Variant report

Variant	rs6686286
Chromosome Location	chr1:152984562-152984563
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 120 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:109)

rs_ID	r²[population]
rs1015995	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1015996	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10399896	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10494285	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1055935	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10788850	0.81[EUR][1000 genomes]
rs10888523	0.81[ASN][1000 genomes]
rs11205149	0.81[EUR][1000 genomes]
rs11205151	0.81[EUR][1000 genomes]
rs11205160	0.85[ASN][1000 genomes]
rs1129654	0.81[EUR][1000 genomes]
rs1129655	0.80[EUR][1000 genomes]
rs1134220	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12046286	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1338178	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1338180	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1413848	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1413849	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1415959	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1415960	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1415961	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1415962	0.81[EUR][1000 genomes]
rs1415967	0.81[EUR][1000 genomes]
rs1415968	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1415970	0.81[EUR][1000 genomes]
rs1415971	0.81[EUR][1000 genomes]
rs1577962	0.81[EUR][1000 genomes]
rs1577963	0.81[EUR][1000 genomes]
rs1577964	0.81[EUR][1000 genomes]
rs1577965	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1611753	0.81[EUR][1000 genomes]
rs1611754	0.81[EUR][1000 genomes]
rs1611755	0.81[EUR][1000 genomes]
rs1611759	0.81[EUR][1000 genomes]
rs1611760	0.81[EUR][1000 genomes]
rs1970328	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1984197	0.81[EUR][1000 genomes]
rs1984198	0.81[EUR][1000 genomes]
rs1999886	0.80[EUR][1000 genomes]
rs2075739	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2225919	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2339486	0.83[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs2339488	0.84[AMR][1000 genomes]
rs2339489	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2339490	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2339491	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2339493	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2339494	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2339495	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2339496	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2879488	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2879489	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs3737867	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3753454	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3806219	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs3964619	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4240866	0.80[EUR][1000 genomes]
rs4240867	0.80[EUR][1000 genomes]
rs4240868	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4255332	0.81[EUR][1000 genomes]
rs4314835	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4319267	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4323653	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4388644	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4478766	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4568784	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4610954	0.85[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs4845329	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4845331	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4845332	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4845333	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4845334	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4845504	0.81[EUR][1000 genomes]
rs4845506	0.82[EUR][1000 genomes]
rs4845508	0.80[AMR][1000 genomes]
rs4845509	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4845517	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6587716	0.81[EUR][1000 genomes]
rs6587717	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6665527	0.81[EUR][1000 genomes]
rs6665575	0.81[EUR][1000 genomes]
rs6668215	0.81[EUR][1000 genomes]
rs6668311	0.81[EUR][1000 genomes]
rs6668696	0.81[EUR][1000 genomes]
rs6670614	0.81[EUR][1000 genomes]
rs6671414	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6671524	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6672735	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6678107	0.81[EUR][1000 genomes]
rs6679201	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6680624	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6684188	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6689609	0.83[EUR][1000 genomes]
rs6698820	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6704105	0.81[EUR][1000 genomes]
rs6704498	0.81[EUR][1000 genomes]
rs7521181	0.80[EUR][1000 genomes]
rs7529110	0.81[EUR][1000 genomes]
rs885096	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9325996	0.81[EUR][1000 genomes]
rs946097	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs946098	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs946099	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs946100	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs946101	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9659623	0.81[EUR][1000 genomes]
rs9919227	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9919276	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9919333	0.85[AMR][1000 genomes];0.84[EUR][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	nsv1013433	chr1:152619305-153262215	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	46 gene(s)	inside rSNPs	diseases
2	nsv535170	chr1:152619305-153262215	Enhancers Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	46 gene(s)	inside rSNPs	diseases
3	nsv1001834	chr1:152648853-153279143	Enhancers Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	44 gene(s)	inside rSNPs	diseases
4	nsv547899	chr1:152672005-153245082	Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	42 gene(s)	inside rSNPs	diseases
5	nsv831592	chr1:152815054-152997162	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
6	nsv1010488	chr1:152901263-153670972	Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	236 gene(s)	inside rSNPs	diseases
7	nsv535171	chr1:152901263-153670972	Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	236 gene(s)	inside rSNPs	diseases
8	nsv533877	chr1:152923645-153468131	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
9	nsv1003756	chr1:152944201-153044621	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
10	esv3416199	chr1:152957887-153005113	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
11	esv2316250	chr1:152984563-152984564	Weak transcription	n/a	n/a	n/a	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:152984000-152990400	Weak transcription	Esophagus	oesophagus

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