Reference SNP(refSNP) Cluster Report: rs162737

Reference SNP(refSNP) Cluster Report: rs162737

refSNP ID: rs162737
Organism:	human (Homo sapiens)
Molecule Type:	Genomic
Created/Updated in build:	79/129
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_006614.2:c.-95+8722A>G
NT_022517.17:g.235097A>G

Links

SNP Details are organized in the following sections:

Submitter records for this RefSNP Cluster

The submission ss5330454 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs162737 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
ss423865	KWOK\|OVLP-000621-307676	fwd/B	C/T	acacctctgagactttcttgcttattcttg	ttctttcttgcttacgtactggtataattc	06/30/00	10/10/03	79	Genomic	99 %
ss424621	KWOK\|OVLP-000621-310125	fwd/B	C/T	acacctctgagactttcttgcttattcttg	ttctttcttgcttacgtactggtataattc	06/30/00	10/10/03	79	Genomic	99 %
ss633076	SC_JCM\|AC026187.2_160909	fwd/B	C/T	acacctctgagactttcttgcttattcttg	ttctttcttgcttacgtactggtataattc	07/12/00	10/10/03	87	Genomic	unknown
ss1134274	KWOK\|OVLP-000804-380311	fwd/B	C/T	acacctctgagactttcttgcttattcttg	ttctttcttgcttacgtactggtataattc	09/02/00	10/10/03	86	Genomic	99 %
ss1135412	KWOK\|OVLP-000804-385400	fwd/B	C/T	acacctctgagactttcttgcttattcttg	ttctttcttgcttacgtactggtataattc	09/02/00	10/10/03	86	Genomic	99 %
ss1136423	KWOK\|OVLP-000804-389588	fwd/B	C/T	acacctctgagactttcttgcttattcttg	ttctttcttgcttacgtactggtataattc	09/02/00	10/10/03	86	Genomic	99 %
ss1361578	TSC-CSHL\|TSC0239642	fwd/B	C/T	acacctctgagactttcttgcttattcttg	ttctttcttgcttacgtactggtataattc	06/14/01	10/10/03	110	Genomic	unknown
ss1991897	KWOK\|OVLP-000925-159324	fwd/B	C/T	acacctctgagactttcttgcttattcttg	ttctttcttgcttacgtactggtataattc	10/06/00	10/10/03	87	Genomic	99 %
ss1992530	KWOK\|OVLP-000925-168650	fwd/B	C/T	acacctctgagactttcttgcttattcttg	ttctttcttgcttacgtactggtataattc	10/06/00	10/10/03	87	Genomic	99 %
ss1993216	KWOK\|OVLP-000925-176777	fwd/B	C/T	acacctctgagactttcttgcttattcttg	ttctttcttgcttacgtactggtataattc	10/06/00	10/10/03	87	Genomic	99 %
ss5330454	TSC-CSHL\|TSC1584648	rev/T	A/G	gaattataccagtacgtaagcaagaaagaa	caagaataagcaagaaagtctcagaggtgt	09/20/02	10/10/03	110	Genomic	unknown
ss5473603	TSC-CSHL\|TSC0880273	fwd/B	C/T	acacctctgagactttcttgcttattcttg	ttctttcttgcttacatactggtataattc	09/21/02	10/10/03	111	Genomic	unknown
ss5592864	BGI\|pd37_5913.z1.abd_233	fwd/B	C/T	acacctctgagactttcttgcttattcttg	ttctttcttgcttacgtactggtataattc	10/17/02	10/10/03	110	Genomic	unknown
ss6307145	SC_JCM\|NT_005927.12_223936	rev/T	A/G	gaattataccagtacgtaagcaagaaagaa	caagaataagcaagaaagtctcagaggtgt	01/10/03	10/10/03	111	Genomic	unknown
ss14190357	BCM_SSAHASNP\|chr3.NT_022517.16_235097	rev/T	A/G	gaattataccagtacgtaagcaagaaagaa	caagaataagcaagaaagtctcagaggtgt	11/05/03	11/22/03	119	Genomic	unknown
ss41939127	ABI\|hCV1352007	rev/T	A/G	gaattataccagtacgtaagcaagaaagaa	caagaataagcaagaaagtctcagaggtgt	07/17/05	07/17/05	126	Genomic	unknown
ss85273494	HGSV\|Cor19240_SNV_20070510.chr3_270097	rev/T	A/G	gaattataccagtacgtaagcaagaaagaa	caagaataagcaagaaagtctcagaggtgt	11/30/07	12/08/07	130	Genomic	unknown
ss91958844	BCMHGSC_JDW\|JWB-1541796	rev/T	A/G	gaattataccagtacgtaagcaagaaagaa	caagaataagcaagaaagtctcagaggtgt	02/26/08	03/02/08	129	Genomic	unknown

Fasta sequence (Legend)

 TAAATGTTAA ATTTGTGTCC TTTTCTAGTC TATTCAGGAA GAAATACAGA TGCAATTTTA
 ATTCAGGAGC ACTTTTAGAA AAGTGTCACT TTCTTTCTCT TTTTatccat ttattcgtcc
 aatatttact gagaacctag taggtggtag aggttttcca acagctgaag aaagagtact
 gcaagttttt gttcaaatag agcttacatt ttagtaattg ggagaaacaa aataaacata
 taaataaata agtattaaga tactgttgtg agtaatacat gttaacttga agacaaagaa
 aTGTGTCTTT AAGATGTTGT ATTATTGGAT TACATTAGTG GGTCACAGGA ACCCAAATCA
 AACTAAGCTA AACTAACAAG TTATGGAACT TTATTGGCCC GCATACAAAA ACTACAGAAA
 AGGTAGAGAG GGAACCAGCT ACAGGGACCC CTGGATCCAG AAACCCAAAC ACCTCTGAGA
 CTTTCTTGCT TATTCTTG
 Y
 TTCTTTCTTG CTTACGTACT GGTATAATTC TCTGATACCA GCTCTGTTAC TTCAGCATCA
 ATTCAATAAC TCCTCAGAGA AGAACTCTAA ACAACCTAAC TCGCATTAAC TGTCCCATCC
 TCTATAACTA TGGTGCTAAG GGAGCATAAT TGGTTCATAA CGAGATACAT CACAGCCATG
 GCTAGGGCAA TAAAAGCATT GTTAATCATA ATATTGAGAG TTTACCATGT GTAAAATATA
 GTACAATTAT AGAAATGTGT CTATTAAAAA TAaactctgt aaggactact atctcctctt
 tactgatgag aaattaaggc tcataaagat taagtaactt gtaaaagcac acattactag
 taagtatgga aggtcaaatt caagcccact taaatcacct ctccaaagca tatgttccta
 aatactaGAT AATTAGGCCA TGCTAATGTT CATTTCTATA TAGTTACATT ACAGTAACTA
 TAATTATTTA ATTACCTTAA

GeneView

GeneView via analysis of contig annotation: CHL1 cell adhesion molecule with homology to L1CAM (close homolog of L1)

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_022517->NM_006614

function

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


reference	NT_022517->NM_006614->NP_006605	235097	forward	intron

GeneView: no link established by BLAST analysis of mRNA sequences

Integrated Maps:

NCBI MapViewer: rs162737 maps exactly once on NCBI human chromosome 3

Chromosome	Contig accession	Contig position	Chromosome position	Hit orientation	Contig Allele	Assembly Type	Group label	Contig label	Neighbor SNP	SNP_flank position
3	NW_921651.1	240480	240480	minus	A	alt_assembly_1	Celera	Celera	view	498
3	NW_001838876.2	10101708	240726	plus	T	alt_assembly_8	HuRef	HuRef	view	498
3	NT_022517.17	235097	270097	minus	A	ref_assembly	reference	reference	view	498

NCBI Resource Links

Submitter-Referenced
GenBank
NT_022517 AC026171 AC026178 AC026178.3 AC026187.2 AC055763.10

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, NCBI

UNKNOWN

Disclaimer Privacy statement

Revised: May 25, 2006 1:38 PM .