 G=0.00244
ExAC African Sub 9046 C=0.9577 G=0.0423
ExAC Other Sub 872 C=0.998 G=0.002
The PAGE Study Global Study-wide 78638 C=0.98044 G=0.01956
The PAGE Study AfricanAmerican Sub 32464 C=0.96060 G=0.03940
The PAGE Study Mexican Sub 10810 C=0.99658 G=0.00342
The PAGE Study Asian Sub 8316 C=0.9998 G=0.0002
The PAGE Study PuertoRican Sub 7916 C=0.9920 G=0.0080
The PAGE Study NativeHawaiian Sub 4532 C=0.9989 G=0.0011
The PAGE Study Cuban Sub 4228 C=0.9941 G=0.0059
The PAGE Study Dominican Sub 3824 C=0.9791 G=0.0209
The PAGE Study CentralAmerican Sub 2450 C=0.9906 G=0.0094
The PAGE Study SouthAmerican Sub 1982 C=0.9945 G=0.0055
The PAGE Study NativeAmerican Sub 1260 C=0.9897 G=0.0103
The PAGE Study SouthAsian Sub 856 C=1.000 G=0.000
GO Exome Sequencing Project Global Study-wide 12960 C=0.98681 G=0.01319
GO Exome Sequencing Project European American Sub 8568 C=0.9998 G=0.0002
GO Exome Sequencing Project African American Sub 4392 C=0.9615 G=0.0385
1000Genomes Global Study-wide 5008 C=0.9868 G=0.0132
1000Genomes African Sub 1322 C=0.9508 G=0.0492
1000Genomes East Asian Sub 1008 C=1.0000 G=0.0000
1000Genomes Europe Sub 1006 C=1.0000 G=0.0000
1000Genomes South Asian Sub 978 C=1.000 G=0.000
1000Genomes American Sub 694 C=0.999 G=0.001
Qatari Global Study-wide 216 C=0.995 G=0.005
SGDP_PRJ Global Study-wide 6 C=0.5 G=0.5
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= A G
GRCh38.p13 chr 1 NC_000001.11:g.3633435= NC_000001.11:g.3633435C>A NC_000001.11:g.3633435C>G
GRCh37.p13 chr 1 NC_000001.10:g.3549999= NC_000001.10:g.3549999C>A NC_000001.10:g.3549999C>G
WRAP73 RefSeqGene NG_033937.1:g.21673= NG_033937.1:g.21673G>T NG_033937.1:g.21673G>C
WRAP73 transcript NM_017818.4:c.885= NM_017818.4:c.885G>T NM_017818.4:c.885G>C
WRAP73 transcript NM_017818.3:c.885= NM_017818.3:c.885G>T NM_017818.3:c.885G>C
WRAP73 transcript variant X3 XR_946661.3:n.951= XR_946661.3:n.951G>T XR_946661.3:n.951G>C
WRAP73 transcript variant X1 XM_017001387.2:c.885= XM_017001387.2:c.885G>T XM_017001387.2:c.885G>C
WRAP73 transcript variant X2 XM_005244754.2:c.750= XM_005244754.2:c.750G>T XM_005244754.2:c.750G>C
WRAP73 transcript variant X2 XM_005244754.1:c.750= XM_005244754.1:c.750G>T XM_005244754.1:c.750G>C
WD repeat-containing protein WRAP73 NP_060288.3:p.Arg295= NP_060288.3:p.Arg295= NP_060288.3:p.Arg295=
WD repeat-containing protein WRAP73 isoform X1 XP_016856876.1:p.Arg295= XP_016856876.1:p.Arg295= XP_016856876.1:p.Arg295=
WD repeat-containing protein WRAP73 isoform X2 XP_005244811.1:p.Arg250= XP_005244811.1:p.Arg250= XP_005244811.1:p.Arg250=
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#.

29 SubSNP, 11 Frequency submissions
No Submitter Submission ID Date (Build)
1 SEATTLESEQ ss159695835 Dec 01, 2009 (131)
2 1000GENOMES ss210454662 Jul 14, 2010 (132)
3 1000GENOMES ss217405814 Jul 14, 2010 (132)
4 1000GENOMES ss217410961 Jul 14, 2010 (132)
5 1000GENOMES ss328375666 May 09, 2011 (134)
6 NHLBI-ESP ss341927367 May 09, 2011 (134)
7 1000GENOMES ss489716395 May 04, 2012 (137)
8 1000GENOMES ss1289445025 Aug 21, 2014 (142)
9 EVA_EXAC ss1685260283 Apr 01, 2015 (144)
10 WEILL_CORNELL_DGM ss1917990161 Feb 12, 2016 (147)
11 ILLUMINA ss1958234500 Feb 12, 2016 (147)
12 JJLAB ss2019511239 Sep 14, 2016 (149)
13 HUMAN_LONGEVITY ss2159561155 Dec 20, 2016 (150)
14 TOPMED ss2321716276 Dec 20, 2016 (150)
15 GNOMAD ss2731054626 Nov 08, 2017 (151)
16 GNOMAD ss2746194415 Nov 08, 2017 (151)
17 GNOMAD ss2750954646 Nov 08, 2017 (151)
18 ILLUMINA ss3021047395 Nov 08, 2017 (151)
19 TOPMED ss3067087800 Nov 08, 2017 (151)
20 ILLUMINA ss3651370041 Oct 11, 2018 (152)
21 EVA ss3745753119 Jul 12, 2019 (153)
22 PAGE_CC ss3770780661 Jul 12, 2019 (153)
23 KHV_HUMAN_GENOMES ss3798774847 Jul 12, 2019 (153)
24 EVA ss3823550256 Apr 25, 2020 (154)
25 SGDP_PRJ ss3848065897 Apr 25, 2020 (154)
26 FSA-LAB ss3983912920 Apr 25, 2021 (155)
27 EVA ss3986095089 Apr 25, 2021 (155)
28 TOPMED ss4437254511 Apr 25, 2021 (155)
29 TOPMED ss4437254512 Apr 25, 2021 (155)
30 1000Genomes NC_000001.10 - 3549999 Oct 11, 2018 (152)
31 ExAC NC_000001.10 - 3549999 Oct 11, 2018 (152)
32 gnomAD - Genomes NC_000001.11 - 3633435 Apr 25, 2021 (155)
33 gnomAD - Exomes NC_000001.10 - 3549999 Jul 12, 2019 (153)
34 GO Exome Sequencing Project NC_000001.10 - 3549999 Oct 11, 2018 (152)
35 The PAGE Study NC_000001.11 - 3633435 Jul 12, 2019 (153)
36 Qatari NC_000001.10 - 3549999 Apr 25, 2020 (154)
37 SGDP_PRJ NC_000001.10 - 3549999 Apr 25, 2020 (154)
38 TopMed

Submission ignored due to conflicting rows:
Row 860846 (NC_000001.11:3633434:C:A 1/264690)
Row 860847 (NC_000001.11:3633434:C:G 3481/264690)

- Apr 25, 2021 (155)
39 TopMed

Submission ignored due to conflicting rows:
Row 860846 (NC_000001.11:3633434:C:A 1/264690)
Row 860847 (NC_000001.11:3633434:C:G 3481/264690)

- Apr 25, 2021 (155)
40 ALFA NC_000001.11 - 3633435 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
13110383643, ss4437254511 NC_000001.11:3633434:C:A NC_000001.11:3633434:C:A
ss210454662, ss217405814, ss217410961 NC_000001.9:3539858:C:G NC_000001.11:3633434:C:G (self)
112852, 4436507, 69541, 8990, 32091, 82877, ss328375666, ss341927367, ss489716395, ss1289445025, ss1685260283, ss1917990161, ss1958234500, ss2019511239, ss2321716276, ss2731054626, ss2746194415, ss2750954646, ss3021047395, ss3651370041, ss3745753119, ss3823550256, ss3848065897, ss3983912920, ss3986095089 NC_000001.10:3549998:C:G NC_000001.11:3633434:C:G (self)
821034, 2130, 535055, 13110383643, ss2159561155, ss3067087800, ss3770780661, ss3798774847, ss4437254512 NC_000001.11:3633434:C:G NC_000001.11:3633434:C:G (self)
ss159695835 NT_004350.19:3028630:C:G NC_000001.11:3633434:C:G (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 rs77612789

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.post596+ae089ad