Reference SNP(refSNP) Cluster Report: rs961261

Reference SNP(refSNP) Cluster Report: rs961261

refSNP ID: rs961261
Organism:	human (Homo sapiens)
Molecule Type:	Genomic
Created/Updated in build:	86/129
Map to Genome Build:	36.3

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

HGVS Names
NM_001742.2:c.-26-29020T>C
NT_007933.14:g.18379615A>G

Links

SNP Details are organized in the following sections:

Submitter records for this RefSNP Cluster

The submission ss20305892 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs961261 during BLAST analysis for the current build.

NCBI Assay ID	Handle\|Submitter ID	ss to rs Orientation /Strand	Alleles	5' Near Seq 30 bp	3' Near Seq 30 bp	Entry Date	Update Date	Build Added	Molecule Type	Success Rate
ss1408066	TSC-CSHL\|TSC0265026	fwd/T	A/G	aatagtataactgaattttattttcttttt	atgatacataaaataatgtgtgtgcataat	09/06/00	10/10/03	86	Genomic	95 %
ss20305892	CSHL-HAPMAP\|CSHL-HuFF-200402.chr7.NT_007933.13_18379555	fwd/T	A/G	catagtataactgaattttattttcttttt	atgatacataaaataatgtgtgtgcataat	02/21/04	03/04/04	120	Genomic	unknown
ss42926797	ABI\|hCV334624	fwd/T	A/G	catagtataactgaattttattttcttttt	atgatacataaaataatgtgtgtgcataat	07/18/05	07/18/05	126	Genomic	unknown
ss78304919	HGSV\|Cor12878_SNV_20070510.chr7_92789990	fwd/T	A/G	catagtataactgaattttattttcttttt	atgatacataaaataatgtgtgtgcataat	10/17/07	10/18/07	129	Genomic	unknown
ss112358948	1000GENOMES\|CEU.trio.12.15.2008_1811964_chr7_92983275	fwd/T	A/G	catagtataactgaattttattttcttttt	atgatacataaaataatgtgtgtgcataat	12/15/08	12/17/08	130	Genomic	unknown

Fasta sequence (Legend)

 GTTTATGTTT CTCAAATATA TCTGCTTATA TATGTTTCCT TTGCTACACT CTtgtttgat
 tgattctaat gaaatatata cacatacacc atttgcacat ttttcacaat tgagtgtctc
 aaaagtagat ttggatctta taattgctgt cagccagaag gcagtcatga caaagctgtc
 TGTCCTTTCT TACCAATGCA CATTCAAATT TGTAGAATGA GCATCAGAAT TCAAAGCtga
 gtagaaaaat atggacatgg acaattttga gtcaaaaagt gatttaagaa atgtcaaaat
 ctgaatgcga agttttaggt tgcattaaac aattttgctt ttatctcttt atttttattt
 caatgtttcc acaagactga tatattgtaa aaatctatgt ataaatggat ctaaaagaat
 tctttcaata atcataaaat aaaaattaaa aatataagaa agcattgagt catagtataa
 ctgaatttta ttttcttttt
 R
 atgatacata aaataatgtg tgtgCATAAT TTCCATTATT ATTCAAAACC AGTGTGACCA
 TATCCCAGAG TCCTATCCTT TCTTTTACAA GTCTCACCTT AAAATTTTCC TCAAAAAATG
 TAAAAGGTTT AACATCACCC TCTGTTACAC ATATAAAATG GTTTTAATTT GGCTCTTCAA
 AACCATGATA ATCCCAAACT TATAAGCAAA TATTTGGCAT AAGT

GeneView

GeneView via analysis of contig annotation: CALCR calcitonin receptor

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_001742

function

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


reference	NT_007933->NM_001742->NP_001733	18379615	reverse	intron

GeneView: no link established by BLAST analysis of mRNA sequences

Integrated Maps:

NCBI MapViewer: rs961261 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_001839064.2	5696595	87756115	minus	T	alt_assembly_8	HuRef	HuRef	view	500
7	NW_923574.1	16388881	87849844	plus	A	alt_assembly_1	Celera	Celera	view	500
7	NT_079595.2	18375861	92474649	plus	A	alt_assembly_2	CRA_TCAGchr7v2	CRA_TCAGchr7v2	view	500
7	NT_007933.14	18379615	92983275	plus	A	ref_assembly	reference	reference	view	500

NCBI Resource Links

Submitter-Referenced
GenBank
NT_007933

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

DoubleHit found by: BCM_SSAHASNP

UNKNOWN

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Revised: May 25, 2006 1:38 PM .