Reference SNP(refSNP) Cluster Report: rs155256

Reference SNP(refSNP) Cluster Report: rs155256

refSNP ID: rs155256
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
NT_037887.4:g.2242565G>A

Links

SNP Details are organized in the following sections:

Submitter records for this RefSNP Cluster

The submission ss1617454 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs155256 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
ss292874	KWOK\|OVLP-000621-280596	rev/T	A/G	ctgtaatcccagcactttgggggccaaggt	ggcaaatcatgaggtcaggagtttgagacc	06/30/00	10/10/03	79	Genomic	97 %
ss342993	KWOK\|OVLP-000621-94470	rev/T	A/G	ctgtaatcccagcactttgggggccaaggt	ggcaaatcatgaggtcaggagtttgagacc	06/30/00	10/10/03	79	Genomic	99 %
ss402704	KWOK\|OVLP-000621-250530	rev/T	A/G	ctgtaatcccagcactttgggggccaaggt	ggcaaatcatgaggtcaggagtttgagacc	06/30/00	10/10/03	85	Genomic	99 %
ss413204	KWOK\|OVLP-000621-277658	rev/T	A/G	ctgtaatcccagcactttgggggccaaggt	ggcaaatcatgaggtcaggagtttgagacc	06/30/00	10/10/03	85	Genomic	99 %
ss1144033	KWOK\|OVLP-000804-425428	fwd/B	C/T	ggtctcaaactcctgacctcatgatttgcc	accttggcccccaaagtgctgggattacag	09/02/00	10/10/03	86	Genomic	99 %
ss1145416	KWOK\|OVLP-000804-433218	fwd/B	C/T	ggtctcaaactcctgacctcatgatttgcc	accttggcccccaaagtgctgggattacag	09/02/00	10/10/03	86	Genomic	99 %
ss1238663	KWOK\|OVLP-000804-417835	fwd/B	C/T	ggtctcaaactcctgacctcatgatttgcc	accttggcccccaaagtgctgggattacag	09/02/00	10/10/03	86	Genomic	97 %
ss1238970	KWOK\|OVLP-000804-420779	fwd/B	C/T	ggtctcaaactcctgacctcatgatttgcc	accttggcccccaaagtgctgggattacag	09/02/00	10/10/03	86	Genomic	97 %
ss1617454	KWOK\|OVLP-000925-522660	fwd/B	C/T	ggtctcaaactcctgacctcatgatttgcc	accttggcccccaaagtgctgggattacag	10/04/00	10/10/03	87	Genomic	99 %
ss1645448	KWOK\|OVLP-000925-513719	fwd/B	C/T	ggtctcaaactcctgacctcatgatttgcc	accttggcccccaaagtgctgggattacag	10/04/00	10/10/03	92	Genomic	97 %
ss1646013	KWOK\|OVLP-000925-524957	fwd/B	C/T	ggtctcaaactcctgacctcatgatttgcc	accttggcccccaaagtgctgggattacag	10/04/00	10/10/03	87	Genomic	97 %
ss2480561	SC_JCM\|AC012171.4_236536	fwd/B	C/T	ggtctcaaactcctgacctcatgatttgcc	accttggcccccaaagtgctgggattacag	11/03/00	10/10/03	89	Genomic	unknown
ss14260194	BCM_SSAHASNP\|chr16.NT_037887.3_2242488	rev/T	A/G	ctgtaatcccagcactttgggggccaaggt	ggcaaatcatgaggtcaggagtttgagacc	11/05/03	11/22/03	119	Genomic	unknown

Fasta sequence (Legend)

 GCAAATCTAG TTCTGGGTTC ACTGCCTTCT CACTTGTCCC CTCGCCCCTA GTAACTTTCT
 GTTCCTCACC ATCCGCAGTG GCACCTCCGA TGCTTTCAGC CAGGAGAACC TAGGGTTTGT
 GTGCTGTGGG GACCAGGTTG CTCCTAGGGT GGACAAATAG AAGGAGATGG TTTTATCGCC
 ACCTTGGAAT GTGTGTGTGt tttcagacag actctcgctc tgtcacccag gctggagtat
 gtaccatggt gcgatcatag ctcattacag cctccaactc ctTCTTCAGT GTCCAGAGTA
 GCAGGGGCTA Attttttttt aattttttaa tttttttttt gagacagtct ctgttgcctg
 ggttggagtg cagtggcgca atattggctc actacaacct ctgcctcctg ggttcaagtg
 attttcctgc ctcagcctcc tgagtagctg gaattacagg cacctgccac catgcccagc
 taattttttg tatttctagt agagacgggg tttcatcata ttggcccggc tggtctcaaa
 ctcctgacct catgatttgc c
 Y
 accttggccc ccaaagtgct gggattacag gcgtgagcca ccgcgcccag cAGCAGGAGC
 TAATTTTTAA GAATTTTTTG TAGCAACAAG TTGTTGCTAT GTTACCCAGC TGGTCCTGAG
 TCACTGGGGT TACAGGTGTG TGTCACCATG CCAGGCTTGC TTCCTCCTCC GTTAAGTGGC
 CATTTTTCCA CCTCAAAAAT TGGTTTGGGA CACAAGGAAG AATTGGAAAT GCTTAAGATG
 AGAACAAAAG TTGAGACCAC CCAACACAGC TGGGACCTTA CTGCCCAGTG CTCCCAGTGG
 TCTGACCAAA ACCCCACACC AGACA

GeneView

GeneView via analysis of contig annotation: DCI dodecenoyl-Coenzyme A delta isomerase (3,2 trans-enoyl-Coenzyme A isomerase)

View variations for gene:

Include clinically associated:

in gene region cSNP has frequency double hit

GeneView via analysis of contig annotation: RNPS1 RNA binding protein S1, serine-rich domain

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

HuRef

NW_001838339->NM_001919

function

reference

NT_037887->NM_006711

function

reference

NT_037887->NM_080594

function

Celera

NW_926018->NM_006711

function

Celera

NW_926018->NM_080594

function

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


HuRef	NW_001838339->NM_001919->NP_001910	395407	forward	5' near gene

reference	NT_037887->NM_006711->NP_006702	2242565	reverse	3' near gene

reference	NT_037887->NM_080594->NP_542161	2242565	reverse	3' near gene

Celera	NW_926018->NM_006711->NP_006702	2232642	reverse	3' near gene

Celera	NW_926018->NM_080594->NP_542161	2232642	reverse	3' near gene

GeneView: no link established by BLAST analysis of mRNA sequences

Integrated Maps:

NCBI MapViewer: rs155256 maps exactly once on NCBI human chromosome 16

Chromosome	Contig accession	Contig position	Chromosome position	Hit orientation	Contig Allele	Assembly Type	Group label	Contig label	Neighbor SNP	SNP_flank position
16	NW_001838339.2	395407	2228610	plus	C	alt_assembly_8	HuRef	HuRef	view	561
16	NT_037887.4	2242565	2242565	minus	G	ref_assembly	reference	reference	view	561
16	NW_926018.1	2232642	2516992	minus	G	alt_assembly_1	Celera	Celera	view	561

NCBI Resource Links

Submitter-Referenced
GenBank
NT_037887 AC024088 AC024088.4

dbSNP Blast Analysis
GenBank HTGS Finished:	GenBank HTGS Draft:
AC005212.1 AC007162.1 AC009065.8 AC098805.2 NC_000016.8	AC012171.4

Population Diversity

	Sample Ascertainment				Genotype Detail		Alleles
ss#	Population	Individual Group	Chrom. Sample Cnt.	Source	C/C	HWP	C
ss1617454	HapMap-CEU	European	120	IG	1.000		1.000

	HapMap-HCB	Asian	90	IG	1.000		1.000

	HapMap-JPT	Asian	90	IG	1.000		1.000

	HapMap-YRI	Sub-Saharan African	118	IG	1.000		1.000

Summary	Average Het.+/- std err:	Individual Count	Founders Count	Individual Overlap	Genotype Conflict
		270	210	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 .