NCBI
dbSNP
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This legacy RefSNP page contains old data from dbSNP build 151 (March 2018) and is no longer maintained. Please update your links and bookmarks to use the re-designed RefSNP Report page.
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Reference SNP (refSNP) Cluster Report: rs555895                 ** With Benign allele **
RefSNP
Organism:human (Homo sapiens)
Molecule Type:Genomic
Created/Updated in build:83/151
Map to Genome Build:108/Weight 1
Validation Status:byClusterbyFreqwith2hitWith1000GenomeData
Citation:PubMedLitVarNEW
Allele
Variation Class:SNV:
single nucleotide variation
RefSNP Alleles:G/T (FWD)
Allele Origin:
Ancestral Allele:G
Variation Viewer:link to VariationViewer
Clinical Significance:With Benign allele [ClinVar]
MAF/MinorAlleleCount:G=0.3699/43897 (ExAC)
G=0.4325/2166 (1000 Genomes)
G=0.3786/4911 (GO-ESP)
G=0.4086/51301 (TOPMED)
HGVS Names
  • CM000672.2:g.87961150T>G
  • NC_000010.10:g.89720907T>G
  • NC_000010.11:g.87961150T>G
  • NG_007466.2:g.102712T>G
  • NM_000314.4:c.1026+32T>G
  • NM_000314.6:c.1026+32T>G
  • NM_001304717.2:c.1545+32T>G
  • NM_001304718.1:c.435+32T>G
  • NW_013171807.1:g.176939T>G
Links
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 ss280714853 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs555895 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
ss726920SC_JCM|AL356142.3_105984byFreqfwd/BG/Ttcagttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgtttaat07/27/0005/16/0483Genomicunknown
ss1038069KWOK|OVLP-000804-509904fwd/BG/Ttcagttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgtttaat09/02/0010/10/0386Genomic97 %
ss14421886WI_SSAHASNP|chr10.NT_030059.11_8469423fwd/BG/Ttcagttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgtttaat11/05/0311/22/03119Genomicunknown
ss28503393IMCJ-GDT|IMCJ-PTEN_3-GTfwd/BG/Ttcagttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgtttaat08/20/0408/20/04126Genomicunknown
ss38349835EGP_SNPS|PTEN-099655byFreqfwd/BG/Ttcagttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgtttaat07/07/0511/02/06126Genomicunknown
ss39819690ABI|hCV26090702fwd/BG/Ttcagttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgtttaat07/16/0507/16/05126Genomicunknown
ss61707552SI_EXO|NT_030059.12_8469423fwd/BG/Ttcagttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgtttaat07/11/0608/17/06127Genomicunknown
ss88301789BCMHGSC_JDW|JWB-0314113fwd/BG/Ttcagttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgtttaat02/26/0802/27/08129Genomicunknown
ss102899712BGI|BGI_rs555895fwd/BG/Ttcagttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgtttaat06/05/0806/17/09131Genomicunknown
ss119257676ILLUMINA-UK|NA18507_000113070_NCBI36.1_chr10_89710887fwd/BG/Ttcagttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgtttaat01/21/0901/22/09130Genomic99 %
ss155345523GMI|GMI_SNP_122419686fwd/BG/Ttcagttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgtttaat06/24/0906/24/09131Genomicunknown
ss161369396ENSEMBL|ENSSNP462675fwd/BG/Ttcagttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgtttaat09/24/0909/24/09131Genomicunknown
ss170682315COMPLETE_GENOMICS|NA19240_36_chr10_89710887fwd/BG/Ttcagttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgtttaat10/01/0910/04/09132Genomicunknown
ss174678699COMPLETE_GENOMICS|NA20431_36_chr10_89710887fwd/BG/Ttcagttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgtttaat10/01/0910/04/09132Genomicunknown
ss201828340BUSHMAN|BUSHMAN-chr10-89710886byFreqfwd/BG/Ttcagttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgtttaat02/16/1009/05/14132Genomicunknown
ss2248604891000GENOMES|pilot_1_YRI_6670172_chr10_89710887fwd/G/Ttcagttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgtttaat04/22/1004/22/10132Genomicunknown
ss2352744961000GENOMES|pilot_1_CEU_4879125_chr10_89710887fwd/G/Ttcagttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgtttaat05/01/1005/01/10132Genomicunknown
ss2419617521000GENOMES|pilot_1_CHB+JPT_3846829_chr10_89710887fwd/G/Ttcagttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgtttaat05/01/1005/01/10132Genomicunknown
ss254496985BL|SNP105004_10_89710887fwd/BG/Ttcagttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgtttaat08/19/1008/19/10134Genomicunknown
ss280714853GMI|GMI_AK_SNP_5035188fwd/G/Ttcagttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgtttaat12/16/1012/16/10137Genomicunknown
ss286235662GMI|GMI_NA10851_SNP_2248447fwd/G/Ttcagttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgtttaat12/17/1012/17/10138Genomicunknown
ss290890284PJP|SNP_396642_chr10_89710887fwd/G/Ttcagttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgtttaat01/21/1101/21/11134Genomicunknown
ss535728623ILLUMINA|HumanOmni5-4v1_B_kgp5332445-0_T_R_1906188585fwd/BG/Ttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgt06/22/1208/29/15146Genomicunknown
ss562115210TISHKOFF|snp_chr10_89720907fwd/BG/Ttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgt11/22/1211/23/12138Genomicunknown
ss657123241SSMP|10_89720907fwd/BG/Ttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgt12/14/1202/12/15138Genomicunknown
ss712956823NHLBI-ESP|ESP6500SI-chr10-89720907fwd/BG/Ttcagttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgtttaat02/20/1302/20/13138Genomicunknown
ss987754561EVA-GONL|EVA-GONL_rs555895fwd/BG/Ttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgt04/23/1404/25/14142Genomicunknown
ss13384395111000GENOMES|PHASE3_V1_51134264fwd/G/Ttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgt08/16/1408/16/14142Genomicunknown
ss1426397486DDI|DDI_rs555895fwd/BG/Ttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgt11/04/1411/04/14144Genomicunknown
ss1689987395EVA_EXAC|EVA_EXAC_5144176fwd/G/Ttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgt03/04/1503/04/15144Genomicunknown
ss1711264006EVA_MGP|EVA_XIMO_379766fwd/BG/Ttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgt03/09/1503/09/15144Genomicunknown
ss1806500742HAMMER_LAB|Hsieh_5519193fwd/BG/Ttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgt07/15/1507/16/15146Genomicunknown
ss1931122841WEILL_CORNELL_DGM|SNV:chr10:89720907fwd/BG/Ttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgt10/16/1510/17/15147Genomicunknown
ss1967189165GENOMED|rs555895fwd/BG/Ttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgt02/16/1602/16/16147Genomicunknown
ss2095015806ILLUMINA|InfiniumImmunoArray-24v2-0_A_rs555895-138_T_R_2277013366fwd/BG/Ttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgt09/27/1609/27/16150Genomicunknown
ss2154564557USC_VALOUEV|NC_000010.10:g.89720907T>Gfwd/G/Ttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgt11/17/1611/17/16150Genomicunknown
ss2176768527HUMAN_LONGEVITY|HLI-10-87961150-T-Gfwd/G/Ttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgt11/18/1611/18/16150Genomicunknown
ss2339871986TOPMED|10_89720907_T/Gfwd/G/Ttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgt11/19/1611/19/16150Genomicunknown
ss2627613665SYSTEMSBIOZJU|SYSTEMSBIOZJU_SNV4306133fwd/G/Ttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgt01/06/1701/06/17151Genomicunknown
ss2698815874GRF|rs555895fwd/G/Ttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgt02/13/1702/13/17151Genomicunknown
ss2738382764GNOMAD|exomes_rs555895fwd/G/Ttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgt05/17/1705/17/17151Genomicunknown
ss2748430680GNOMAD|coding_rs555895fwd/G/Ttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgt05/17/1705/17/17151Genomicunknown
ss2891608120GNOMAD|rs555895fwd/G/Ttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgt05/19/1705/19/17151Genomicunknown
ss3006889924SWEGEN|NC_000010.10:g.89720907T>Gfwd/G/Ttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgt05/30/1705/30/17151Genomicunknown
ss3126321628TOPMED|TOPMed_freeze_5?chr10:87,961,150fwd/G/Ttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgt09/29/1709/29/17151Genomicunknown
ss3349240473CSHL|rs555895fwd/G/Ttaaattaaacattttgtgggggttgtgacttgtatgtatgtgatgtgtgt10/02/1710/02/17151Genomicunknown

  Fasta sequence   (Legend) back to top
>gnl|dbSNP|rs555895|allelePos=501|totalLen=1001|taxid=9606|snpclass=1|alleles='G/T'|mol=Genomic|build=151
 TGGTTTAAAA TTTGAGAATT TGAGTGAAGA AAAATCATGT GAATGAAAAT GCAACAGATA
 ACTCAGATTG CCTTATAATA GTCTTTGTGT TTACCTTTAT TCAGAATATC AAATGATAGT
 TTATTTTGTT GACTTTTTGC AAATGTTTAA CATAGGTGAC AGATTTTCTT TTTTAAAAAA
 ATAAAACATC ATTAATTAAA TATGTCATTT CATTTCTTTT TCTTTTCTTT TTTTTTTTTT
 TTAGGACAAA ATGTTTCACT TTTGGGTAAA TACATTCTTC ATACCAGGAC CAGAGGAAAC
 CTCAGAAAAA GTAGAAAATG GAAGTCTATG TGATCAAGAA ATCGATAGCA TTTGCAGTAT
 AGAGCGTGCA GATAATGACA AGGAATATCT AGTACTTACT TTAACAAAAA ATGATCTTGA
 CAAAGCAAAT AAAGACAAAG CCAACCGATA CTTTTCTCCA AATTTTAAGG TCAGTTAAAT
 TAAACATTTT GTGGGGGTTG
 K
 TGACTTGTAT GTATGTGATG TGTGTTTAAT TCTAGGAGTA CAGCTGATGA AGAACTTGCT
 TGACAAGTTT TTAACTTATG TATTATTTCG AAGCAGTGTT TACGTAGCAG TAACATGAAA
 GTTTCTAATA AAATACCCAA TGTACACAGC GTCAAAAAAG CTGCATTTTT CCTTTTCCTA
 ATTCTTCGTT GTTTGCTGAA ATCTGGGGCA AAGGTGCGGG AGGGGGCTAA ATGACTGGGA
 TATGAAGTAG GAATGGGAGA GGAAAGAAAT AGATGGGAAC TCAGTCATTT GGGAATGATT
 CATATGGAAT GTTTTTACTG CTTCCACTCC TGTCTGCCTT CCAATTTATT CTCAATCCCT
 CAGAGTGATC TTAAAAATAG ACTTGATTGT GTCACTTCTG TTTACACTTT ATAAGGACCT
 TGTGTTTTTT TTTTTACCAT GACCTACAAG GCCCAGCATA ATTTAGCACA GGGCTACCTC
 CTACATCAGC ACTAGTCACC

  NCBI Resource Links back to top
Submitter-Referenced
GenBank
NT_030059.12 AF067844 AL356142.4
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.
SourceG/G
G/T
T/T
HWPG
T
ss119257676YRI 2IG 1.00000000 0.500000000.50000000
ss1338439511EAS 1008AF 0.504000010.49599999
EUR 1006AF 0.370800020.62920004
AFR 1322AF 0.525699970.47430000
AMR 694AF 0.440900000.55910003
SAS 978AF 0.290400000.70959997
ss161369396ENSEMBL_celera 2IG1.00000000 1.00000000
ss1689987395ExAc_Aggregated_Populations121234AF 0.368370260.63162977
ss170682315YRISub-Saharan African 2IG 1.00000000 0.500000000.50000000
ss174678699PGP 2IG 1.00000000 0.500000000.50000000
ss201828340BUSHMAN_POP 4IG 1.00000000 0.500000000.50000000
BUSHMAN_POP2 2IG 1.00000000 0.500000000.50000000
BANTU 2IG 1.00000000 0.500000000.50000000
ss224860489pilot_1_YRI_low_coverage_panel 118AF 0.415254240.58474576
ss235274496pilot_1_CEU_low_coverage_panel 120AF 0.449999990.55000001
ss241961752pilot_1_CHB+JPT_low_coverage_panel 120AF 0.416666660.58333331
ss38349835EGP_YORUB-PANELSub-Saharan African 24IG0.166666670.416666660.416666660.751830000.375000000.62500000
EGP_HISP-PANELHispanic 42IG0.238095240.571428600.190476190.527089000.523809550.47619048
EGP_CEPH-PANELEuropean 44IG0.181818190.409090910.409090910.527089000.386363630.61363637
EGP_AD-PANELAfrican American 28IG0.142857150.714285730.142857150.150222000.500000000.50000000
EGP_ASIAN-PANELAsian 48IG0.208333330.541666690.250000000.751830000.479166660.52083331
ss61707552ENSEMBL_Venter 2IG 1.00000000 1.00000000
ss726920CEPH 184AF 0.649999980.34999999

SummaryAverage
Het.+/- std err:
Individual
Count
Founders
Count
Individual
Overlap
Genotype
Conflict
0.466+/-0.1260000

  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
UNKNOWNUNKNOWNYES