Reference SNP(refSNP) Cluster Report: rs3898854

Reference SNP(refSNP) Cluster Report: rs3898854

refSNP ID: rs3898854
Organism:	human (Homo sapiens)
Molecule Type:	Genomic
Created/Updated in build:	108/129
Map to Genome Build:	36.3

Allele
Variation Class:	SNP: single nucleotide polymorphism
RefSNP Alleles:	G/T
Ancestral Allele:	Not available
Clinical Association:	unknown

HGVS Names

Links

SNP Details are organized in the following sections:

Submitter records for this RefSNP Cluster

The submission ss1412992 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs3898854 during BLAST analysis for the current build.

NCBI Assay ID	Handle\|Submitter ID	Validation Status	ss to rs Orientation /Strand	Alleles	5' Near Seq 30 bp	3' Near Seq 30 bp	Entry Date	Update Date	Build Added	Molecule Type	Freq Warning	Ancestral Allele	Success Rate
ss1412992	TSC-CSHL\|TSC0271105		fwd/B	G/T	aatccctgtggatttcactgatgaccactt	accaactattataaaaatcaaggccagggg	06/14/01	10/10/03	108	Genomic			unknown
ss12949047	SC_SNP\|NT_078046.1_75174		fwd/B	G/T	aatccctgtggatttcactgatgaccactt	accaactattataaaaatcaaggccagggg	10/21/03	10/31/03	120	Genomic			unknown

Fasta sequence (Legend)

 AAGCTTCTTC AGTACTCACA TGTAAACTTC TACTTTCCCC TTCAGATTAC AGCAACCATC
 ATGCCAAAGC TATACACTCT CAGGGAATCC CTGTGGATTT CACTGATGAC CACTT
 K
 ACCAACTATT ATAAAAATCA AGGCCAGGGG TTCTCAAACT CTCAACATTT GTGTGCTCAT
 CTCCCCTTCA CCCAGAGACT CCCCAGGGCT GCTGGGCCAC GCTTTGTTTG GTTTGACTGG
 AACATAGCTC GAAAGGGATG GAAATTTCCA AGAGGTGTTA AGAGACACAT AAATATTTCA
 AAGATTAAAA TGAAAGAAAT AAAGAAATGG GCATTTGTGA GCTTTGGTCA tgagaatgca
 ggcctcgcag tacttaacta cttccaaacc cctgtccaaa gagaggacca aacgctagtg
 nggcttccgg cagcacaagg gtgtcccgcg gatgacccca gccctcttaa aatgactgcc
 tgaaaaagct cacttgcaaa gaaaatttac tgtttgtttc aggcaaaacc tggtgatggg
 caggtagagc cccgaatccc ctcttagaac cttAGAAAGC TT

GeneView

GeneView: no link established by analysis of contig annotation
GeneView: no link established by BLAST analysis of mRNA sequences

Integrated Maps:

NCBI MapViewer: rs3898854 was not linked to the human genome 36.3 because it aligned to more than 2 locations on the genome.

Chromosome	Contig accession	Contig position	Chromosome position	Hit orientation	Contig Allele	Assembly Type	Group label	Contig label	Neighbor SNP	SNP_flank position
9	NW_001839178.2	12764	39525113	plus	G	alt_assembly_8	HuRef	HuRef	view	115
9	NW_001839183.1	6885	39978050	minus	C	alt_assembly_8	HuRef	HuRef	view	115
9	NT_078043.4	582152	41987945	plus	G	ref_assembly	reference	reference	view	115
9	NT_079529.3	384228	44320793	plus	T	ref_assembly	reference	reference	view	115
9	NT_086755.2	148054	46549089	minus	C	ref_assembly	reference	reference	view	115
9	NT_086755.2	261665	46662700	plus	G	ref_assembly	reference	reference	view	115
Un	NW_926275.1	854	unplaced	minus	C	alt_assembly_1	Celera	Celera	view	115

NCBI Resource Links

Submitter-Referenced
GenBank
NT_078046

dbSNP Blast Analysis
GenBank HTGS Finished:	GenBank HTGS Draft:
AL590399.4 BX005266.6 BX088651.9 BX088717.12 BX284677.8 BX664615.10 CR769767.5 CR788307.3 NC_000009.10	AC068367.3 AL163539.5 AL356136.10

Population Diversity

There is no frequency data.

Validation Summary:

Validation status	Marker displays Mendelian segregation	PCR results confirmed in multiple reactions	Homozygotes detected in individual genotype data
	UNKNOWN	UNKNOWN	UNKNOWN

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Revised: May 25, 2006 1:38 PM .