Variant report

Variant	rs17487717
Chromosome Location	chr1:223486421-223486422
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs1341289	0.91[LWK][hapmap];0.82[MKK][hapmap];0.86[YRI][hapmap];0.81[AFR][1000 genomes]
rs1341291	0.93[YRI][hapmap]
rs1518040	0.91[LWK][hapmap];0.82[MKK][hapmap];0.86[YRI][hapmap];0.81[AFR][1000 genomes]
rs1518044	0.84[JPT][hapmap]
rs1539047	0.81[AFR][1000 genomes]
rs17163762	0.93[YRI][hapmap]
rs17163773	0.93[YRI][hapmap]
rs17163774	0.93[YRI][hapmap]
rs17163783	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17163787	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17163789	0.86[AFR][1000 genomes]
rs17163816	0.93[LWK][hapmap];0.83[MKK][hapmap];0.86[YRI][hapmap]
rs17163831	0.84[LWK][hapmap]
rs1850562	0.88[AFR][1000 genomes]
rs1856933	0.81[AFR][1000 genomes]
rs1935037	0.82[AFR][1000 genomes]
rs1949441	0.93[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];0.81[MEX][hapmap];0.88[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2096082	0.88[AFR][1000 genomes]
rs2138970	0.91[LWK][hapmap];0.82[MKK][hapmap];0.86[YRI][hapmap];0.81[AFR][1000 genomes]
rs2176504	0.88[AFR][1000 genomes]
rs2176505	1.00[LWK][hapmap];0.90[MKK][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes]
rs2176506	0.86[AFR][1000 genomes]
rs2203763	0.82[LWK][hapmap];0.93[YRI][hapmap]
rs34238669	0.91[LWK][hapmap];0.82[MKK][hapmap];0.86[YRI][hapmap];0.81[AFR][1000 genomes]
rs34468460	0.95[LWK][hapmap];0.84[MKK][hapmap];0.96[YRI][hapmap];0.85[AFR][1000 genomes]
rs34572097	0.82[AFR][1000 genomes]
rs41371046	0.84[JPT][hapmap]
rs4661238	0.88[AFR][1000 genomes]
rs4661239	0.88[AFR][1000 genomes]
rs66531524	0.86[AFR][1000 genomes]
rs66768536	0.88[AFR][1000 genomes]
rs66867621	0.86[AFR][1000 genomes]
rs67707169	0.84[AFR][1000 genomes]
rs7536652	0.84[LWK][hapmap];0.89[YRI][hapmap]
rs825113	0.80[CEU][hapmap]
rs825128	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs862216	0.86[AFR][1000 genomes]
rs885279	0.85[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1012537	chr1:222755091-223512243	Weak transcription Strong transcription Enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
2	nsv1000039	chr1:223429733-223527845	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
3	nsv518979	chr1:223468336-223488310	Weak transcription Enhancers Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:223470000-223493200	Weak transcription	Esophagus	oesophagus
2	chr1:223482200-223486600	Weak transcription	Ovary	ovary
3	chr1:223482200-223488200	Weak transcription	Fetal Thymus	thymus
4	chr1:223482200-223488600	Weak transcription	Primary T cells from cord blood	blood
5	chr1:223482200-223488600	Weak transcription	Thymus	Thymus
6	chr1:223485800-223487400	Enhancers	Stomach Smooth Muscle	stomach
7	chr1:223486000-223486800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links