Variant report

Variant	rs980976
Chromosome Location	chr3:160771668-160771669
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:160770517..160774419-chr3:160776839..160778758,3	MCF-7	breast:

Extended variants
information (count: 103 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:102)

rs_ID	r²[population]
rs1026572	0.86[CEU][hapmap]
rs1037888	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10513559	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10513562	0.89[CEU][hapmap];0.90[EUR][1000 genomes]
rs11708076	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11708813	0.89[CEU][hapmap]
rs11716265	0.92[CEU][hapmap];1.00[JPT][hapmap]
rs11922752	0.89[CEU][hapmap]
rs12493960	0.93[ASN][1000 genomes]
rs12639128	0.89[CEU][hapmap]
rs13064176	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs13066683	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13086250	0.92[CEU][hapmap]
rs13089559	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs13092102	0.89[CEU][hapmap];1.00[JPT][hapmap]
rs13098884	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1374793	0.88[CEU][hapmap]
rs1447618	0.89[CEU][hapmap]
rs1447619	0.89[CEU][hapmap]
rs1447620	0.89[CEU][hapmap]
rs1599374	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs1599376	0.93[ASN][1000 genomes]
rs1599383	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1599386	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1609688	0.93[ASN][1000 genomes]
rs1610158	0.96[CEU][hapmap];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17236725	0.89[CEU][hapmap]
rs17236746	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs17826438	0.89[CEU][hapmap];1.00[JPT][hapmap]
rs2121718	0.89[CEU][hapmap];1.00[JPT][hapmap]
rs2306061	0.93[CEU][hapmap];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2404340	0.80[ASN][1000 genomes]
rs2593812	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4273380	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs4342141	0.89[CEU][hapmap];0.84[EUR][1000 genomes]
rs4370045	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs4414866	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs4493449	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4557202	0.89[CEU][hapmap]
rs4597724	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs4616689	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4618258	0.82[CEU][hapmap]
rs4679662	0.89[CEU][hapmap]
rs4679666	0.88[CEU][hapmap]
rs4679671	0.90[EUR][1000 genomes]
rs4679922	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4679924	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4679926	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs5004752	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.99[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs55672403	0.84[EUR][1000 genomes]
rs62280331	0.84[EUR][1000 genomes]
rs62280333	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6441339	0.89[CEU][hapmap]
rs6441354	0.92[CEU][hapmap]
rs6762645	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs6764019	0.89[CEU][hapmap];1.00[JPT][hapmap]
rs6765269	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs6769642	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6772578	0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6774276	1.00[JPT][hapmap]
rs6774635	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6775627	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs6786871	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6789388	1.00[JPT][hapmap]
rs6799160	0.82[CEU][hapmap];1.00[JPT][hapmap]
rs6804650	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6806054	0.89[CEU][hapmap];0.87[EUR][1000 genomes]
rs6809177	0.92[CEU][hapmap]
rs7615592	0.80[ASN][1000 genomes]
rs7619011	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7622047	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7623206	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs7628880	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7630674	0.87[AMR][1000 genomes]
rs7632423	0.92[CEU][hapmap];0.89[EUR][1000 genomes]
rs7650703	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7653361	0.80[ASN][1000 genomes]
rs778642	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs778643	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs778645	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs778646	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs778648	0.82[EUR][1000 genomes]
rs778649	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs778653	0.92[CEU][hapmap];0.87[EUR][1000 genomes]
rs778654	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs778657	0.89[CEU][hapmap];0.87[EUR][1000 genomes]
rs778663	0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs796609	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs898680	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs898681	1.00[CEU][hapmap];1.00[CHB][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9290065	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9290074	0.80[ASN][1000 genomes]
rs9790132	0.89[CEU][hapmap];1.00[JPT][hapmap]
rs980975	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][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]
rs9811594	0.92[CEU][hapmap];0.90[EUR][1000 genomes]
rs9820825	0.92[CEU][hapmap];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9831488	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs9846756	0.80[ASN][1000 genomes]
rs9847866	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9848239	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9860360	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.99[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9875200	0.89[CEU][hapmap];0.90[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931072	chr3:160669567-161159779	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160745200-160782600	Weak transcription	Skeletal Muscle Female	skeletal muscle
2	chr3:160768000-160778000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr3:160768000-160786400	Weak transcription	Left Ventricle	heart
4	chr3:160769200-160772400	Weak transcription	Right Ventricle	heart
5	chr3:160771000-160783200	Weak transcription	Fetal Brain Female	brain
6	chr3:160771600-160772000	Enhancers	Primary B cells from cord blood	blood

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