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Reference SNP (refSNP) Cluster Report: rs7577894                 
RefSNP
Organism:human (Homo sapiens)
Molecule Type:Genomic
Created/Updated in build:116/151
Map to Genome Build:108/Weight 1
Validation Status:byClusterbyFreqwith2hitwithHapMapFreqWith1000GenomeData
Citation:PubMedLitVarNEW
Association:NHGRI GWAS PheGenI
Allele
Variation Class:SNV:
single nucleotide variation
RefSNP Alleles:C/G/T (FWD)
Allele Origin:
Ancestral Allele:T
Variation Viewer:link to VariationViewer
Clinical Significance:NA
MAF/MinorAlleleCount:T=0.3582/1794 (1000 Genomes)
T=0.4471/56143 (TOPMED)
HGVS Names
  • CM000664.2:g.55781769T>C
  • CM000664.2:g.55781769T>G
  • NC_000002.11:g.56008904T>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 ss276480394 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs7577894 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
ss11471104WI_SSAHASNP|chr2.NT_022184.12_34824836byFreqfwd/BC/Tgtcctctttttccatcatctcttctagacatcagaggattaatagtgagtcagataaaat07/03/0305/17/04116Genomicunknown
ss17663992CSHL-HAPMAP|CSHL-HuCC-200402.chr2.NT_022184.13_34824836fwd/BC/Tgtcctctttttccatcatctcttctagacatcagaggattaatagtgagtcagataaaat02/19/0403/04/04120Genomicunknown
ss24630962PERLEGEN|afd1264630byFreqfwd/BC/Tgtcctctttttccatcatctcttctagacatcagaggattaatagtgagtcagataaaat08/10/0409/13/04123Genomicunknown
ss66547006ILLUMINA|HumanHap300v1.1_rs7577894fwd/TC/Tgtcctctttttccatcatctcttctagacatcagaggattaatagtgagtcagataaaat11/09/0611/09/06127Genomicunknown
ss67801268ILLUMINA|HumanHap550v1.1_rs7577894fwd/BC/Tgtcctctttttccatcatctcttctagacatcagaggattaatagtgagtcagataaaat11/14/0611/14/06127Genomicunknown
ss67973085ILLUMINA|HumanHap650Yv1.0_rs7577894fwd/BC/Tgtcctctttttccatcatctcttctagacatcagaggattaatagtgagtcagataaaat11/14/0611/15/06127Genomicunknown
ss68815367PERLEGEN|PGP01264630byFreqfwd/BC/Tgtcctctttttccatcatctcttctagacatcagaggattaatagtgagtcagataaaat01/30/0703/31/08127Genomicunknown
ss70935069ILLUMINA|HumanHap550v3.0__rs7577894fwd/BC/Tgtcctctttttccatcatctcttctagacatcagaggattaatagtgagtcagataaaat04/20/0703/31/08130Genomicunknown
ss71537592ILLUMINA|HumanHap650Yv3.0_rs7577894fwd/BC/Tgtcctctttttccatcatctcttctagacatcagaggattaatagtgagtcagataaaat04/23/0704/23/07127Genomicunknown
ss75427567ILLUMINA|ILMN_Human_1M_rs7577894fwd/BC/Tgtcctctttttccatcatctcttctagacatcagaggattaatagtgagtcagataaaat08/28/0708/29/07129Genomicunknown
ss76537607AFFY|AFFY_6_1M_SNP_A-8398753fwd/BC/Ttcatctcttctagacatcagaggattaatagt08/28/0708/30/07129Genomicunknown
ss79261441ILLUMINA|HumanHap300v2.0_rs7577894fwd/BC/Tgtcctctttttccatcatctcttctagacatcagaggattaatagtgagtcagataaaat04/18/0711/18/07130Genomicunknown
ss84682704KRIBB_YJKIM|KHS778435fwd/BC/Tgtcctctttttccatcatctcttctagacatcagaggattaatagtgagtcagataaaat12/04/0712/07/07130Genomicunknown
ss91171541BCMHGSC_JDW|JWB-1245307fwd/BC/Tgtcctctttttccatcatctcttctagacatcagaggattaatagtgagtcagataaaat02/26/0803/01/08129Genomicunknown
ss106091386BGI|BGI_rs7577894fwd/BC/Tgtcctctttttccatcatctcttctagacatcagaggattaatagtgagtcagataaaat09/13/0806/17/09130Genomicunknown
ss1095400361000GENOMES|CEU.trio.12.15.2008_385002_chr2_55862408fwd/BC/Tgtcctctttttccatcatctcttctagacatcagaggattaatagtgagtcagataaaat12/16/0812/16/08130Genomicunknown
ss1103127501000GENOMES|NA19240_2008_12_16_348514_chr2_55862408fwd/BC/Tgtcctctttttccatcatctcttctagacatcagaggattaatagtgagtcagataaaat12/17/0812/17/08130Genomicunknown
ss117718453ILLUMINA-UK|NA18507_000083761_NCBI36.1_chr2_55862408fwd/BC/Tgtcctctttttccatcatctcttctagacatcagaggattaatagtgagtcagataaaat01/19/0901/20/09130Genomic99 %
ss122783190ILLUMINA|HumanCNV370v1_C_rs7577894fwd/BC/Tgtcctctttttccatcatctcttctagacatcagaggattaatagtgagtcagataaaat04/14/0904/15/09131Genomicunknown
ss138448623ENSEMBL|ENSSNP5803961fwd/BC/Tgtcctctttttccatcatctcttctagacatcagaggattaatagtgagtcagataaaat05/15/0905/17/09131Genomicunknown
ss154431644ILLUMINA|Human610_Quadv1_B_rs7577894-128_B_F_1501853918fwd/BC/Tgtcctctttttccatcatctcttctagacatcagaggattaatagtgagtcagataaaat06/18/0906/20/09131Genomicunknown
ss157096108GMI|GMI_SNP_76369203fwd/BC/Tgtcctctttttccatcatctcttctagacatcagaggattaatagtgagtcagataaaat06/24/0906/25/09131Genomicunknown
ss159606734ILLUMINA|Human660W-Quad_v1_A_rs7577894-128_B_F_1501853918fwd/BC/Tgtcctctttttccatcatctcttctagacatcagaggattaatagtgagtcagataaaat07/06/0907/07/09131Genomicunknown
ss160890793ILLUMINA|HumanOmni1-Quad_v1-0_B_rs7577894-128_B_F_1501853918fwd/BC/Tgtcctctttttccatcatctcttctagacatcagaggattaatagtgagtcagataaaat08/04/0910/05/09131Genomicunknown
ss163472639COMPLETE_GENOMICS|NA19240_36_chr2_55862408fwd/BC/Tgtcctctttttccatcatctcttctagacatcagaggattaatagtgagtcagataaaat09/29/0909/29/09132Genomicunknown
ss172309951ILLUMINA|HumanCNV370-Quadv3_C_rs7577894-128_B_F_1501853918fwd/BC/Tgtcctctttttccatcatctcttctagacatcagaggattaatagtgagtcagataaaat10/01/0910/04/09132Genomicunknown
ss174429205ILLUMINA|Human1M-Duov3_B_rs7577894-128_B_F_1501853918fwd/BC/Tgtcctctttttccatcatctcttctagacatcagaggattaatagtgagtcagataaaat10/01/0910/04/09132Genomicunknown
ss200479670BUSHMAN|BUSHMAN-chr2-55862407fwd/BC/Tgtcctctttttccatcatctcttctagacatcagaggattaatagtgagtcagataaaat02/16/1003/07/10132Genomicunknown
ss205655373BCM-HGSC-SUB|BCM_CMT_1011-306651fwd/BC/Tgtcctctttttccatcatctcttctagacatcagaggattaatagtgagtcagataaaat03/15/1003/16/10132Genomicunknown
ss2192630541000GENOMES|pilot_1_YRI_1072737_chr2_55862408fwd/C/Tgtcctctttttccatcatctcttctagacatcagaggattaatagtgagtcagataaaat04/22/1004/22/10132Genomicunknown
ss2311807041000GENOMES|pilot_1_CEU_785333_chr2_55862408fwd/C/Tgtcctctttttccatcatctcttctagacatcagaggattaatagtgagtcagataaaat05/01/1005/01/10132Genomicunknown
ss2387319741000GENOMES|pilot_1_CHB+JPT_617051_chr2_55862408fwd/C/Tgtcctctttttccatcatctcttctagacatcagaggattaatagtgagtcagataaaat05/01/1005/01/10132Genomicunknown
ss276480394GMI|GMI_AK_SNP_800563fwd/C/Tgtcctctttttccatcatctcttctagacatcagaggattaatagtgagtcagataaaat12/16/1012/16/10137Genomicunknown
ss284350741GMI|GMI_NA10851_SNP_363508fwd/C/Tgtcctctttttccatcatctcttctagacatcagaggattaatagtgagtcagataaaat12/17/1012/17/10138Genomicunknown
ss292274415PJP|SNP_1780773_chr2_55862408fwd/C/Tgtcctctttttccatcatctcttctagacatcagaggattaatagtgagtcagataaaat01/21/1101/21/11134Genomicunknown
ss481602201ILLUMINA|HumanOmni2.5-4v1_B_rs7577894-128_B_F_1782892682fwd/BC/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat01/30/1210/28/16137Genomicunknown
ss481632192ILLUMINA|HumanOmniExpress-12v1_C_rs7577894-131_B_F_1857311559fwd/BC/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat01/30/1210/27/16137Genomicunknown
ss482601233ILLUMINA|HumanOmni1-Quad_v1-0_C_rs7577894-131_B_F_1865314168fwd/BC/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat01/30/1208/28/15146Genomicunknown
ss485596024ILLUMINA|HumanOmni2.5-4v1_D_rs7577894-131_B_F_1857311559fwd/BC/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat01/30/1210/28/16137Genomicunknown
ss491319178EXOME_CHIP|.GWAS._35405_chr_2_56008904fwd/BC/Tgtcctctttttccatcatctcttctagacatcagaggattaatagtgagtcagataaaat03/05/1203/05/12137Genomicunknown
ss537485296ILLUMINA|HumanOmni5-4v1_B_rs7577894-131_B_F_1885472168fwd/BC/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat06/22/1208/28/15146Genomicunknown
ss555584854TISHKOFF|snp_chr2_56008904fwd/BC/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat11/22/1211/23/12138Genomicunknown
ss649168929SSMP|2_56008904fwd/BC/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat12/14/1202/10/15138Genomicunknown
ss778978362ILLUMINA|HumanOmni25Exome-8v1_A_rs7577894-131_B_F_1865314168fwd/BC/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat05/30/1307/09/15142Genomicunknown
ss780686619ILLUMINA|HumanOmni25Exome-8v1_A_exm-rs7577894-131_B_F_1990485128fwd/BC/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat05/30/1307/09/15142Genomicunknown
ss783243596ILLUMINA|HumanOmni2.5-4v1_H_rs7577894-131_B_F_1857311559fwd/BC/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat05/30/1307/28/15142Genomicunknown
ss783360145ILLUMINA|HumanOmniExpressExome-8v1_A_exm-rs7577894-131_B_F_1990485128fwd/BC/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat05/31/1306/19/15142Genomicunknown
ss784197358ILLUMINA|HumanOmniExpressExome-8v1_A_rs7577894-131_B_F_1885472168fwd/BC/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat05/31/1306/19/15142Genomicunknown
ss825591959ILLUMINA|HumanCNV370v1_C_rs7577894-123_B_F_IFB1136438569:0fwd/BC/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat06/24/1311/21/14144Genomicunknown
ss832504202ILLUMINA|HumanOmniExpress-12v1_H_rs7577894-131_B_F_1857311559fwd/BC/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat09/17/1306/18/15144Genomicunknown
ss833117716ILLUMINA|Human660W-Quad_v1_C_rs7577894-131_B_F_1857311559fwd/BC/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat09/18/1307/02/15142Genomicunknown
ss833708544ILLUMINA|Human660W-Quad_v1_H_rs7577894-131_B_F_1857311559fwd/BC/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat09/18/1307/02/15142Genomicunknown
ss834440485ILLUMINA|HumanOmni2.5-8v1_A_rs7577894-131_B_F_1865314168fwd/BC/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat09/18/1307/28/15142Genomicunknown
ss976860183EVA-GONL|EVA-GONL_rs7577894fwd/BC/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat04/23/1404/23/14142Genomicunknown
ss1069138534JMKIDD_LAB|HGDP_WGS_chr2_56008904fwd/BC/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat07/10/1407/10/14142Genomicunknown
ss12973321291000GENOMES|PHASE3_V1_8321671fwd/C/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat08/16/1408/16/14142Genomicunknown
ss1397293153HAMMER_LAB|HAMMER_LAB_rs7577894fwd/BC/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat09/30/1407/15/15146Genomicunknown
ss1428585765DDI|DDI_rs7577894fwd/BC/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat11/04/1411/04/14144Genomicunknown
ss1578891315EVA_GENOME_DK|EVA_GENOME_DK_snv_rs7577894fwd/BC/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat02/19/1502/20/15144Genomicunknown
ss1586271884EVA_DECODE|EVA_DECODE_2_55862408_473777_rs7577894fwd/BC/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat03/02/1503/02/15144Genomicunknown
ss1603568953EVA_UK10K_ALSPAC|EVA_UK10K_ALSPAC_2_56008904_4603998fwd/C/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat03/04/1503/04/15144Genomicunknown
ss1646562986EVA_UK10K_TWINSUK|EVA_UK10K_TWINSUK_2_56008904_4603998fwd/C/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat03/04/1503/04/15144Genomicunknown
ss1712457873EVA_SVP|EVA_SVP_152425fwd/BC/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat03/12/1503/12/15144Genomicunknown
ss1752362507ILLUMINA|OmniExpressExome-8v1-1_B_exm-rs7577894-131_B_F_1990485128fwd/BC/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat05/27/1506/09/15146Genomicunknown
ss1752362508ILLUMINA|OmniExpressExome-8v1-1_B_rs7577894-131_B_F_1885472168fwd/BC/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat05/27/1506/09/15146Genomicunknown
ss1796792062HAMMER_LAB|Hsieh_890403fwd/BC/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat07/15/1507/15/15146Genomicunknown
ss1917749465ILLUMINA|HumanExome-12v1-1_B_exm-rs7577894-131_B_F_1990485128fwd/BC/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat10/16/1510/16/15147Genomicunknown
ss1920093507WEILL_CORNELL_DGM|SNV:chr2:56008904fwd/BC/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat10/16/1510/16/15147Genomicunknown
ss1946041177ILLUMINA|HumanCoreExome-12v1-0_C_exm-rs7577894-131_B_F_1990485128fwd/BC/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat10/29/1510/29/15147Genomicunknown
ss1946041178ILLUMINA|HumanCoreExome-12v1-0_C_rs7577894-131_B_F_1885472168fwd/BC/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat10/29/1510/29/15147Genomicunknown
ss1958419962ILLUMINA|exm-rs7577894-131_B_F_1990485128fwd/BC/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat11/13/1511/13/15147Genomicunknown
ss1958419963ILLUMINA|rs7577894-131_B_F_1885472168fwd/BC/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat11/13/1511/13/15147Genomicunknown
ss1968777439GENOMED|rs7577894fwd/BC/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat02/16/1602/16/16147Genomicunknown
ss2020581262JJLAB|SNP1083817fwd/BC/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat08/29/1608/30/16149Genomicunknown
ss2148624874USC_VALOUEV|NC_000002.11:g.56008904T>Cfwd/C/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat11/17/1611/17/16150Genomicunknown
ss2230490092HUMAN_LONGEVITY|HLI-2-55781769-T-Cfwd/C/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat11/18/1611/18/16150Genomicunknown
ss2396425943TOPMED|2_56008904_T/Cfwd/C/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat11/19/1611/19/16150Genomicunknown
ss2624801627SYSTEMSBIOZJU|SYSTEMSBIOZJU_SNV681323fwd/C/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat01/06/1701/06/17151Genomicunknown
ss2633617956ILLUMINA|SoL_HCHS_Custom_15041502_B3_RefStrand_rs7577894-131_B_F_18854721fwd/C/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat02/02/1702/02/17151Genomicunknown
ss2635090425ILLUMINA|Cancer_BeadChip_11459870_A_rs7577894-128_B_F_1782892682fwd/C/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat02/02/1702/02/17151Genomicunknown
ss2703192569GRF|rs7577894fwd/C/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat02/13/1702/13/17151Genomicunknown
ss2710901188ILLUMINA|Consortium-OncoArray_15047405_A_rs7577894-131_B_F_1885472168fwd/C/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat03/22/1703/22/17151Genomicunknown
ss2773734084GNOMAD|rs7577894fwd/C/G/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat05/17/1705/17/17151Genomicunknown
ss2985168885AFFY|Axiom_PsorMich_Affx-20255750fwd/C/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat05/24/1705/24/17151Genomicunknown
ss2989541708SWEGEN|NC_000002.11:g.56008904T>Cfwd/C/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat05/30/1705/30/17151Genomicunknown
ss3021973617ILLUMINA|MEGA_Consortium_v2_15070954_A2_rs7577894-138_B_F_2264364456fwd/C/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat06/28/1706/28/17151Genomicunknown
ss3024057378BIOINF_KMB_FNS_UNIBA|2.55781769T>Cfwd/C/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat07/05/1707/05/17151Genomicunknown
ss3308552558TOPMED|TOPMed_freeze_5?chr2:55,781,769-01fwd/C/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat10/02/1710/02/17151Genomicunknown
ss3308552559TOPMED|TOPMed_freeze_5?chr2:55,781,769-02fwd/G/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat10/02/1710/02/17151Genomicunknown
ss3344241466CSHL|rs7577894fwd/C/Tctttttccatcatctcttctagacatcagaggattaatagtgagtcagat10/02/1710/02/17151Genomicunknown

  Fasta sequence   (Legend) back to top
>gnl|dbSNP|rs7577894|allelePos=501|totalLen=1001|taxid=9606|snpclass=1|alleles='C/G/T'|mol=Genomic|build=151
 TTGATTTTTA TATTTTCTAA ATTTTCTATA ATGAATATAT ATTTTTTATT AAAATTTGTT
 TTTAGGAGAA AGGAAAGACA TTACAAGGAA AAGGAAGGCC ATTACAGGGA ATATAATAAC
 ATAAATATAA TAAATTATAT AAGGGCCCAT TGCAGTAGAG GCAAGGGTGG GAAATGTGCA
 CACTGCAAGG AGCGACTCAC ATGTGATACT GAAAATCATT GGTGATGCCC TCAGCCTCAG
 CCTGAAAAGG TATGGACACA AATGAACAGA TTAGCAACCC AGCTTACACT GATGTGGTTT
 CTTGAACCTC AGCAATAATC TTTCCTCTTG GAAGTGACCC ACTGGACAAT GCAGAAGGTG
 GCCAGGGAAT GTATTTGCAA TCAGGCTCTG CCCTGGACTC ATTTTACCCT CTTCATTTCT
 GTTCCGCCAC TGAAGCTGCT GAGTACAGAT GCTGTCATTT TACACTAGGG GTCCTCTTTT
 TCCATCATCT CTTCTAGACA
 B
 TCAGAGGATT AATAGTGAGT CAGATAAAAT CTTTTGAGGA ACCTGCTAGT TTATAAATGA
 AAAAGAATTA AAACTATCTC TAATAGTTTG CATTCCTACA GCACTTTATA ATTATCAAGT
 ATTTTTGAAA TTACAAATTT AATGTACAAT ACATATAACA TAAAAGTTAC CACTTTAACC
 ATTTTTAAGC ATATAGTTCA GTAGTATGAA GTACATTCAC ATTGTTGGCA ACCATCACCA
 CCATCCATCT CTAGAACTCT TATTGTCTTA CCAAATTGTA ACTTTGTACC CATTAAGCAA
 ATCTACCAAG TGTTTTCTTA CACATTATTT CATGTGCTCT TCTTGATATC CCTGAAAGTG
 GGAGGGAAGA TATTATTAGC TCAGTAGAGC ACAGTGGTTA GTGGGGCAGG CGCTGGAATA
 AGACTAGCTG GTTTAAACCT TGATCATCAA GTATTGTTAA CAATAGAACC TATCTTGCCA
 GGTTGTTGTG AGGATTACAT

  NCBI Resource Links back to top
Submitter-Referenced
GenBank
NT_022184
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
ss11471104HapMap-CEUEuropean 226IG0.221238940.513274310.265486721.000000000.477876100.52212387
HapMap-HCBAsian 86IG0.860465110.13953489 1.000000000.930232580.06976745
HapMap-JPTAsian 172IG0.720930220.244186040.034883720.479500000.843023240.15697674
HapMap-YRISub-Saharan African 226IG0.592920360.371681420.035398230.438578000.778761090.22123894
HAPMAP-ASW 98IG0.551020380.387755100.061224491.000000000.744897960.25510204
HAPMAP-CHBAsian 80IG0.875000000.12500000 1.000000000.937500000.06250000
HAPMAP-CHD 170IG0.800000010.188235300.011764711.000000000.894117650.10588235
HAPMAP-GIH 174IG0.298850570.563218410.137931030.150222000.580459770.41954023
HAPMAP-LWK 180IG0.544444440.433333340.022222220.099721000.761111140.23888889
HAPMAP-MEX 98IG0.224489790.346938790.428571430.099721000.397959170.60204083
HAPMAP-MKK 282IG0.652482270.297872330.049645390.479500000.801418420.19858156
HAPMAP-TSI 172IG0.197674420.476744170.325581401.000000000.436046510.56395346
ENSEMBL_Venter 2IG 1.00000000 1.00000000
ss117718453YRI 2IG1.00000000 1.00000000
ss1297332129EAS 1008AF 0.888900040.11110000
EUR 1006AF 0.415500020.58450001
AFR 1322AF 0.771600010.22839999
AMR 694AF 0.416399990.58359998
SAS 978AF 0.604299960.39570001
ss138448623ENSEMBL_Watson 2IG 1.00000000 0.500000000.50000000
ss163472639YRISub-Saharan African 2IG1.00000000 1.00000000
ss200479670BANTU 2IG 1.00000000 0.500000000.50000000
ss219263054pilot_1_YRI_low_coverage_panel 118AF 0.779661000.22033899
ss231180704pilot_1_CEU_low_coverage_panel 120AF 0.483333320.51666665
ss238731974pilot_1_CHB+JPT_low_coverage_panel 120AF 0.883333330.11666667
ss24630962AFD_EUR_PANELEuropean 46IG0.260869560.391304340.347826090.317310000.456521750.54347825
AFD_AFR_PANELAfrican American 46IG0.608695630.347826090.043478261.000000000.782608690.21739130
AFD_CHN_PANELAsian 44IG0.863636370.090909090.045454550.050043000.909090940.09090909
ss68815367HapMap-CEUEuropean 120IG0.233333330.500000000.266666681.000000000.483333320.51666665
HapMap-HCBAsian 90IG0.844444450.15555556 1.000000000.922222200.07777778
HapMap-JPTAsian 90IG0.711111130.244444440.044444450.438578000.833333310.16666667
HapMap-YRISub-Saharan African 120IG0.716666640.28333333 0.527089000.858333350.14166667

SummaryAverage
Het.+/- std err:
Individual
Count
Founders
Count
Individual
Overlap
Genotype
Conflict
Additional Freq. Data
0.460+/-0.1360000ALFRED: 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
byClusterbyFreqwith2hitwithHapMapFreqWith1000GenomeData
DoubleHit found by:  BCM_SSAHASNP
UNKNOWNUNKNOWNUNKNOWN

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