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Reference SNP (refSNP) Cluster Report: rs6770257                 
RefSNP
Organism:human (Homo sapiens)
Molecule Type:Genomic
Created/Updated in build:116/151
Map to Genome Build:108/Weight 1
Validation Status:byClusterbyFreqwith2hitWith1000GenomeData
Allele
Variation Class:SNV:
single nucleotide variation
RefSNP Alleles:C/T (FWD)
Allele Origin:
Ancestral Allele:T
Variation Viewer:link to VariationViewer
Clinical Significance:NA
MAF/MinorAlleleCount:C=0.0954/478 (1000 Genomes)
C=0.1265/15887 (TOPMED)
HGVS Names
  • CM000665.2:g.34143013T>C
  • NC_000003.11:g.34184505T>C
Links , Linkout
SNP Details are organized in the following sections:
GeneView Map Submission Fasta Resource Diversity Validation

  Integrated Maps (Hint: click on 'Chr Pos' to see variant in the new NCBI variation viewer) back to top

  GeneView back to top

GeneView via direct blast against RefSeq sequences (used when no gene model is available): N/A


  Submitter records for this RefSNP Cluster back to top
The submission ss10026746 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs6770257 during BLAST analysis for the current build.


NCBI
Assay ID
Handle|Submitter IDValidation
Status
ss to rs
Orientation
/Strand
Alleles5' Near Seq 30 bp3' Near Seq 30 bpEntry
Date
Update
Date
Build
Added
Molecule
Type
Freq
Warning
Ancestral
Allele
Success
Rate
ss10026746BCM_SSAHASNP|chr3.NT_022517.15_15730379byFreqfwd/BC/Ttctatcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctctctct06/27/0305/17/04116Genomicunknown
ss14243452BCM_SSAHASNP|chr3.NT_022517.16_34121273fwd/BC/Ttctatcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctctctct11/05/0311/22/03119Genomicunknown
ss66088306AFFY|SNP_A-1937333byFreqfwd/BC/Tttgaaagctggctgttaaaagagcctggcacc10/27/0603/31/08142Genomicunknown
ss66721319ILLUMINA|HumanHap300v1.1_rs6770257fwd/BC/Ttctatcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctctctct11/09/0611/09/06127Genomicunknown
ss67496754ILLUMINA|HumanHap550v1.1_rs6770257fwd/BC/Ttctatcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctctctct11/14/0611/14/06127Genomicunknown
ss67857251ILLUMINA|HumanHap650Yv1.0_rs6770257fwd/BC/Ttctatcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctctctct11/14/0611/14/06127Genomicunknown
ss70885654ILLUMINA|HumanHap550v3.0__rs6770257fwd/BC/Ttctatcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctctctct04/20/0703/31/08130Genomicunknown
ss71477412ILLUMINA|HumanHap650Yv3.0_rs6770257fwd/BC/Ttctatcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctctctct04/23/0704/23/07127Genomicunknown
ss75641565ILLUMINA|ILMN_Human_1M_rs6770257fwd/BC/Ttctatcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctctctct08/28/0708/29/07129Genomicunknown
ss76038846AFFY|AFFY_6_1M_SNP_A-1937333byFreqfwd/BC/Tttgaaagctggctgttaaaagagcctggcacc08/28/0703/07/10142Genomicunknown
ss78536493HGSV|Cor12878_SNV_20070510.chr3_34159509fwd/BC/Ttctatcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctctctct10/17/0710/19/07129Genomicunknown
ss79233196ILLUMINA|HumanHap300v2.0_rs6770257fwd/BC/Ttctatcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctctctct04/18/0711/18/07130Genomicunknown
ss84542645HGSV|Cor19240_SNV_20070510.chr3_34159509fwd/BC/Ttctatcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctctctct11/30/0712/07/07130Genomicunknown
ss84543316KRIBB_YJKIM|KHS739146fwd/BC/Ttctatcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctctctct12/04/0712/07/07130Genomicunknown
ss1100075241000GENOMES|NA19240_2008_12_16_608553_chr3_34159509fwd/BC/Ttctatcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctctctct12/17/0812/17/08130Genomicunknown
ss1115250031000GENOMES|CEU.trio.12.15.2008_677028_chr3_34159509fwd/BC/Ttctatcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctctctct12/17/0812/17/08130Genomicunknown
ss122614501ILLUMINA|HumanCNV370v1_C_rs6770257fwd/BC/Ttctatcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctctctct04/14/0904/15/09131Genomicunknown
ss154381583ILLUMINA|Human610_Quadv1_B_rs6770257-127_B_F_1501825665fwd/BC/Ttctatcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctctctct06/18/0906/20/09131Genomicunknown
ss159557407ILLUMINA|Human660W-Quad_v1_A_rs6770257-128_B_F_1501825665fwd/BC/Ttctatcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctctctct07/06/0907/07/09131Genomicunknown
ss160808092ILLUMINA|HumanOmni1-Quad_v1-0_B_rs6770257-128_B_F_1512198046fwd/BC/Ttctatcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctctctct08/04/0910/04/09131Genomicunknown
ss162029729COMPLETE_GENOMICS|NA07022_36_chr3_34159509fwd/BC/Ttctatcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctctctct09/28/0909/28/09132Genomicunknown
ss163309930COMPLETE_GENOMICS|NA19240_36_chr3_34159509fwd/BC/Ttctatcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctctctct09/29/0909/29/09132Genomicunknown
ss170716741AFFY|GenomeWideSNP_5_SNP_A-1937333fwd/BC/Tttgaaagctggctgttaaaagagcctggcacc10/01/0910/02/09142Genomicunknown
ss172189810ILLUMINA|HumanCNV370-Quadv3_C_rs6770257-127_B_F_1501825665fwd/BC/Ttctatcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctctctct10/01/0910/04/09132Genomicunknown
ss174106231ILLUMINA|Human1M-Duov3_B_rs6770257-127_B_F_1501825665fwd/BC/Ttctatcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctctctct10/01/0910/04/09132Genomicunknown
ss2200754251000GENOMES|pilot_1_YRI_1885108_chr3_34159509fwd/C/Ttctatcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctctctct04/22/1004/22/10132Genomicunknown
ss2317770851000GENOMES|pilot_1_CEU_1381714_chr3_34159509fwd/C/Ttctatcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctctctct05/01/1005/01/10132Genomicunknown
ss481349286ILLUMINA|HumanOmni2.5-4v1_B_rs6770257-128_B_F_1773909225fwd/BC/Tcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctc01/30/1210/28/16137Genomicunknown
ss481374971ILLUMINA|HumanOmniExpress-12v1_C_rs6770257-131_B_F_1857049356fwd/BC/Tcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctc01/30/1210/27/16137Genomicunknown
ss482354339ILLUMINA|HumanOmni1-Quad_v1-0_C_rs6770257-131_B_F_1865222039fwd/BC/Tcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctc01/30/1208/28/15146Genomicunknown
ss485469825ILLUMINA|HumanOmni2.5-4v1_D_rs6770257-131_B_F_1857049356fwd/BC/Tcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctc01/30/1210/28/16137Genomicunknown
ss537390588ILLUMINA|HumanOmni5-4v1_B_rs6770257-131_B_F_1894875571fwd/BC/Tcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctc06/22/1208/28/15146Genomicunknown
ss556538180TISHKOFF|snp_chr3_34184505fwd/BC/Tcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctc11/22/1211/23/12138Genomicunknown
ss650211655SSMP|3_34184505fwd/BC/Tcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctc12/14/1202/10/15138Genomicunknown
ss778951218ILLUMINA|HumanOmni25Exome-8v1_A_rs6770257-131_B_F_1865222039fwd/BC/Tcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctc05/30/1307/09/15142Genomicunknown
ss783180388ILLUMINA|HumanOmni2.5-4v1_H_rs6770257-131_B_F_1857049356fwd/BC/Tcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctc05/30/1307/28/15142Genomicunknown
ss784135718ILLUMINA|HumanOmniExpressExome-8v1_A_rs6770257-131_B_F_1894875571fwd/BC/Tcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctc05/31/1306/19/15142Genomicunknown
ss825563714ILLUMINA|HumanCNV370v1_C_rs6770257-119_B_F_IFB1135929796:0fwd/BC/Tcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctc06/24/1311/21/14144Genomicunknown
ss832440037ILLUMINA|HumanOmniExpress-12v1_H_rs6770257-131_B_F_1857049356fwd/BC/Tcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctc09/17/1306/18/15144Genomicunknown
ss833068568ILLUMINA|Human660W-Quad_v1_C_rs6770257-131_B_F_1857049356fwd/BC/Tcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctc09/18/1307/02/15142Genomicunknown
ss833659396ILLUMINA|Human660W-Quad_v1_H_rs6770257-131_B_F_1857049356fwd/BC/Tcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctc09/18/1307/02/15142Genomicunknown
ss834413063ILLUMINA|HumanOmni2.5-8v1_A_rs6770257-131_B_F_1865222039fwd/BC/Tcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctc09/18/1307/28/15142Genomicunknown
ss978459612EVA-GONL|EVA-GONL_rs6770257fwd/BC/Tcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctc04/23/1404/24/14142Genomicunknown
ss1070315152JMKIDD_LAB|HGDP_WGS_chr3_34184505fwd/BC/Tcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctc07/10/1407/10/14142Genomicunknown
ss13034869091000GENOMES|PHASE3_V1_14731918fwd/C/Tcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctc08/16/1408/16/14142Genomicunknown
ss1429382938DDI|DDI_rs6770257fwd/BC/Tcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctc11/04/1411/05/14144Genomicunknown
ss1579916563EVA_GENOME_DK|EVA_GENOME_DK_snv_rs6770257fwd/BC/Tcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctc02/19/1502/20/15144Genomicunknown
ss1587926510EVA_DECODE|EVA_DECODE_3_34159509_304143_rs6770257fwd/BC/Tcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctc03/02/1503/03/15144Genomicunknown
ss1606789773EVA_UK10K_ALSPAC|EVA_UK10K_ALSPAC_3_34184505_8142455fwd/C/Tcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctc03/04/1503/04/15144Genomicunknown
ss1649783806EVA_UK10K_TWINSUK|EVA_UK10K_TWINSUK_3_34184505_8142455fwd/C/Tcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctc03/04/1503/04/15144Genomicunknown
ss1712566596EVA_SVP|EVA_SVP_261141fwd/BC/Tcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctc03/12/1503/12/15144Genomicunknown
ss1752466676ILLUMINA|OmniExpressExome-8v1-1_B_rs6770257-131_B_F_1894875571fwd/BC/Tcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctc05/27/1506/09/15146Genomicunknown
ss1799118725HAMMER_LAB|Hsieh_1563742fwd/BC/Tcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctc07/15/1507/15/15146Genomicunknown
ss1921705380WEILL_CORNELL_DGM|SNV:chr3:34184505fwd/BC/Tcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctc10/16/1510/17/15147Genomicunknown
ss2021412895JJLAB|SNP1915450fwd/BC/Tcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctc08/29/1608/30/16149Genomicunknown
ss2149480357USC_VALOUEV|NC_000003.11:g.34184505T>Cfwd/C/Tcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctc11/17/1611/17/16150Genomicunknown
ss2250485754HUMAN_LONGEVITY|HLI-3-34143013-T-Cfwd/C/Tcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctc11/18/1611/18/16150Genomicunknown
ss2417557807TOPMED|3_34184505_T/Cfwd/C/Tcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctc11/19/1611/19/16150Genomicunknown
ss2633934588ILLUMINA|SoL_HCHS_Custom_15041502_B3_RefStrand_rs6770257-131_B_F_18948755fwd/C/Tcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctc02/02/1702/02/17151Genomicunknown
ss2791460138GNOMAD|rs6770257fwd/C/Tcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctc05/18/1705/18/17151Genomicunknown
ss2992106490SWEGEN|NC_000003.11:g.34184505T>Cfwd/C/Tcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctc05/30/1705/30/17151Genomicunknown
ss3024468556BIOINF_KMB_FNS_UNIBA|3.34143013T>Cfwd/C/Tcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctc07/05/1707/05/17151Genomicunknown
ss3344965118CSHL|rs6770257fwd/C/Tcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctc10/02/1710/02/17151Genomicunknown
ss3387098726TOPMED|TOPMed_freeze_5?chr3:34,143,013fwd/C/Tcagttcttgttgaaagctggctgttaaaagagcctggcacctctcccctc10/03/1710/03/17151Genomicunknown

  Fasta sequence   (Legend) back to top
>gnl|dbSNP|rs6770257|allelePos=679|totalLen=1118|taxid=9606|snpclass=1|alleles='C/T'|mol=Genomic|build=151
 ATTCCTTTTC TTTTGAACAG TTTGAGAGTC TCCCAGTTTC CTAAGGCCCA GAATAGAGCA
 CTGATGGAAC AAGAGCTGCA TGGATGTTAT AGAGCACAGT ATAGTGTAga cttctgactc
 tattgtttag tagccgtgtg tcccttggta agaaacttac tcttctgtgc cttagttttc
 ttcaattgta aaatggtagt aatagtaata gccaaggttt tactgggcat ccactttatg
 agaggcacca tcctaagagt gttacatgta ttaactcatg taggtttcac ctgtatcatc
 tccattttac agatgaggaa agtgaggaaa aaagttgtta aataaATAGC AGAGTTGGTA
 TTCAATCCTC AGCCATCTGT TTTCAGAGCC TGTGCTTGTC CAAAATAATC CCTCTGGTGT
 TCagtaccta ccttataggg atgtttagaa gattaaaaca ataatgtaca tcaagagcca
 agaacGATAT tgctatggtt tggtttggat atttgtcccc tccaaacctc atgttgaaat
 ttgattccca gtgttggaag tggggcctaa tgggaggtgg ttgggtcatg gtggcaggtc
 tctcatgaat agattcatgc tttccctcaa gggtgagtga gtttttactc tatcagttct
 tgttgaaagc tggctgtt
 Y
 aaaagagcct ggcacctctc ccctctctct tgctttctct cttaccatgt gacctctaca
 tgtggctccc ctttgccttc tgccatgggt ggaagcagcc tgaggctctc accagatgca
 gatgcccaat cttccagcta ggagaatcac gagccaaata aacctttttt tttttattat
 tattataaat tgctcagtct tgggtattct gttatagtaa cacaatgtaa attcagacaA
 ATGCACAGGT AGGTAAGAAG TTGCTTTTTT TCCTCCCTAA CTTTCTGCTT CTTGTTTGTA
 GTCCTTCTCC CCCTTGTTCT TCCTGTATTC ATAATGTCTC ATGCTGAGAT GGGTGGAAGT
 GATGGTTTAA CATTGTTCTG TTTGACAAGT TAAAAACGTC CAAAGTAACT TCAAACAGTT
 GAAAACACTT CTTTCTTCT

  NCBI Resource Links back to top
Submitter-Referenced
GenBank
NT_022517
dbSNP Blast Analysis

  Population Diversity (Alleles in RefSNP orientation) . See additional population frequency from 1000Genome [here] back to top

Sample AscertainmentGenotype DetailAlleles
ss#PopulationIndividual
Group
Chrom.
Sample Cnt.
SourceC/C
C/T
T/T
HWPC
T
ss10026746HapMap-CEUEuropean 226IG0.008849560.212389380.778761090.654721000.115044250.88495576
HapMap-HCBAsian 86IG 0.023255810.976744171.000000000.011627910.98837209
HapMap-JPTAsian 86IG 1.00000000 1.00000000
HapMap-YRISub-Saharan African 226IG0.035398230.283185840.681415921.000000000.176991150.82300884
HAPMAP-ASW 98IG0.040816330.326530610.632653061.000000000.204081640.79591835
HAPMAP-CHBAsian 82IG 1.00000000 1.00000000
HAPMAP-GIH 174IG0.011494250.218390810.770114961.000000000.120689650.87931037
HAPMAP-LWK 178IG0.078651690.359550570.561797740.583882000.258426960.74157304
HAPMAP-MEX 100IG 0.140000000.860000011.000000000.070000000.93000001
HAPMAP-MKK 286IG0.020979020.216783210.762237790.654721000.129370630.87062937
HAPMAP-TSI 176IG 0.193181810.806818190.751830000.096590910.90340906
ENSEMBL_Venter 2IG 1.00000000 1.00000000
ss1303486909EAS 1008AF 0.005000000.99500000
EUR 1006AF 0.124300000.87570000
AFR 1322AF 0.162600000.83740002
AMR 694AF 0.092200000.90779996
SAS 978AF 0.070600000.92939997
ss162029729CEUEuropean 2IG 1.00000000 0.500000000.50000000
ss163309930YRISub-Saharan African 2IG1.00000000 1.00000000
ss220075425pilot_1_YRI_low_coverage_panel 118AF 0.169491530.83050847
ss231777085pilot_1_CEU_low_coverage_panel 120AF 0.083333340.91666669
ss76038846ICMHP 8IG 0.500000000.50000000 0.250000000.75000000

SummaryAverage
Het.+/- std err:
Individual
Count
Founders
Count
Individual
Overlap
Genotype
Conflict
Additional Freq. Data
0.173+/-0.2380000ALFRED: The Allele Frequency Database

  Validation Summary: back to top
Validation statusMarker displays
Mendelian segregation
PCR results confirmed
in multiple reactions
Homozygotes detected
in individual genotype data
byClusterbyFreqwith2hitWith1000GenomeData
DoubleHit found by:  BCM_SSAHASNP
UNKNOWNUNKNOWNUNKNOWN

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