Variant report

Variant	rs12062461
Chromosome Location	chr1:225295098-225295099
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 154 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:149)

rs_ID	r²[population]
rs10399821	0.85[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs10399941	0.90[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs10495231	0.92[ASN][1000 genomes]
rs10799293	1.00[ASN][1000 genomes]
rs10915747	0.85[ASN][1000 genomes]
rs10915748	0.85[ASN][1000 genomes]
rs10915749	0.85[ASN][1000 genomes]
rs10915750	0.85[ASN][1000 genomes]
rs10915751	0.85[ASN][1000 genomes]
rs10915757	0.85[ASN][1000 genomes]
rs10915758	0.85[ASN][1000 genomes]
rs10915761	0.92[ASN][1000 genomes]
rs10915762	0.92[ASN][1000 genomes]
rs10915763	0.92[ASN][1000 genomes]
rs10915778	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10915780	1.00[ASN][1000 genomes]
rs10915781	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10915785	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10915786	0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs10915788	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10915789	0.96[ASN][1000 genomes]
rs10915795	0.96[ASN][1000 genomes]
rs10915799	0.96[ASN][1000 genomes]
rs10915800	0.96[ASN][1000 genomes]
rs10915801	0.96[ASN][1000 genomes]
rs10915808	0.96[ASN][1000 genomes]
rs11484699	0.96[ASN][1000 genomes]
rs11484714	0.96[ASN][1000 genomes]
rs11484715	0.96[ASN][1000 genomes]
rs11487462	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11487470	0.96[ASN][1000 genomes]
rs12059834	1.00[ASN][1000 genomes]
rs12061133	0.99[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12061172	0.93[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs12061265	1.00[ASN][1000 genomes]
rs12062457	0.96[ASN][1000 genomes]
rs12064443	0.96[ASN][1000 genomes]
rs12064759	0.96[ASN][1000 genomes]
rs12064870	0.96[ASN][1000 genomes]
rs12066443	1.00[ASN][1000 genomes]
rs12066458	0.96[ASN][1000 genomes]
rs12067725	0.96[ASN][1000 genomes]
rs12067756	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12068014	0.96[ASN][1000 genomes]
rs12069353	0.96[ASN][1000 genomes]
rs12069461	0.96[ASN][1000 genomes]
rs12069808	1.00[ASN][1000 genomes]
rs12070493	0.96[ASN][1000 genomes]
rs12071270	1.00[ASN][1000 genomes]
rs12071453	0.85[ASN][1000 genomes]
rs12071776	1.00[ASN][1000 genomes]
rs12072713	0.85[ASN][1000 genomes]
rs12072720	0.88[ASN][1000 genomes]
rs12073648	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12074130	0.85[ASN][1000 genomes]
rs12074382	1.00[ASN][1000 genomes]
rs12074477	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs12074718	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs12075769	1.00[ASN][1000 genomes]
rs12078470	1.00[ASN][1000 genomes]
rs12078559	1.00[ASN][1000 genomes]
rs12078696	0.96[ASN][1000 genomes]
rs12079258	0.96[ASN][1000 genomes]
rs12080062	1.00[ASN][1000 genomes]
rs12081545	0.96[ASN][1000 genomes]
rs12082397	0.85[ASN][1000 genomes]
rs12084177	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12084937	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12085406	0.96[ASN][1000 genomes]
rs12086122	0.81[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs12086185	0.96[ASN][1000 genomes]
rs12086373	0.85[ASN][1000 genomes]
rs12086473	1.00[ASN][1000 genomes]
rs12087715	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12088357	0.96[ASN][1000 genomes]
rs12088836	0.87[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs12089294	0.96[ASN][1000 genomes]
rs12089735	0.96[ASN][1000 genomes]
rs12091019	0.96[ASN][1000 genomes]
rs12091058	0.96[ASN][1000 genomes]
rs12091059	0.96[ASN][1000 genomes]
rs12092293	0.96[ASN][1000 genomes]
rs12092671	1.00[ASN][1000 genomes]
rs12093086	0.85[ASN][1000 genomes]
rs12093545	0.85[ASN][1000 genomes]
rs12094453	0.96[ASN][1000 genomes]
rs12094780	0.96[ASN][1000 genomes]
rs12095812	0.85[ASN][1000 genomes]
rs12095892	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12096616	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12097555	0.96[ASN][1000 genomes]
rs1480102	1.00[ASN][1000 genomes]
rs1480108	0.96[ASN][1000 genomes]
rs1600530	0.96[ASN][1000 genomes]
rs16844321	1.00[ASN][1000 genomes]
rs16844341	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16844389	0.96[ASN][1000 genomes]
rs16844455	0.96[ASN][1000 genomes]
rs16858965	0.85[ASN][1000 genomes]
rs1842335	0.96[ASN][1000 genomes]
rs2127558	1.00[ASN][1000 genomes]
rs2153246	1.00[ASN][1000 genomes]
rs2170110	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2449279	0.92[ASN][1000 genomes]
rs2449305	0.92[ASN][1000 genomes]
rs2449306	0.92[ASN][1000 genomes]
rs2456344	0.92[ASN][1000 genomes]
rs2456350	0.92[ASN][1000 genomes]
rs2456354	0.92[ASN][1000 genomes]
rs2501103	0.92[ASN][1000 genomes]
rs2501112	1.00[ASN][1000 genomes]
rs28793649	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28871966	1.00[ASN][1000 genomes]
rs3991375	0.96[ASN][1000 genomes]
rs4275419	1.00[ASN][1000 genomes]
rs55708629	0.92[ASN][1000 genomes]
rs56302122	0.92[ASN][1000 genomes]
rs57262741	1.00[ASN][1000 genomes]
rs59730777	1.00[ASN][1000 genomes]
rs60782238	1.00[ASN][1000 genomes]
rs61483735	1.00[ASN][1000 genomes]
rs6656178	1.00[ASN][1000 genomes]
rs6662177	0.93[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs6666025	1.00[ASN][1000 genomes]
rs6680233	0.92[ASN][1000 genomes]
rs6680659	1.00[ASN][1000 genomes]
rs6683197	1.00[ASN][1000 genomes]
rs6689287	0.87[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs6689608	1.00[ASN][1000 genomes]
rs6698942	1.00[ASN][1000 genomes]
rs6700281	0.81[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs6704159	1.00[ASN][1000 genomes]
rs74146611	0.92[ASN][1000 genomes]
rs74147131	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs74149426	0.85[ASN][1000 genomes]
rs74149428	0.85[ASN][1000 genomes]
rs74149429	0.81[ASN][1000 genomes]
rs74149436	0.92[ASN][1000 genomes]
rs7418261	1.00[ASN][1000 genomes]
rs7527885	0.81[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs7533311	1.00[ASN][1000 genomes]
rs7533616	0.92[ASN][1000 genomes]
rs7535962	1.00[ASN][1000 genomes]
rs7543666	0.96[ASN][1000 genomes]
rs7550540	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs769297	1.00[ASN][1000 genomes]
rs9725252	1.00[ASN][1000 genomes]
rs9919164	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9919334	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv873225	chr1:225162060-225373936	ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv549262	chr1:225191852-225319898	Weak transcription ZNF genes & repeats Enhancers Strong transcription Genic enhancers	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv549263	chr1:225202426-225319898	ZNF genes & repeats Weak transcription Enhancers Strong transcription Genic enhancers	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv998899	chr1:225210813-225496353	ZNF genes & repeats Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv945671	chr1:225242969-225311101	ZNF genes & repeats Weak transcription Enhancers Strong transcription Genic enhancers	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:225275600-225312600	Weak transcription	Ovary	ovary
2	chr1:225295000-225295400	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell

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