Variant report

Variant	rs12067756
Chromosome Location	chr1:225301055-225301056
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	STAT3	chr1:225300949-225301116	MCF10A-Er-Src	breast:	n/a	chr1:225301058-225301069
2	FOXA2	chr1:225301052-225301290	HepG2	liver:	n/a	n/a
3	FOXA1	chr1:225301003-225301282	HepG2	liver:	n/a	n/a

Variant related genes	Relation type
DNAH14	TF binding region

Extended variants
information (count: 159 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:154)

rs_ID	r²[population]
rs10399821	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs10399941	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs10495231	0.95[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs10799293	1.00[ASN][1000 genomes]
rs10915744	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10915747	1.00[CHB][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs10915748	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10915749	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10915750	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10915751	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs10915757	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10915758	0.86[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs10915761	0.90[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs10915762	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs10915763	0.93[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs10915778	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10915780	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.95[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10915781	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]
rs10915785	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10915786	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs10915788	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10915789	1.00[CHB][hapmap];1.00[JPT][hapmap];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	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs11484699	0.96[ASN][1000 genomes]
rs11484714	0.96[ASN][1000 genomes]
rs11484715	0.96[ASN][1000 genomes]
rs11487462	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11487470	0.96[ASN][1000 genomes]
rs12059834	1.00[ASN][1000 genomes]
rs12061133	0.81[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12061172	0.92[ASN][1000 genomes]
rs12061265	1.00[ASN][1000 genomes]
rs12062457	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs12062461	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12064443	0.96[ASN][1000 genomes]
rs12064759	0.96[ASN][1000 genomes]
rs12064870	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs12066443	1.00[ASN][1000 genomes]
rs12066458	0.96[ASN][1000 genomes]
rs12067725	0.96[ASN][1000 genomes]
rs12068014	0.96[ASN][1000 genomes]
rs12069353	0.96[ASN][1000 genomes]
rs12069461	0.96[ASN][1000 genomes]
rs12069730	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12069808	1.00[ASN][1000 genomes]
rs12070493	0.96[ASN][1000 genomes]
rs12071270	1.00[ASN][1000 genomes]
rs12071453	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs12071776	1.00[ASN][1000 genomes]
rs12072713	0.86[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs12072720	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs12073050	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs12073648	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12074130	0.85[ASN][1000 genomes]
rs12074382	1.00[ASN][1000 genomes]
rs12074477	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs12074718	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs12075769	1.00[ASN][1000 genomes]
rs12078470	0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12078559	0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12078696	0.96[ASN][1000 genomes]
rs12079258	0.96[ASN][1000 genomes]
rs12080062	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12081545	0.96[ASN][1000 genomes]
rs12082397	0.85[ASN][1000 genomes]
rs12082837	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12084177	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12084937	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12085406	0.96[ASN][1000 genomes]
rs12086122	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs12086185	0.96[ASN][1000 genomes]
rs12086373	0.85[ASN][1000 genomes]
rs12086473	1.00[ASN][1000 genomes]
rs12087715	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12088357	0.96[ASN][1000 genomes]
rs12088836	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	0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12093086	0.85[ASN][1000 genomes]
rs12093545	0.86[CHB][hapmap];0.85[ASN][1000 genomes]
rs12094453	0.96[ASN][1000 genomes]
rs12094780	0.96[ASN][1000 genomes]
rs12095812	0.85[ASN][1000 genomes]
rs12095892	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12096616	0.97[AFR][1000 genomes];1.00[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]
rs1482278	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1600530	0.96[ASN][1000 genomes]
rs16844321	1.00[ASN][1000 genomes]
rs16844341	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16844389	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs16844455	0.96[ASN][1000 genomes]
rs16858965	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs1842335	0.96[ASN][1000 genomes]
rs2127558	1.00[ASN][1000 genomes]
rs2153246	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2170110	0.83[AFR][1000 genomes];0.85[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	0.80[AFR][1000 genomes];0.85[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	0.95[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs56302122	0.92[ASN][1000 genomes]
rs57262741	0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs59730777	1.00[ASN][1000 genomes]
rs60782238	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61483735	1.00[ASN][1000 genomes]
rs6656178	1.00[ASN][1000 genomes]
rs6662177	0.92[ASN][1000 genomes]
rs6666025	0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs6680233	0.95[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs6680659	1.00[ASN][1000 genomes]
rs6683197	1.00[ASN][1000 genomes]
rs6689287	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs6689608	1.00[ASN][1000 genomes]
rs6698942	1.00[ASN][1000 genomes]
rs6700281	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs6704159	1.00[ASN][1000 genomes]
rs74146611	0.95[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs74147131	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs74149426	0.85[ASN][1000 genomes]
rs74149428	0.85[ASN][1000 genomes]
rs74149429	0.86[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs74149436	0.92[ASN][1000 genomes]
rs7418261	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7527885	1.00[CHB][hapmap];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	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs769297	1.00[ASN][1000 genomes]
rs9725252	1.00[ASN][1000 genomes]
rs9919164	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9919334	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:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:225275600-225312600	Weak transcription	Ovary	ovary
2	chr1:225298000-225311800	Weak transcription	Primary hematopoietic stem cells	blood
3	chr1:225299800-225314200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
4	chr1:225300400-225311800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr1:225300600-225301800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr1:225300800-225301800	Enhancers	Pancreas	Pancrea
7	chr1:225301000-225301200	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr1:225301000-225301400	Enhancers	Gastric	stomach

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