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This legacy RefSNP page contains old data from dbSNP build 151 (March 2018) and is no longer maintained.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: rs3891260                 
RefSNP
Organism:human (Homo sapiens)
Molecule Type:Genomic
Created/Updated in build:108/151
Map to Genome Build:108/Weight 1
Validation Status:byCluster
Allele
Variation Class:SNV:
single nucleotide variation
RefSNP Alleles:A/G (FWD)
Allele Origin:
Ancestral Allele:Not available
Variation Viewer:link to VariationViewer
Clinical Significance:NA
MAF/MinorAlleleCount:G=0.0753/9457 (TOPMED)
HGVS Names
  • CM000663.2:g.16856A>G
  • NC_000001.10:g.16856A>G
  • NC_000001.11:g.16856A>G
  • NR_024540.1:n.921+2T>C
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 ss137077 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs3891260 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
ss137077TSC-CSHL|TSC0117901fwd/TA/Gccagctcccatcccagaacccagctcacctccttgagaggctcggctacctcagtgtgga09/06/0010/10/03108Genomicunknown
ss13428296SC_SNP|NT_077402.1_6719fwd/TA/Gccagctcccatcccagaacccagctcacctccttgagaggctcggctacctcagtgtgga10/23/0310/31/03120Genomicunknown
ss15456682SC_SNP|NT_022135.13_3061899rev/BC/Ttccacactgaggtagccgagcctctcaaggaggtgagctgggttctgggatgggagctgg11/14/0311/22/03120Genomicunknown
ss15764817SC_SNP|NT_037887.3_6539fwd/TA/Gccagctcccatcccagaacccagctcacctccttgagaggctcggctacctcagtgtgga11/17/0311/22/03120Genomicunknown
ss95847665HUMANGENOME_JCVI|1104753350346rev/BC/Ttccacactgaggtagccgagcctctcaaggaggtgagctgggttctgggatgggagctgg03/24/0807/01/08131Genomicunknown
ss131807090ENSEMBL|ENSSNP252397fwd/TA/Gccagctcccatcccagaacccagctcacctccttgagaggctcggctacctcagtgtgga12/08/0810/14/09147Genomicunknown
ss491581577CLINSEQ_SNP|SNV-chr1-6719byFreqfwd/TA/Gtcccatcccagaacccagctcacctccttgagaggctcggctacctcagt03/06/1209/05/14144Genomicunknown
ss1710883263EVA_MGP|EVA_XIMO_15fwd/TA/Gtcccatcccagaacccagctcacctccttgagaggctcggctacctcagt03/09/1503/09/15144Genomicunknown
ss2019497469JJLAB|SNP24fwd/TA/Gtcccatcccagaacccagctcacctccttgagaggctcggctacctcagt08/29/1608/30/16149Genomicunknown
ss2750601876GNOMAD|rs3891260fwd/A/Gtcccatcccagaacccagctcacctccttgagaggctcggctacctcagt05/17/1705/17/17151Genomicunknown
ss2986141447SWEGEN|NC_000001.10:g.16856A>Gfwd/A/Gtcccatcccagaacccagctcacctccttgagaggctcggctacctcagt05/30/1705/30/17151Genomicunknown

  Fasta sequence   (Legend) back to top
>gnl|dbSNP|rs3891260|allelePos=180|totalLen=517|taxid=9606|snpclass=1|alleles='A/G'|mol=Genomic|build=151
 TGGGAGTGGG GGTGCACTGG CCAGCACCTC AGGAGCtggg ggtggtggtg ggggcggtgg
 gggtggtgtt agtACCCCAT CTTGTAGGTC TGAAACACAA AGTGTGGGGT GTCTAGGGAA
 GAAGGTGTGT GAGCAGGGAG GTCCCCGGCC CAGCTCCCAT CCCAGAACCC AGCTCACCT
 R
 CCTTGAGAGG CTCGGCTACC TCAGTGTGGA AGGTGGGCAG TTCTGGAATG GTGCCAGGGG
 CAGAGGGGGC AATGCCGGGG CCCAGGTCGG CAATGTACAT GAGGTCGTTG GCAATGCCGG
 GCAGGTCAGG CAGGTAGGAT GGAACATCAA TCTCAGGCAC CTGGCCCAGG TCTGGCACAT
 AGAAGTAGTT CTCTGGGACC TGCAAGATTA GGCAGGGACA TGTGAGAGGT GACAGGGACC
 TGCAGGGGCA GCCAACAAGA CCTTGTGTGC ACCTCCCATG GGTGGAATAA GGGGCCCAAC
 AGCCTTGACT GGAGAGGAGC TCTGGCAAGG CCCTGGG

  NCBI Resource Links back to top
Submitter-Referenced
GenBank
NT_077402
dbSNP Blast Analysis

  Population Diversity (Alleles in RefSNP orientation) back to top

Sample AscertainmentGenotype DetailAlleles
ss#PopulationIndividual
Group
Chrom.
Sample Cnt.
SourceA/A
A/G
HWPA
G
ss131807090ENSEMBL_Venter 2IG 1.00000000 0.500000000.50000000
ss491581577CSAgilent 515GF0.991999980.008000001.000000000.995999990.00400000
ss95847665J. Craig Venter 2IG 1.00000000 0.500000000.50000000

SummaryAverage
Het.+/- std err:
Individual
Count
Founders
Count
Individual
Overlap
Genotype
Conflict
0.500+/-00000

  Validation Summary: back to top
Validation statusMarker displays
Mendelian segregation
PCR results confirmed
in multiple reactions
Homozygotes detected
in individual genotype data
byClusterUNKNOWNUNKNOWNUNKNOWN