Variant report

Variant	rs1861308
Chromosome Location	chr2:40943879-40943880
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 94 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs1003618	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10177056	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10178374	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10178666	0.94[EUR][1000 genomes]
rs10180556	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10469903	0.87[AMR][1000 genomes]
rs10469904	0.84[AMR][1000 genomes]
rs11124758	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1119785	0.87[AMR][1000 genomes]
rs12475258	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12478853	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12619861	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13016243	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1379037	0.88[AMR][1000 genomes]
rs1456578	0.87[AMR][1000 genomes]
rs1456581	0.84[AMR][1000 genomes]
rs1456582	0.80[AMR][1000 genomes]
rs1456588	0.92[AMR][1000 genomes]
rs1456589	0.87[AMR][1000 genomes]
rs1468799	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs173799	0.94[EUR][1000 genomes]
rs173802	0.91[EUR][1000 genomes]
rs173803	0.94[EUR][1000 genomes]
rs173805	0.94[EUR][1000 genomes]
rs1840756	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1990616	0.80[AMR][1000 genomes]
rs1990618	0.94[EUR][1000 genomes]
rs2019379	0.87[AMR][1000 genomes]
rs2019768	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2192821	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2216035	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2216040	0.94[EUR][1000 genomes]
rs2216042	0.87[AMR][1000 genomes]
rs2373898	0.94[EUR][1000 genomes]
rs2373904	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2373936	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3922281	0.94[EUR][1000 genomes]
rs42784	0.94[EUR][1000 genomes]
rs4539838	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4952636	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4952642	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6544354	1.00[CEU][hapmap];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6709044	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6709173	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6713163	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6728651	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6743662	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6750481	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6753289	1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs67806170	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7369131	1.00[AMR][1000 genomes]
rs7556714	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs756376	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7564682	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7587020	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7588298	0.92[AMR][1000 genomes]
rs7591373	0.96[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7591414	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7596941	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7605586	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9309059	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs993867	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:32 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv873911	chr2:40423454-41161464	ZNF genes & repeats Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv873917	chr2:40710953-41015998	Enhancers Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv528865	chr2:40805427-41218810	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv873925	chr2:40835285-40966719	Enhancers Bivalent/Poised TSS Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
5	nsv873926	chr2:40835285-40986860	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv873927	chr2:40835285-41034225	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv470455	chr2:40835285-41059164	Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv873928	chr2:40835285-41075134	Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	nsv873929	chr2:40835285-41180690	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
10	nsv873931	chr2:40869165-40966719	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
11	nsv456441	chr2:40882402-41064824	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
12	nsv581514	chr2:40882402-41064824	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
13	nsv456452	chr2:40890416-40989061	Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
14	nsv581515	chr2:40890416-40989061	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
15	esv3584751	chr2:40916853-40952073	Enhancers Active TSS Weak transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a
16	esv2754698	chr2:40922098-40949606	Flanking Active TSS Active TSS Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	n/a
17	esv34871	chr2:40922098-40951667	Weak transcription Enhancers Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a
18	esv2755242	chr2:40922098-40951667	Weak transcription Enhancers Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a
19	esv3584750	chr2:40926091-40949606	Enhancers Flanking Active TSS Weak transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a
20	esv3457577	chr2:40926899-40949434	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a
21	esv3457576	chr2:40926923-40949434	Weak transcription Enhancers Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a
22	esv3457575	chr2:40926941-40949439	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a
23	nsv829008	chr2:40927002-40949224	Enhancers Flanking Active TSS Weak transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a
24	nsv829019	chr2:40927002-40949304	Enhancers Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a
25	esv3457578	chr2:40927064-40949267	Enhancers Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a
26	nsv1004050	chr2:40927363-40949606	Enhancers Active TSS Weak transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a
27	nsv441754	chr2:40927375-40949602	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a
28	esv3584749	chr2:40927375-40949606	Flanking Active TSS Enhancers Active TSS Weak transcription	Chromatin interactive region	n/a	inside rSNPs	n/a
29	nsv514064	chr2:40929032-40949156	Weak transcription Enhancers Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a
30	nsv961752	chr2:40929037-40950223	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a
31	esv2756918	chr2:40930721-40966719	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
32	esv2759045	chr2:40930721-40966719	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:40940000-40944200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
2	chr2:40943200-40947000	Weak transcription	Aorta	Aorta
3	chr2:40943400-40944400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr2:40943400-40944600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr2:40943600-40944200	Enhancers	Muscle Satellite Cultured Cells	--
6	chr2:40943600-40944200	Weak transcription	HMEC	breast
7	chr2:40943600-40944200	Weak transcription	HSMM	muscle
8	chr2:40943600-40944200	Weak transcription	HSMMtube	muscle
9	chr2:40943800-40944800	Enhancers	NHEK	skin

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