Variant report

Variant	rs16844455
Chromosome Location	chr1:225392081-225392082
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 145 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:134)

rs_ID	r²[population]
rs10399821	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10399941	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs10495231	0.89[ASN][1000 genomes]
rs10799293	0.96[ASN][1000 genomes]
rs10915758	0.81[ASN][1000 genomes]
rs10915761	0.89[ASN][1000 genomes]
rs10915762	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs10915763	0.89[ASN][1000 genomes]
rs10915778	0.96[ASN][1000 genomes]
rs10915780	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs10915781	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs10915785	0.96[ASN][1000 genomes]
rs10915786	0.93[ASN][1000 genomes]
rs10915788	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs10915789	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10915795	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10915799	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10915800	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10915801	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10915808	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11484699	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11484714	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11484715	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11487462	0.96[ASN][1000 genomes]
rs11487470	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12059834	0.96[ASN][1000 genomes]
rs12060040	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12061133	0.96[ASN][1000 genomes]
rs12061172	0.89[ASN][1000 genomes]
rs12061265	0.96[ASN][1000 genomes]
rs12062189	0.89[AFR][1000 genomes]
rs12062457	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12062461	0.96[ASN][1000 genomes]
rs12064443	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12064759	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12064870	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12066443	0.96[ASN][1000 genomes]
rs12066458	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12067725	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12067756	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs12068014	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12069353	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12069461	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12069730	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12069808	0.96[ASN][1000 genomes]
rs12070493	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12071270	0.96[ASN][1000 genomes]
rs12071776	0.96[ASN][1000 genomes]
rs12072713	0.81[ASN][1000 genomes]
rs12072720	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs12073648	0.96[ASN][1000 genomes]
rs12074382	0.96[ASN][1000 genomes]
rs12074477	0.88[ASN][1000 genomes]
rs12074718	0.92[ASN][1000 genomes]
rs12075769	0.96[ASN][1000 genomes]
rs12078470	0.96[ASN][1000 genomes]
rs12078559	0.96[ASN][1000 genomes]
rs12078696	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12079258	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12080062	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs12081545	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12082837	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12084177	0.96[ASN][1000 genomes]
rs12084937	0.96[ASN][1000 genomes]
rs12085406	1.00[ASN][1000 genomes]
rs12086185	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12086473	0.96[ASN][1000 genomes]
rs12087715	0.96[ASN][1000 genomes]
rs12088357	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12088836	0.89[ASN][1000 genomes]
rs12089294	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12089735	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12091019	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12091058	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12091059	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12092293	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12092671	0.96[ASN][1000 genomes]
rs12093086	0.81[ASN][1000 genomes]
rs12094453	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12094780	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12095892	0.96[ASN][1000 genomes]
rs12096616	0.96[ASN][1000 genomes]
rs12097555	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1480102	0.96[ASN][1000 genomes]
rs1480108	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1600530	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16844321	0.96[ASN][1000 genomes]
rs16844341	0.96[ASN][1000 genomes]
rs16844389	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1842335	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2127558	0.96[ASN][1000 genomes]
rs2153246	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs2170110	0.96[ASN][1000 genomes]
rs2449279	0.89[ASN][1000 genomes]
rs2449305	0.89[ASN][1000 genomes]
rs2449306	0.89[ASN][1000 genomes]
rs2456344	0.89[ASN][1000 genomes]
rs2456350	0.89[ASN][1000 genomes]
rs2456354	0.89[ASN][1000 genomes]
rs2501103	0.89[ASN][1000 genomes]
rs2501112	0.96[ASN][1000 genomes]
rs28793649	0.96[ASN][1000 genomes]
rs28871966	0.96[ASN][1000 genomes]
rs3991375	0.92[ASN][1000 genomes]
rs4275419	0.96[ASN][1000 genomes]
rs55708629	0.89[ASN][1000 genomes]
rs56302122	0.89[ASN][1000 genomes]
rs57262741	0.96[ASN][1000 genomes]
rs59730777	0.96[ASN][1000 genomes]
rs60782238	0.96[ASN][1000 genomes]
rs61483735	0.96[ASN][1000 genomes]
rs6656178	0.96[ASN][1000 genomes]
rs6662177	0.89[ASN][1000 genomes]
rs6666025	0.96[ASN][1000 genomes]
rs6680233	0.89[ASN][1000 genomes]
rs6680659	0.96[ASN][1000 genomes]
rs6683197	0.96[ASN][1000 genomes]
rs6689287	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs6689608	0.96[ASN][1000 genomes]
rs6698942	0.96[ASN][1000 genomes]
rs6704159	0.96[ASN][1000 genomes]
rs74146611	0.89[ASN][1000 genomes]
rs74147131	0.96[ASN][1000 genomes]
rs74149436	0.89[ASN][1000 genomes]
rs7418261	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs7533311	0.96[ASN][1000 genomes]
rs7533616	0.88[ASN][1000 genomes]
rs7535962	0.96[ASN][1000 genomes]
rs7543666	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7550540	0.96[ASN][1000 genomes]
rs769297	0.96[ASN][1000 genomes]
rs9725252	0.96[ASN][1000 genomes]
rs9919164	0.96[ASN][1000 genomes]
rs9919334	0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	nsv468205	chr1:225304971-225476025	Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv549264	chr1:225304971-225476025	ZNF genes & repeats Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv945672	chr1:225339532-225561349	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv873226	chr1:225347689-225555602	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv832703	chr1:225375953-225520216	ZNF genes & repeats Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv1014968	chr1:225389490-225459008	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases
8	nsv1005481	chr1:225389490-225462887	ZNF genes & repeats Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Strong transcription Active TSS	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases
9	nsv997904	chr1:225389490-225466637	Weak transcription Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
10	nsv1002430	chr1:225389490-225471683	Weak transcription ZNF genes & repeats Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
11	esv2762171	chr1:225390933-225463772	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Active TSS	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:225390800-225395600	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr1:225391400-225392800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr1:225391600-225395400	Weak transcription	Ovary	ovary

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