Reference SNP(refSNP) Cluster Report: rs27270

Reference SNP(refSNP) Cluster Report: rs27270

refSNP ID: rs27270
Organism:	human (Homo sapiens)
Molecule Type:	Genomic
Created/Updated in build:	76/129
Map to Genome Build:	36.3

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

HGVS Names

Links

, Linkout

SNP Details are organized in the following sections:

Submitter records for this RefSNP Cluster

The submission ss5308991 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs27270 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
ss33890	KWOK\|OVLP-25981	fwd/T	A/G	tatgattctggaatgtcttcatgaaaagta	agtgttattcaattgttcaaatatttctgt	04/28/00	10/10/03	76	Genomic	99 %
ss33916	KWOK\|OVLP-26014	fwd/T	A/G	tatgattctggaatgtcttcatgaaaagta	agtgttattcaattgttcaaatatttctgt	04/28/00	10/10/03	76	Genomic	99 %
ss33998	KWOK\|OVLP-26124	fwd/T	A/G	tatgattctggaatgtcttcatgaaaagta	agtgttattcaattgttcaaatatttctgt	04/28/00	10/10/03	76	Genomic	99 %
ss34051	KWOK\|OVLP-26255	fwd/T	A/G	tatgattctggaatgtcttcatgaaaagta	agtgttattcaattgttcaaatatttctgt	04/28/00	10/10/03	76	Genomic	99 %
ss42401	KWOK\|OVLP-103562	fwd/T	A/G	tatgattctggaatgtcttcatgaaaagta	agtgttattcaattgttcaaatatttctgt	04/28/00	04/07/04	76	Genomic	99 %
ss316942	KWOK\|OVLP-000621-9054	fwd/T	A/G	tatgattctggaatgtcttcatgaaaagta	agtgttattcaattgttcaaatatttctgt	06/30/00	10/10/03	79	Genomic	99 %
ss324183	KWOK\|OVLP-000621-32551	rev/B	C/T	acagaaatatttgaacaattgaataacact	tacttttcatgaagacattccagaatcata	06/30/00	10/10/03	79	Genomic	99 %
ss325300	KWOK\|OVLP-000621-36304	fwd/T	A/G	tatgattctggaatgtcttcatgaaaagta	agtgttattcaattgttcaaatatttctgt	06/30/00	10/10/03	79	Genomic	99 %
ss325709	KWOK\|OVLP-000621-37625	fwd/T	A/G	tatgattctggaatgtcttcatgaaaagta	agtgttattcaattgttcaaatatttctgt	06/30/00	10/10/03	79	Genomic	99 %
ss325871	KWOK\|OVLP-000621-38328	fwd/T	A/G	tatgattctggaatgtcttcatgaaaagta	agtgttattcaattgttcaaatatttctgt	06/30/00	10/10/03	79	Genomic	99 %
ss638904	SC_JCM\|AC026788.2_91723	fwd/T	A/G	tatgattctggaatgtcttcatgaaaagta	agtgttattcaattgttcaaatatttctgt	07/12/00	10/10/03	80	Genomic	unknown
ss1092419	KWOK\|OVLP-000804-140408	fwd/T	A/G	tatgattctggaatgtcttcatgaaaagta	agtgttattcaattgttcaaatatttctgt	09/02/00	10/10/03	86	Genomic	99 %
ss1093886	KWOK\|OVLP-000804-153808	rev/B	C/T	acagaaatatttgaacaattgaataacact	tacttttcatgaagacattccagaatcata	09/02/00	10/10/03	86	Genomic	99 %
ss1098130	KWOK\|OVLP-000804-178853	fwd/T	A/G	tatgattctggaatgtcttcatgaaaagta	agtgttattcaattgttcaaatatttctgt	09/02/00	10/10/03	86	Genomic	99 %
ss1099661	KWOK\|OVLP-000804-187669	fwd/T	A/G	tatgattctggaatgtcttcatgaaaagta	agtgttattcaattgttcaaatatttctgt	09/02/00	10/10/03	86	Genomic	99 %
ss1103953	KWOK\|OVLP-000804-212818	fwd/T	A/G	tatgattctggaatgtcttcatgaaaagta	agtgttattcaattgttcaaatatttctgt	09/02/00	10/10/03	86	Genomic	99 %
ss1105262	KWOK\|OVLP-000804-219937	fwd/T	A/G	tatgattctggaatgtcttcatgaaaagta	agtgttattcaattgttcaaatatttctgt	09/02/00	10/10/03	86	Genomic	99 %
ss1106510	KWOK\|OVLP-000804-228540	fwd/T	A/G	tatgattctggaatgtcttcatgaaaagta	agtgttattcaattgttcaaatatttctgt	09/02/00	10/10/03	86	Genomic	99 %
ss1107145	KWOK\|OVLP-000804-234241	fwd/T	A/G	tatgattctggaatgtcttcatgaaaagta	agtgttattcaattgttcaaatatttctgt	09/02/00	10/10/03	86	Genomic	99 %
ss1219756	KWOK\|OVLP-000804-223412	fwd/T	A/G	tatgattctggaatgtcttcatgaaaagta	agtgttattcaattgttcaaatatttctgt	09/02/00	10/10/03	86	Genomic	97 %
ss1601559	KWOK\|OVLP-000925-367020	fwd/T	A/G	tatgattctggaatgtcttcatgaaaagta	agtgttattcaattgttcaaatatttctgt	10/04/00	10/10/03	87	Genomic	99 %
ss1603231	KWOK\|OVLP-000925-380028	fwd/T	A/G	tatgattctggaatgtcttcatgaaaagta	agtgttattcaattgttcaaatatttctgt	10/04/00	10/10/03	87	Genomic	99 %
ss1606735	KWOK\|OVLP-000925-416566	fwd/T	A/G	tatgattctggaatgtcttcatgaaaagta	agtgttattcaattgttcaaatatttctgt	10/04/00	10/10/03	87	Genomic	99 %
ss1607127	KWOK\|OVLP-000925-421549	fwd/T	A/G	tatgattctggaatgtcttcatgaaaagta	agtgttattcaattgttcaaatatttctgt	10/04/00	10/10/03	87	Genomic	99 %
ss1607812	KWOK\|OVLP-000925-426913	rev/B	C/T	acagaaatatttgaacaattgaataacact	tacttttcatgaagacattccagaatcata	10/04/00	10/10/03	87	Genomic	99 %
ss1609582	KWOK\|OVLP-000925-444114	fwd/T	A/G	tatgattctggaatgtcttcatgaaaagta	agtgttattcaattgttcaaatatttctgt	10/04/00	10/10/03	87	Genomic	99 %
ss1610876	KWOK\|OVLP-000925-457775	fwd/T	A/G	tatgattctggaatgtcttcatgaaaagta	agtgttattcaattgttcaaatatttctgt	10/04/00	10/10/03	87	Genomic	99 %
ss1611261	KWOK\|OVLP-000925-460827	fwd/T	A/G	tatgattctggaatgtcttcatgaaaagta	agtgttattcaattgttcaaatatttctgt	10/04/00	10/10/03	87	Genomic	99 %
ss1641414	KWOK\|OVLP-000925-419155	fwd/T	A/G	tatgattctggaatgtcttcatgaaaagta	agtgttattcaattgttcaaatatttctgt	10/04/00	10/10/03	87	Genomic	97 %
ss1642601	KWOK\|OVLP-000925-455361	fwd/T	A/G	tatgattctggaatgtcttcatgaaaagta	agtgttattcaattgttcaaatatttctgt	10/04/00	10/10/03	87	Genomic	97 %
ss5308991	TSC-CSHL\|TSC1636486	fwd/T	A/G	tatgattctggaatgtcttcatgaaaagta	agtgttattcaattgttcaaatatttctgt	09/20/02	04/07/04	108	Genomic	unknown
ss24411050	PERLEGEN\|afd3118142	rev/B	C/T	acagaaatatttgaacaattgaataacact	tacttttcatgaagacattccagaatcata	08/10/04	09/13/04	123	Genomic	unknown
ss44614996	ABI\|hCV933022	rev/B	C/T	acagaaatatttgaacaattgaataacact	tacttttcatgaagacattccagaatcata	07/19/05	07/19/05	126	Genomic	unknown
ss66285059	AFFY\|SNP_A-1807949	fwd/T	A/G	gtcttcatgaaaagta	agtgttattcaattgt	10/29/06	08/14/07	127	Genomic	unknown
ss68933967	PERLEGEN\|PGP03118142	rev/B	C/T	acagaaatatttgaacaattgaataacact	tacttttcatgaagacattccagaatcata	01/30/07	08/14/07	127	Genomic	unknown
ss75944765	AFFY\|AFFY_6_1M_SNP_A-1807949	fwd/T	A/G	gtcttcatgaaaagta	agtgttattcaattgt	08/28/07	08/29/07	129	Genomic	unknown
ss78123395	HGSV\|Cor12878_SNV_20070510.chr5_50219469	rev/B	C/T	acagaaatatttgaacaattgaataacact	tacttttcatgaagacattccagaatcata	10/17/07	10/18/07	129	Genomic	unknown
ss93087735	BCMHGSC_JDW\|JWB-1973452	rev/B	C/T	acagaaatatttgaacaattgaataacact	tacttttcatgaagacattccagaatcata	02/26/08	03/03/08	129	Genomic	unknown

Fasta sequence (Legend)

 GCAGTTGAAA TGAATATGAG TTATATGTAT GTGTTGGGAG TGTGAGGGGC AGATGCAATG
 GGAAAATCAG ACTGATGAAA GAATAAGAGT TCTTTTGAGG CACTGTGGAA GATGGTTCAA
 TGGGAGCCAG TTAATTAGGG GCTTTGAAGG CTGAGTTGCA GAATTTGAAA CAAGTACAAA
 AGGCAGAGGG GAACCATTAA CAACTATGAT TCATGGTGAA CTTTGCATGT GATTGAGCAG
 GGAAGTAGGA ACGCCAATGA AGTATTTTTT CCACATGGCA GATGAGAGGT GGTGAGAGTG
 ATAGTGAGGC TGGGAAATCT CAAGCGAAGC GGAAATGAAG GATGAAAGAA AGATATTGGG
 AAAAGCTCTT AGGAACTCTA GATAATAACT GCTAGGTGCT AGGCATCAGC CTATTACAGT
 AAGGTCACTT TCAAGTAAAG AATAATATCA AAGAGCCTAG GGCTTGTCTT TATGATTCTG
 GAATGTCTTC ATGAAAAGTA
 R
 AGTGTTATTC AATTGTTCAA ATATTTCTGT GGACAAGCAT TTAAGGAAGA TTTGGAAACT
 GGGCAACATT ACACACTTCT GATAATTGGT AGATTTATAA TACTTACGTC AAAGGCCACC
 AGAAGAGAGA ATACTTCATA GCTATAGAAG AGAAAGTCCT TCCATGTGCA GACAGAATCG
 CCAAATATGT CCTATGTTAC CTAGCAAAGA AGTGATGATG CAATTATTTC ACTAGAAAAG
 TAGATGGGCA AGGTCAATTC TTAAAAAGCT ATCAGGTGGA AGAGGATTGA CTGTTAGGAT
 AGTTTTAGAC ATGCTTATTT TTCAATAATG CTTATTTTTC AATAATGCTT ATTTTATTAT
 GAATAAGATA AAATTGATAA TAATTATGGA CCCATGCTCG TTTGACAACA ACAAAGCAGA
 TTTTAGGTTA GGCATATTTG AGTACAAAAA ACGGTGAACA ACTAAAGCCA GATTTTTTTT
 TCTGGATTTT GTGAATTCAC

GeneView

GeneView: no link established by analysis of contig annotation
GeneView: no link established by BLAST analysis of mRNA sequences

Integrated Maps:

NCBI MapViewer: rs27270 maps exactly once on NCBI human chromosome 5

Chromosome	Contig accession	Contig position	Chromosome position	Hit orientation	Contig Allele	Assembly Type	Group label	Contig label	Neighbor SNP	SNP_flank position
5	NW_922607.1	745603	47130217	minus	C	alt_assembly_1	Celera	Celera	view	500
5	NW_001838934.1	755372	47148052	minus	C	alt_assembly_8	HuRef	HuRef	view	500
5	NT_006713.14	778071	50219469	minus	C	ref_assembly	reference	reference	view	500

NCBI Resource Links

Submitter-Referenced
GenBank
NC_000005.8 AC008831 AC026788.2 AC027325.2 AC027333 AC027333.2 AC027350 AC027350.2

dbSNP Blast Analysis
GenBank HTGS Finished:	GenBank HTGS Draft:
AC008831.7 AC022441.5 AC026788.4 NC_000005.8	AC016631.6 AC027325.3 AC027350.3 AC114927.1

Population Diversity

	Sample Ascertainment				Genotype Detail				Alleles
ss#	Population	Individual Group	Chrom. Sample Cnt.	Source	A/A	A/G	G/G	HWP	A	G	N
ss24411050	AFD_EUR_PANEL	European	48	IG	0.125	0.458	0.417	1.000	0.354	0.646

	AFD_AFR_PANEL	African American	46	IG		0.174	0.826	0.655	0.087	0.913

	AFD_CHN_PANEL	Asian	48	IG		0.167	0.833	0.752	0.083	0.917

ss42401	C		60	AF					0.700	0.300

	B		60	AF					0.750	0.250

	A		60	AF					0.600	0.400

ss5308991	HapMap-CEU	European	120	IG	0.150	0.417	0.433	0.479	0.358	0.642

	HapMap-HCB	Asian	90	IG	0.022	0.289	0.689	1.000	0.167	0.833

	HapMap-JPT	Asian	90	IG		0.289	0.711	0.294	0.144	0.856

	HapMap-YRI	Sub-Saharan African	120	IG	0.033	0.350	0.617	0.752	0.208	0.792

	CHMJ	Asian	74	IG					0.189	0.797	0.014

ss66285059	HapMap-CEU	European	118	GF	0.153	0.407	0.441		0.356	0.644

	HapMap-HCB	Asian	90	GF	0.022	0.289	0.689		0.167	0.833

	HapMap-JPT	Asian	90	GF		0.289	0.711		0.144	0.856

	HapMap-YRI	Sub-Saharan African	120	GF	0.033	0.350	0.617		0.208	0.792

ss68933967	HapMap-CEU	European	120	GF	0.150	0.417	0.433		0.358	0.642

	HapMap-HCB	Asian	90	GF	0.022	0.289	0.689		0.167	0.833

	HapMap-JPT	Asian	90	GF		0.289	0.711		0.144	0.856

	HapMap-YRI	Sub-Saharan African	120	GF	0.033	0.350	0.617		0.208	0.792