Reference SNP(refSNP) Cluster Report: rs10845034

Reference SNP(refSNP) Cluster Report: rs10845034

refSNP ID: rs10845034
Organism:	human (Homo sapiens)
Molecule Type:	Genomic
Created/Updated in build:	120/129
Map to Genome Build:	36.3

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

HGVS Names
NM_016511.2:c.115+4290T>A
NT_009714.16:g.3006091A>T

Links

, Linkout

SNP Details are organized in the following sections:

Submitter records for this RefSNP Cluster

The submission ss79065212 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs10845034 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
ss15513436	SC_SNP\|NT_009714.16_3006091	fwd/B	A/T	atagtaaccataagtgtgttctagatacac	ttatttcactggaagcaacctttacaaaaa	11/14/03	11/22/03	120	Genomic	unknown
ss18781591	SC_SNP\|SC-CHR9-12_NA17119-200402.chr12.NT_009714.16_3006091	fwd/B	A/T	atagtaaccataagtgtgttctagatacac	ttatttcactggaagcaacctttacaaaaa	02/20/04	03/04/04	120	Genomic	unknown
ss18994028	SC_SNP\|SC-CHR9-12_NA07340-200402.chr12.NT_009714.16_3006091	fwd/B	A/T	atagtaaccataagtgtgttctagatacac	ttatttcactggaagcaacctttacaaaaa	02/20/04	03/04/04	120	Genomic	unknown
ss20871903	SSAHASNP\|WGSA-200403-chr12.chr12.NT_009714.16_3006091	fwd/B	A/T	atagtaaccataagtgtgttctagatacac	ttatttcactggaagcaacctttacaaaaa	03/19/04	03/19/04	121	Genomic	unknown
ss23786797	PERLEGEN\|afd2010826	fwd/B	A/T	atagtaaccataagtgtgttctagatacac	ttatttcactggaagcaacctttacaaaaa	08/10/04	09/13/04	123	Genomic	unknown
ss38956453	ABI\|hCV26765392	fwd/	A/T	atagtaaccataagtgtgttctagatacac	ttatttcactggaagcaacttttacaaaaa	07/16/05	07/16/05	126	Genomic	unknown
ss79065212	HGSV\|Cor18507_SNV_20070510.chr12_10138384	fwd/	A/T	atagtaaccataagtgtgttctagatacac	ttatttcactggaagcaacctttacaaaaa	10/19/07	10/22/07	129	Genomic	unknown
ss83727281	HGSV\|Cor18956_SNV_20070510.chr12_10138384	fwd/	A/T	atagtaaccataagtgtgttctagatacac	ttatttcactggaagcaacctttacaaaaa	11/30/07	12/05/07	130	Genomic	unknown
ss88961242	BCMHGSC_JDW\|JWB-0517548	fwd/	A/T	atagtaaccataagtgtgttctagatacac	ttatttcactggaagcaacctttacaaaaa	02/26/08	02/28/08	129	Genomic	unknown

Fasta sequence (Legend)

 TTATTTACTG AAATATAATT CAAAAACAAC ATTACCATTA ATGATAATTG CTCAAATTTC
 TTGAGTTACT GAGAAAAATG TCTTATATGA ATGTTCTCAT CTAGCCTCAC AAACACCCCC
 TATAAGGTAG ATATTATTAT CTCATTTTAC AGGTAGGGAA CTGAGGCCTA GCAGGTTTAG
 ACAGCTTATT CAGGAACACA CAGCTACTAT TAGCAATAGT TACTAATGAA CTATTAGTAA
 CTCCCCAGGA TTGTGTTTCT CCATGTCTTT ATATAGAATG ATTGGATGGA GAGTATTGAA
 AAAGAGAGAG AGAGAAATAG TTATTAATAG TAACCATAAG TGTGTTCTAG ATACAC
 W
 TTATTTCACT GGAAGCAACC TTTACAAAAA TTGAATTACC AAGGAGTCAC TTAAGTTGCC
 TAAGTCACTA AGTTGCACAG AGCTACCCAA GCTGACTGAT TCCAGAGCTG GACATTTTCA
 ATCATCTTCC TATCCTCCCA ACACATCTCA GATCAATATT TATACATGGC AGTGCATCTG
 GAATCATAGA ATGACAGCAG CTTGCAACTT TTCCCTTCTA CATTATGAAA TGTCCACTCT
 GCCAGCAAGA TGAATTCTGA AAGCATAAAT TTAATCATAC TTCCTCTCTT CCATAGGAAG
 AAGTTTCCC

GeneView

GeneView via analysis of contig annotation: CLEC1A C-type lectin domain family 1, member A

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_009714->NM_016511

function

HuRef

NW_001838052->NM_016511

function

Celera

NW_925328->NM_016511

function

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


reference	NT_009714->NM_016511->NP_057595	3006091	reverse	intron

HuRef	NW_001838052->NM_016511->NP_057595	629758	reverse	intron

Celera	NW_925328->NM_016511->NP_057595	522487	reverse	intron

GeneView: no link established by BLAST analysis of mRNA sequences

Integrated Maps:

NCBI MapViewer: rs10845034 maps exactly once on NCBI human chromosome 12

Chromosome	Contig accession	Contig position	Chromosome position	Hit orientation	Contig Allele	Assembly Type	Group label	Contig label	Neighbor SNP	SNP_flank position
12	NW_001838052.1	629758	9990275	plus	T	alt_assembly_8	HuRef	HuRef	view	334
12	NT_009714.16	3006091	10138384	plus	A	ref_assembly	reference	reference	view	334
12	NW_925328.1	522487	15407803	plus	T	alt_assembly_1	Celera	Celera	view	334

NCBI Resource Links

Submitter-Referenced
GenBank
NT_009714

dbSNP Blast Analysis
GenBank HTGS Finished:
AC024224.33 NC_000012.10

Population Diversity

	Sample Ascertainment				Genotype Detail				Alleles
ss#	Population	Individual Group	Chrom. Sample Cnt.	Source	A/A	A/T	T/T	HWP	A	T
ss23786797	AFD_EUR_PANEL	European	48	IG	0.042	0.125	0.833	0.150	0.104	0.896

	AFD_AFR_PANEL	African American	46	IG	0.348	0.391	0.261	0.317	0.543	0.457

	AFD_CHN_PANEL	Asian	48	IG	0.375	0.458	0.167	1.000	0.604	0.396

Summary	Average Het.+/- std err:	Individual Count	Founders Count	Individual Overlap	Genotype Conflict
	0.486+/-0.083	71	50	0	0

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 .