Variant report

Variant	rs2561028
Chromosome Location	chr19:52953642-52953643
allele	A/G
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	POLR2A	chr19:52949279-52954447	K562	blood:	n/a	n/a

Variant related genes	Relation type
ZNF578	TF binding region

Extended variants
information (count: 175 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:168)

rs_ID	r²[population]
rs10408608	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10410134	0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10853848	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10853849	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11084159	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11084160	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11084161	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11084162	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11084163	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1112889	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1115659	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1115660	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11879152	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12459176	0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12460429	0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1366257	0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1366258	0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1366259	0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1379639	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1428177	0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1428178	0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1428179	0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1428180	0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1457854	0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1457855	0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1457856	0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1457857	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1457858	0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1465558	0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1465559	0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1582914	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1617840	0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1651527	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1651532	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1651533	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1651534	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1651535	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1651536	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1651537	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1673892	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1673893	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1673894	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1673900	0.88[EUR][1000 genomes]
rs1673901	0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1673902	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1673903	0.89[ASN][1000 genomes]
rs1673904	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1673905	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1673906	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1673907	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1673908	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1673909	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1673910	0.88[ASN][1000 genomes]
rs1673911	0.88[ASN][1000 genomes]
rs1673912	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1673913	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1673914	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1673915	0.89[ASN][1000 genomes]
rs1817266	0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1840997	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1840998	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1864019	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1896640	0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1896641	0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1896642	0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1896644	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2042912	0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2099053	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2115101	0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2115103	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2168792	0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2434459	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2434461	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2446078	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2446079	0.90[ASN][1000 genomes]
rs2560997	0.92[ASN][1000 genomes]
rs2560998	0.84[ASN][1000 genomes]
rs2560999	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2561000	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2561002	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2561003	0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2561005	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2561006	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2561007	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2561008	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2561009	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2561010	0.86[ASN][1000 genomes]
rs2561011	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2561012	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2561013	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2561014	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2561023	0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2561024	0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2561025	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2561026	0.99[ASN][1000 genomes]
rs2561027	0.95[ASN][1000 genomes]
rs2608487	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2608488	0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2608489	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2608491	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2608492	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2608493	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2608494	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2608495	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2608496	0.84[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs2608497	0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2608498	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2608499	0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2608500	0.87[ASN][1000 genomes]
rs2608501	0.88[ASN][1000 genomes]
rs2608502	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2608504	0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2608505	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2608506	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2608536	0.99[ASN][1000 genomes]
rs2608537	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2608541	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28451504	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2903895	0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs324092	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs324096	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs324103	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs324104	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs324106	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs324107	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs324113	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs324114	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs324115	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs324116	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs324117	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs324118	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35170850	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4340424	0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4404182	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4553728	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4801916	0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4802939	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4802944	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4802945	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4802949	0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4802950	0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4802951	0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4802952	0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4802953	0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6509636	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6509637	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6509638	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6509641	0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6509643	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7246597	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7247031	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7247289	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs72483966	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7252655	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8102815	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8110808	0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8110920	0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8182524	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs8182529	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs8182531	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs8182532	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs8182563	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs970555	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs970556	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs979156	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs979157	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs979158	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs979159	0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1066537	chr19:52794424-53044977	Active TSS ZNF genes & repeats Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
2	nsv544060	chr19:52794424-53044977	ZNF genes & repeats Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
3	esv2762048	chr19:52895166-52997571	Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv580026	chr19:52937100-53059872	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv1063648	chr19:52938131-53041119	ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	esv3415774	chr19:52938189-52970794	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv1057296	chr19:52950339-53396986	Weak transcription Active TSS ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:52953600-52956400	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum

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