Reference SNP(refSNP) Cluster Report: rs28423004

Reference SNP(refSNP) Cluster Report: rs28423004

refSNP ID: rs28423004
Organism:	human (Homo sapiens)
Molecule Type:	Genomic
Created/Updated in build:	125/129
Map to Genome Build:	36.3

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

HGVS Names
NM_005045.2:c.7349+655T>A
NM_173054.1:c.7349+655T>A
NT_007933.14:g.28358684A>T

Links

SNP Details are organized in the following sections:

Submitter records for this RefSNP Cluster

The submission ss35156715 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs28423004 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
ss35156715	SSAHASNP\|TA-079.chr7_102769059		fwd/	A/T	gtaggtaccaccatgcctggctaatttttt	attttttttgtagagatggggtctcgctgt	03/11/05		125	Genomic			unknown

Fasta sequence (Legend)

 GAAATAGGAG TTTCTATCAA GATGTTAAAG CTTTCCTATA ATTAGCACCT AGTTTAGATG
 GTGAAAGAGA GAGTGTCATG TAACACTATT CCACTAGGCA AAGCTAATTC TCTGCTTTAC
 TCAAACAGGA GTGGAAATGC ACAGATAATT TAGATTTAAC TTCTTTATCA GAATTTACTA
 GGCAATTTTA TTTACTTTAA TTTTTAATTT TTTTTTTTGA GACAGGGTCT GGCTCTGACA
 CCCAAGCTGG AGTGCAGTGG CATGATCATA GCTCACTGCA TTCTCAAACT CCTGGGCTCT
 AGTGATCCTC CTGCCACAGC CTCCTGAGTG GCTGGGACTG CAGGTAGGTA CCACCATGCC
 TGGCTAATTT TTT
 W
 ATTTTTTTTG TAGAGATGGG GTCTCGCTGT TGTTTCCCAG GCTAGTCTTG AACTCCTAGT
 CTCAAGTGAT CCTTCCGTAC CAGGCAATTT TATTAAGCCC TGATCCCTTT CCATAGAGAC
 AAGAATGAAA GGTTTTTCAC ATAAAATAAT GCTTCAGGTG ATAATTCTCA AGATAATGTC
 CATAATAAAA TTTTAAAAGC AGACATAATT TAAAGGTACA TTTATTTGCT ACATTCATTT
 ATAGGACATC ACTCACTCCT ATATTTACAG CAGTCTC

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	28358684	reverse	intron

reference	NT_007933->NM_173054->NP_774959	28358684	reverse	intron

GeneView: no link established by BLAST analysis of mRNA sequences

Integrated Maps:

NCBI MapViewer: rs28423004 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	28118940	97535574	minus	T	alt_assembly_8	HuRef	HuRef	view	373
7	NW_923640.1	740194	97981443	plus	A	alt_assembly_1	Celera	Celera	view	373
7	NT_079596.2	2571514	102535946	plus	A	alt_assembly_2	CRA_TCAGchr7v2	CRA_TCAGchr7v2	view	373
7	NT_007933.14	28358684	102962344	plus	A	ref_assembly	reference	reference	view	373

NCBI Resource Links

Submitter-Referenced

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
	UNKNOWN	UNKNOWN	UNKNOWN

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Revised: May 25, 2006 1:38 PM .