Reference SNP(refSNP) Cluster Report: rs2535774

Reference SNP(refSNP) Cluster Report: rs2535774

refSNP ID: rs2535774
Organism:	human (Homo sapiens)
Molecule Type:	Genomic
Created/Updated in build:	100/129
Map to Genome Build:	36.3

Allele
Variation Class:	SNP: single nucleotide polymorphism
RefSNP Alleles:	C/T
Ancestral Allele:	C
Clinical Association:	unknown

HGVS Names
NM_005045.2:c.7350-3828G>A
NM_173054.1:c.7350-3828G>A
NT_007933.14:g.28351382C>T

Links

, Linkout

SNP Details are organized in the following sections:

Submitter records for this RefSNP Cluster

The submission ss3554593 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs2535774 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
ss3554593	SC_JCM\|AC006316.2_5467		fwd/B	C/T	agaaaatctagcctaacaatgccattctac	gaagacgacgatgacgcccagtgacctaag	09/24/01	10/10/03	100	Genomic			unknown
ss46545166	PERLEGEN\|PS00515245		fwd/B	C/T	agaaaatctagcctaacaatgccattctac	gaagacgacgatgacgcccagtgacctaag	08/01/05	08/01/05	126	Genomic			unknown

Fasta sequence (Legend)

 GTCTTCATTT TTGCTCTTTT CTTCAGAATG ACTCTATCTA CCTATGAAGT CCTCACTGTC
 GTCATCATCG TGAGAAAAAG CCCTTTGAAA GGAACATAAT ATTTTAAACC TCTTCATCCT
 TCCCTGAAAT ATCTTTTACT TCGAAAGAGA TACATAAAAT ATTTAAGCCT AGAAAATCTA
 GCCTAACAAT GCCATTCTAC
 Y
 GAAGACGACG ATGACGCCCA GTGACCTAAG TCTCACACTG ATTCACTAAC AAAACTGAGA
 CAAGGCAAGG ATCTCTTGGT TCATGATTAC TTTGTATTCT CATTAAGCAA ACCTTTCAAA
 ACTCCACTGC AACCTCCACA AAATCTTCCT ACCCTTATCA TTACCTGTAA ATATGAACAG
 TTGTTAAGCT ATGGGAGGCT

GeneView

GeneView via analysis of contig annotation: RELN reelin

View variations for gene:

Include clinically associated:

in gene region cSNP has frequency double hit

Group
Label

Contig->mRNA

Gene Model (contig mRNA transcript) Color Legend

reference

NT_007933->NM_005045

function

reference

NT_007933->NM_173054

function

Group label	Contig-->mRNA-->Protein	Contig position	mRNA orientation	Function


reference	NT_007933->NM_005045->NP_005036	28351382	reverse	intron

reference	NT_007933->NM_173054->NP_774959	28351382	reverse	intron

GeneView: no link established by BLAST analysis of mRNA sequences

Integrated Maps:

NCBI MapViewer: rs2535774 maps exactly once on NCBI human chromosome 7

Chromosome	Contig accession	Contig position	Chromosome position	Hit orientation	Contig Allele	Assembly Type	Group label	Contig label	Neighbor SNP	SNP_flank position
7	NW_001839071.2	28126223	97528291	minus	G	alt_assembly_8	HuRef	HuRef	view	200
7	NW_923640.1	732894	97974143	plus	C	alt_assembly_1	Celera	Celera	view	200
7	NT_079596.2	2564216	102528648	plus	C	alt_assembly_2	CRA_TCAGchr7v2	CRA_TCAGchr7v2	view	200
7	NT_007933.14	28351382	102955042	plus	C	ref_assembly	reference	reference	view	200

NCBI Resource Links

Submitter-Referenced
GenBank
NC_000007.8 AC079918

dbSNP Blast Analysis

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

Validated by: PERLEGEN

UNKNOWN

Disclaimer Privacy statement

Revised: May 25, 2006 1:38 PM .