Variant report

Variant	rs6952877
Chromosome Location	chr7:33284738-33284739
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 178 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:174)

rs_ID	r²[population]
rs10224956	1.00[ASW][hapmap];1.00[CEU][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap];0.88[AMR][1000 genomes]
rs10227739	1.00[CEU][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes]
rs10232564	1.00[ASW][hapmap];1.00[CEU][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap];0.88[AMR][1000 genomes]
rs10233642	0.88[AMR][1000 genomes]
rs10233793	0.86[AMR][1000 genomes]
rs10236927	0.88[AMR][1000 genomes]
rs10237088	0.88[AMR][1000 genomes]
rs10240165	1.00[ASW][hapmap];1.00[CEU][hapmap];0.88[CHD][hapmap];0.90[JPT][hapmap];1.00[MEX][hapmap];0.80[TSI][hapmap];0.88[AMR][1000 genomes]
rs10240664	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes]
rs10241188	1.00[CEU][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes]
rs10255689	0.88[AMR][1000 genomes]
rs10260593	0.86[AMR][1000 genomes]
rs10261756	1.00[CEU][hapmap];0.91[AMR][1000 genomes]
rs10262228	0.96[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs10269937	1.00[ASW][hapmap];1.00[CEU][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];0.83[TSI][hapmap];0.88[AMR][1000 genomes]
rs10270961	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes]
rs10272214	0.96[AMR][1000 genomes]
rs10272253	1.00[CEU][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes]
rs10278228	0.91[CEU][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.95[AMR][1000 genomes];0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10464225	1.00[CEU][hapmap];0.84[CHB][hapmap];0.89[TSI][hapmap]
rs10486529	1.00[CEU][hapmap];0.82[CHB][hapmap]
rs10486530	1.00[CEU][hapmap];0.84[CHB][hapmap]
rs10951376	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes]
rs10951377	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes]
rs10951380	1.00[CEU][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10951381	1.00[ASW][hapmap];1.00[CEU][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AMR][1000 genomes];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10951387	1.00[CEU][hapmap];0.83[CHB][hapmap]
rs11760447	0.83[CHB][hapmap]
rs11760829	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes]
rs11760830	0.91[AMR][1000 genomes]
rs11763306	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes]
rs11763712	1.00[CEU][hapmap];0.84[CHB][hapmap];0.92[TSI][hapmap]
rs11764582	1.00[CEU][hapmap];0.84[CHB][hapmap]
rs11765727	0.82[EUR][1000 genomes]
rs11766506	1.00[ASW][hapmap];1.00[CEU][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap];0.88[AMR][1000 genomes]
rs11766521	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes]
rs11768050	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11769616	1.00[CEU][hapmap];0.84[CHB][hapmap];0.92[TSI][hapmap]
rs11769811	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes]
rs11770322	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11771086	1.00[CEU][hapmap];0.83[CHB][hapmap];0.82[EUR][1000 genomes]
rs11772401	0.91[AMR][1000 genomes]
rs11773450	1.00[CEU][hapmap];0.84[CHB][hapmap]
rs11773504	1.00[CEU][hapmap];0.84[CHB][hapmap];0.82[TSI][hapmap]
rs11976613	1.00[CEU][hapmap]
rs11978733	1.00[CEU][hapmap];0.92[CHB][hapmap];0.82[EUR][1000 genomes]
rs11982544	0.82[EUR][1000 genomes]
rs12056065	0.82[EUR][1000 genomes]
rs12056267	1.00[CEU][hapmap];0.84[CHB][hapmap]
rs12666753	1.00[ASW][hapmap];1.00[CEU][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12669713	0.88[AMR][1000 genomes]
rs12671396	1.00[CEU][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes]
rs12673026	1.00[CEU][hapmap];0.90[JPT][hapmap];0.88[AMR][1000 genomes]
rs12674040	0.88[AMR][1000 genomes]
rs12674454	0.96[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12701275	0.88[AMR][1000 genomes]
rs12701285	0.96[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12701289	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1304294	0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13224392	1.00[ASW][hapmap];1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];0.90[JPT][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13224684	0.93[AMR][1000 genomes]
rs13225836	0.91[AMR][1000 genomes]
rs13227275	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];0.83[TSI][hapmap];0.88[AMR][1000 genomes]
rs13228512	0.88[AMR][1000 genomes]
rs13230868	1.00[CEU][hapmap];0.84[CHB][hapmap]
rs13231353	0.88[AMR][1000 genomes]
rs13233383	0.91[AMR][1000 genomes]
rs13233431	0.93[AMR][1000 genomes]
rs13234292	1.00[CEU][hapmap];0.83[CHB][hapmap]
rs13234403	1.00[CEU][hapmap];0.84[CHB][hapmap]
rs13235723	1.00[JPT][hapmap]
rs13236414	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes]
rs13236865	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13236885	1.00[CEU][hapmap];0.84[CHB][hapmap]
rs13238407	0.82[EUR][1000 genomes]
rs13239022	1.00[CEU][hapmap];0.84[CHB][hapmap]
rs13240884	1.00[CEU][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes]
rs13244450	1.00[ASW][hapmap];1.00[CEU][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap];0.88[AMR][1000 genomes]
rs1362367	1.00[ASW][hapmap];1.00[CEU][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap];0.88[AMR][1000 genomes]
rs1406606	1.00[ASW][hapmap];0.90[CEU][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.85[TSI][hapmap];0.88[AMR][1000 genomes]
rs1419899	1.00[CEU][hapmap];0.84[CHB][hapmap]
rs1468797	1.00[ASW][hapmap];1.00[CEU][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.89[AMR][1000 genomes]
rs1548879	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes]
rs1569239	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes]
rs17150810	1.00[ASW][hapmap];1.00[CEU][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17169835	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes]
rs17169840	0.88[AMR][1000 genomes]
rs17169847	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes]
rs17169855	1.00[ASW][hapmap];1.00[CEU][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap];0.88[AMR][1000 genomes]
rs17169881	1.00[ASW][hapmap];1.00[CEU][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap];0.88[AMR][1000 genomes]
rs17169913	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes]
rs17170142	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17170174	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17170175	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17170203	1.00[CEU][hapmap];0.84[CHB][hapmap];0.89[TSI][hapmap]
rs17170220	1.00[CEU][hapmap];0.84[CHB][hapmap];0.91[TSI][hapmap]
rs17170225	1.00[CEU][hapmap];0.84[CHB][hapmap]
rs17170226	1.00[CEU][hapmap];0.84[CHB][hapmap]
rs17170229	1.00[CEU][hapmap];0.84[CHB][hapmap]
rs1861298	1.00[ASW][hapmap];1.00[CEU][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2160253	0.92[CEU][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes]
rs2178343	0.88[AMR][1000 genomes]
rs28714260	0.88[AMR][1000 genomes]
rs28764825	0.93[AMR][1000 genomes]
rs28778101	0.88[AMR][1000 genomes]
rs28825171	0.88[AMR][1000 genomes]
rs34171272	0.91[AMR][1000 genomes]
rs34213032	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34262563	0.91[AMR][1000 genomes]
rs34493378	0.98[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs34506512	0.96[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs34540469	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35067143	0.82[EUR][1000 genomes]
rs35195868	0.88[AMR][1000 genomes]
rs35543773	0.88[AMR][1000 genomes]
rs35665200	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36081731	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs36192455	0.88[AMR][1000 genomes]
rs3750123	0.88[AMR][1000 genomes]
rs4270863	1.00[CEU][hapmap];0.92[CHB][hapmap]
rs4720103	0.90[CEU][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes]
rs4720104	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes]
rs4720105	1.00[ASW][hapmap];1.00[CEU][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap];0.88[AMR][1000 genomes]
rs4720106	1.00[ASW][hapmap];1.00[CEU][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap];0.86[AMR][1000 genomes]
rs4720107	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes]
rs4723254	0.88[AMR][1000 genomes]
rs4723255	1.00[ASW][hapmap];1.00[CEU][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap];0.88[AMR][1000 genomes]
rs4723256	1.00[ASW][hapmap];1.00[CEU][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap];0.88[AMR][1000 genomes]
rs4723257	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs4723258	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes]
rs4723259	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes]
rs4723260	1.00[CEU][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes]
rs4723262	1.00[CEU][hapmap];0.88[AMR][1000 genomes]
rs4723266	0.88[AMR][1000 genomes]
rs4723278	1.00[CEU][hapmap];0.92[CHB][hapmap];0.82[EUR][1000 genomes]
rs4723279	0.82[EUR][1000 genomes]
rs4723280	1.00[CEU][hapmap]
rs59311005	0.88[AMR][1000 genomes]
rs60115200	0.88[AMR][1000 genomes]
rs6953193	0.93[AMR][1000 genomes]
rs6953313	0.88[AMR][1000 genomes]
rs6953348	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6956981	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6965729	0.92[CEU][hapmap];0.84[CHB][hapmap];0.92[TSI][hapmap]
rs6966188	1.00[CEU][hapmap];0.84[CHB][hapmap]
rs6968365	1.00[CEU][hapmap]
rs6970226	0.88[AMR][1000 genomes]
rs6973757	1.00[ASW][hapmap];1.00[CEU][hapmap];0.88[CHD][hapmap];0.93[MEX][hapmap];0.91[TSI][hapmap];0.91[AMR][1000 genomes]
rs6978749	0.88[AMR][1000 genomes]
rs71532562	0.88[AMR][1000 genomes]
rs71532563	0.84[AMR][1000 genomes]
rs71532565	0.88[AMR][1000 genomes]
rs71532573	0.82[EUR][1000 genomes]
rs71534347	0.86[AMR][1000 genomes]
rs71534348	0.98[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7457370	0.91[AMR][1000 genomes]
rs764127	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes]
rs7777101	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7783612	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.83[LWK][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7784516	0.88[AMR][1000 genomes]
rs7784540	0.88[AMR][1000 genomes]
rs7784815	0.88[AMR][1000 genomes]
rs7793862	1.00[JPT][hapmap]
rs7804742	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes]
rs7810388	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs929524	1.00[CEU][hapmap];0.84[CHB][hapmap]
rs961679	0.92[CEU][hapmap];0.89[TSI][hapmap]
rs9638888	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9638889	1.00[ASW][hapmap];1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9639675	0.92[CEU][hapmap]
rs9791864	0.93[AMR][1000 genomes]
rs986554	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes]
rs987501	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes]
rs9886317	1.00[ASW][hapmap];1.00[CEU][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.88[TSI][hapmap];0.88[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830943	chr7:33167106-33352759	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
2	nsv606610	chr7:33218763-33486316	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1016416	chr7:33241443-33559477	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv916660	chr7:33272493-33506384	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs6952877	ANLN	cis	parietal	SCAN
rs6952877	JMJD5	trans	parietal	SCAN
rs6952877	HERPUD2	cis	parietal	SCAN
rs6952877	BBS9	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:33283400-33290800	Weak transcription	Fetal Kidney	kidney
2	chr7:33283800-33285200	Enhancers	HepG2	liver
3	chr7:33283800-33316000	Weak transcription	Ovary	ovary
4	chr7:33284200-33288400	Weak transcription	Fetal Lung	lung
5	chr7:33284400-33284800	Enhancers	Brain Angular Gyrus	brain
6	chr7:33284600-33285000	Enhancers	Brain Germinal Matrix	brain

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