Variant report

Variant	rs3102105
Chromosome Location	chr1:225170291-225170292
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 207 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:202)

rs_ID	r²[population]
rs10399959	1.00[EUR][1000 genomes]
rs10495232	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1078794	1.00[EUR][1000 genomes]
rs10915724	1.00[EUR][1000 genomes]
rs10915732	1.00[EUR][1000 genomes]
rs11805350	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12059834	1.00[EUR][1000 genomes]
rs12061265	1.00[EUR][1000 genomes]
rs12066443	1.00[EUR][1000 genomes]
rs12069808	1.00[EUR][1000 genomes]
rs12071270	1.00[EUR][1000 genomes]
rs12071776	1.00[EUR][1000 genomes]
rs12074382	1.00[EUR][1000 genomes]
rs12075769	1.00[EUR][1000 genomes]
rs12079808	1.00[EUR][1000 genomes]
rs12080062	1.00[EUR][1000 genomes]
rs12086473	1.00[EUR][1000 genomes]
rs12097593	1.00[EUR][1000 genomes]
rs12239937	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13376360	1.00[EUR][1000 genomes]
rs1395115	1.00[EUR][1000 genomes]
rs1480102	1.00[EUR][1000 genomes]
rs1580956	1.00[EUR][1000 genomes]
rs16844321	1.00[EUR][1000 genomes]
rs16844324	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16844328	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16844331	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16844347	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16844357	0.88[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16844379	1.00[MEX][hapmap]
rs16854471	1.00[EUR][1000 genomes]
rs16855953	1.00[EUR][1000 genomes]
rs16856828	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2127558	1.00[EUR][1000 genomes]
rs2153246	1.00[EUR][1000 genomes]
rs2244108	1.00[EUR][1000 genomes]
rs2244109	1.00[EUR][1000 genomes]
rs2244198	1.00[EUR][1000 genomes]
rs2245097	1.00[EUR][1000 genomes]
rs2254430	1.00[EUR][1000 genomes]
rs2449262	1.00[EUR][1000 genomes]
rs2449264	1.00[EUR][1000 genomes]
rs2449265	1.00[EUR][1000 genomes]
rs2449267	1.00[EUR][1000 genomes]
rs2449268	1.00[EUR][1000 genomes]
rs2449270	1.00[EUR][1000 genomes]
rs2449271	1.00[EUR][1000 genomes]
rs2449272	1.00[EUR][1000 genomes]
rs2449275	1.00[EUR][1000 genomes]
rs2449277	1.00[EUR][1000 genomes]
rs2449278	1.00[EUR][1000 genomes]
rs2449279	1.00[EUR][1000 genomes]
rs2449283	1.00[EUR][1000 genomes]
rs2449284	1.00[EUR][1000 genomes]
rs2449286	1.00[EUR][1000 genomes]
rs2449288	1.00[EUR][1000 genomes]
rs2449289	1.00[EUR][1000 genomes]
rs2449290	1.00[EUR][1000 genomes]
rs2449294	1.00[EUR][1000 genomes]
rs2449305	1.00[EUR][1000 genomes]
rs2449306	1.00[EUR][1000 genomes]
rs2449309	1.00[EUR][1000 genomes]
rs2449312	0.85[YRI][hapmap];1.00[EUR][1000 genomes]
rs2449314	1.00[EUR][1000 genomes]
rs2449317	1.00[EUR][1000 genomes]
rs2449319	1.00[EUR][1000 genomes]
rs2449321	1.00[EUR][1000 genomes]
rs2449323	1.00[EUR][1000 genomes]
rs2449324	1.00[EUR][1000 genomes]
rs2456338	1.00[EUR][1000 genomes]
rs2456343	1.00[EUR][1000 genomes]
rs2456344	1.00[EUR][1000 genomes]
rs2456346	1.00[EUR][1000 genomes]
rs2456350	1.00[EUR][1000 genomes]
rs2456352	1.00[EUR][1000 genomes]
rs2456354	1.00[EUR][1000 genomes]
rs2489299	1.00[EUR][1000 genomes]
rs2489305	1.00[EUR][1000 genomes]
rs2489307	1.00[EUR][1000 genomes]
rs2489309	1.00[EUR][1000 genomes]
rs2489315	1.00[EUR][1000 genomes]
rs2489316	1.00[EUR][1000 genomes]
rs2489317	1.00[EUR][1000 genomes]
rs2489318	1.00[EUR][1000 genomes]
rs2489319	1.00[EUR][1000 genomes]
rs2489321	1.00[EUR][1000 genomes]
rs2489323	0.88[YRI][hapmap];1.00[EUR][1000 genomes]
rs2489326	1.00[EUR][1000 genomes]
rs2489329	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2489331	1.00[EUR][1000 genomes]
rs2489333	1.00[EUR][1000 genomes]
rs2489334	1.00[EUR][1000 genomes]
rs2489335	1.00[EUR][1000 genomes]
rs2489336	1.00[EUR][1000 genomes]
rs2489339	1.00[EUR][1000 genomes]
rs2489340	1.00[EUR][1000 genomes]
rs2489342	1.00[EUR][1000 genomes]
rs2489345	1.00[EUR][1000 genomes]
rs2489347	0.88[YRI][hapmap];1.00[EUR][1000 genomes]
rs2489349	0.88[YRI][hapmap];1.00[EUR][1000 genomes]
rs2489350	1.00[EUR][1000 genomes]
rs2489351	1.00[EUR][1000 genomes]
rs2489354	1.00[EUR][1000 genomes]
rs2489356	1.00[EUR][1000 genomes]
rs2489357	1.00[EUR][1000 genomes]
rs2489358	1.00[EUR][1000 genomes]
rs2489359	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2489360	1.00[EUR][1000 genomes]
rs2501065	1.00[EUR][1000 genomes]
rs2501074	1.00[EUR][1000 genomes]
rs2501076	1.00[EUR][1000 genomes]
rs2501077	1.00[EUR][1000 genomes]
rs2501079	1.00[EUR][1000 genomes]
rs2501088	1.00[EUR][1000 genomes]
rs2501103	1.00[EUR][1000 genomes]
rs2501104	1.00[EUR][1000 genomes]
rs2501112	1.00[EUR][1000 genomes]
rs2501113	1.00[EUR][1000 genomes]
rs2501117	1.00[EUR][1000 genomes]
rs2501121	1.00[EUR][1000 genomes]
rs2501124	1.00[EUR][1000 genomes]
rs2501128	0.81[YRI][hapmap];1.00[EUR][1000 genomes]
rs2501136	1.00[EUR][1000 genomes]
rs2501137	1.00[EUR][1000 genomes]
rs2501142	1.00[EUR][1000 genomes]
rs2501144	1.00[EUR][1000 genomes]
rs2501148	1.00[EUR][1000 genomes]
rs2501150	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2501152	0.85[YRI][hapmap];1.00[EUR][1000 genomes]
rs2501157	0.81[YRI][hapmap];1.00[EUR][1000 genomes]
rs2516334	1.00[EUR][1000 genomes]
rs2662910	1.00[EUR][1000 genomes]
rs2662911	1.00[EUR][1000 genomes]
rs2662913	1.00[EUR][1000 genomes]
rs2802546	1.00[EUR][1000 genomes]
rs2802547	1.00[EUR][1000 genomes]
rs2802567	1.00[EUR][1000 genomes]
rs2802736	1.00[EUR][1000 genomes]
rs28789844	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28871966	1.00[EUR][1000 genomes]
rs2929627	1.00[EUR][1000 genomes]
rs2929629	1.00[EUR][1000 genomes]
rs2929632	0.81[YRI][hapmap];1.00[EUR][1000 genomes]
rs3991375	1.00[EUR][1000 genomes]
rs4121159	1.00[EUR][1000 genomes]
rs4256778	1.00[EUR][1000 genomes]
rs4275419	1.00[EUR][1000 genomes]
rs4475714	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4639722	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58205526	1.00[EUR][1000 genomes]
rs58355180	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58651151	1.00[EUR][1000 genomes]
rs58823550	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59730608	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59730777	1.00[EUR][1000 genomes]
rs59839860	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60428528	1.00[EUR][1000 genomes]
rs60434067	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60727542	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61269802	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61329501	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61483735	1.00[EUR][1000 genomes]
rs6426164	1.00[EUR][1000 genomes]
rs6656178	1.00[EUR][1000 genomes]
rs6666664	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6670335	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6673779	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6675157	1.00[EUR][1000 genomes]
rs6675162	1.00[EUR][1000 genomes]
rs6680659	1.00[EUR][1000 genomes]
rs6683197	1.00[EUR][1000 genomes]
rs6689608	1.00[EUR][1000 genomes]
rs6693680	1.00[EUR][1000 genomes]
rs6694400	1.00[EUR][1000 genomes]
rs6698293	1.00[EUR][1000 genomes]
rs6698942	1.00[EUR][1000 genomes]
rs6699883	1.00[EUR][1000 genomes]
rs73129804	1.00[EUR][1000 genomes]
rs7418261	1.00[EUR][1000 genomes]
rs7515136	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7523371	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7524227	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7525497	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7526764	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7533311	1.00[EUR][1000 genomes]
rs7533415	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7535962	1.00[EUR][1000 genomes]
rs7536912	1.00[EUR][1000 genomes]
rs7537947	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7544960	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7550589	1.00[EUR][1000 genomes]
rs7555397	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs769297	1.00[EUR][1000 genomes]
rs9286991	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9426101	1.00[EUR][1000 genomes]
rs9426103	1.00[EUR][1000 genomes]
rs9426104	1.00[EUR][1000 genomes]
rs9426147	1.00[EUR][1000 genomes]
rs9426156	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9426159	1.00[EUR][1000 genomes]
rs9660934	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9725252	1.00[EUR][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	esv2757773	chr1:225087924-225253274	Active TSS ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Strong transcription Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	esv2759001	chr1:225087924-225253274	Weak transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	esv3438976	chr1:225133567-225248753	Weak transcription Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	esv1804634	chr1:225137134-225206826	Weak transcription ZNF genes & repeats Strong transcription Active TSS Genic enhancers Enhancers Bivalent Enhancer Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	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

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:225150400-225171200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr1:225157200-225172200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr1:225157600-225201400	Weak transcription	Pancreas	Pancrea
4	chr1:225168600-225171000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr1:225170000-225170400	Flanking Active TSS	HepG2	liver
6	chr1:225170200-225170400	Flanking Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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