Variant report

Variant	rs6859578
Chromosome Location	chr5:41404253-41404254
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 89 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:87)

rs_ID	r²[population]
rs10044440	0.86[ASN][1000 genomes]
rs10053633	0.90[ASN][1000 genomes]
rs10055126	0.90[ASN][1000 genomes]
rs10068649	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10071445	0.89[ASN][1000 genomes]
rs10078334	1.00[CHB][hapmap];0.97[CHD][hapmap];0.83[JPT][hapmap];0.89[ASN][1000 genomes]
rs1037690	1.00[CHB][hapmap];0.97[CHD][hapmap];0.87[JPT][hapmap];0.88[ASN][1000 genomes]
rs10462017	0.82[CEU][hapmap]
rs10512774	0.82[CEU][hapmap]
rs10512775	0.82[CEU][hapmap]
rs10805659	1.00[CHB][hapmap];0.95[CHD][hapmap];0.83[JPT][hapmap];0.85[ASN][1000 genomes]
rs11737958	0.82[CEU][hapmap]
rs11740787	0.82[CEU][hapmap]
rs11744499	0.82[CEU][hapmap]
rs11747859	0.82[CEU][hapmap]
rs13166710	0.89[ASN][1000 genomes]
rs1350299	1.00[CHB][hapmap];0.95[CHD][hapmap];0.83[JPT][hapmap];0.86[ASN][1000 genomes]
rs1373639	0.82[CEU][hapmap]
rs1380996	1.00[CHB][hapmap];0.97[CHD][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs1460953	0.82[CEU][hapmap]
rs1460955	1.00[CHB][hapmap];0.83[JPT][hapmap];0.89[ASN][1000 genomes]
rs160966	0.89[ASN][1000 genomes]
rs161086	1.00[CEU][hapmap];0.89[CHB][hapmap];0.91[JPT][hapmap];0.90[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs161087	0.94[ASN][1000 genomes]
rs1645060	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs167627	0.89[ASN][1000 genomes]
rs167628	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16871219	0.82[CEU][hapmap]
rs16871220	0.82[CEU][hapmap]
rs16871222	0.82[CEU][hapmap];0.81[MEX][hapmap]
rs16871258	0.82[CEU][hapmap]
rs16871269	0.82[CEU][hapmap];0.81[MEX][hapmap]
rs1904178	0.82[CEU][hapmap];0.81[MEX][hapmap]
rs2054445	0.82[CEU][hapmap]
rs2161542	0.82[CEU][hapmap]
rs223080	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.82[MEX][hapmap];0.90[TSI][hapmap];0.92[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs2329602	0.82[CEU][hapmap]
rs2329604	0.82[CEU][hapmap]
rs2329671	0.82[CEU][hapmap];0.81[MEX][hapmap]
rs2860000	0.82[CEU][hapmap]
rs2925729	1.00[CEU][hapmap];0.84[CHB][hapmap];0.91[JPT][hapmap];0.80[EUR][1000 genomes]
rs2925731	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];0.90[TSI][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs318836	1.00[CHB][hapmap];0.91[JPT][hapmap];0.89[ASN][1000 genomes]
rs318837	1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs318838	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs318839	0.94[ASN][1000 genomes]
rs318840	0.89[ASN][1000 genomes]
rs318841	1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs318842	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs318843	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs318844	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs318845	1.00[CHB][hapmap];0.90[CHD][hapmap];0.91[JPT][hapmap];0.93[ASN][1000 genomes]
rs318846	1.00[CHB][hapmap];0.91[JPT][hapmap];0.94[ASN][1000 genomes]
rs318847	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs318849	0.94[ASN][1000 genomes]
rs319013	1.00[CHB][hapmap];0.97[CHD][hapmap];0.83[JPT][hapmap];0.90[ASN][1000 genomes]
rs319014	1.00[CHB][hapmap];0.83[JPT][hapmap];0.89[ASN][1000 genomes]
rs319015	0.93[ASN][1000 genomes]
rs320622	0.92[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs320623	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4051076	0.90[ASN][1000 genomes]
rs4380706	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4380707	1.00[CHB][hapmap];0.97[CHD][hapmap];0.89[GIH][hapmap];0.91[JPT][hapmap];0.97[ASN][1000 genomes]
rs4383755	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4403222	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4438921	0.90[ASN][1000 genomes]
rs4557464	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4559042	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4957153	0.82[CEU][hapmap]
rs545358	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs730354	1.00[CHB][hapmap];0.93[CHD][hapmap];0.88[ASN][1000 genomes]
rs765176	0.82[CEU][hapmap]
rs765177	0.82[CEU][hapmap];0.81[MEX][hapmap]
rs7700406	1.00[CHB][hapmap];0.80[ASN][1000 genomes]
rs7701760	0.82[CEU][hapmap]
rs7703589	0.82[CEU][hapmap]
rs7704046	0.82[CEU][hapmap];0.81[MEX][hapmap]
rs7713441	0.97[ASN][1000 genomes]
rs7718012	0.90[ASN][1000 genomes]
rs7722338	1.00[CEU][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7723649	0.82[CEU][hapmap]
rs7727658	0.82[CEU][hapmap]
rs7729454	0.82[CEU][hapmap];0.81[MEX][hapmap]
rs7735604	0.82[CEU][hapmap]
rs921946	0.95[CHB][hapmap];0.87[ASN][1000 genomes]
rs9292806	1.00[CHB][hapmap];0.95[CHD][hapmap];0.83[JPT][hapmap];0.86[ASN][1000 genomes]
rs9654393	1.00[CHB][hapmap];0.95[CHD][hapmap];0.83[JPT][hapmap];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1851387	chr5:41336050-41423631	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
2	nsv1024631	chr5:41341979-41427953	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:41389800-41409000	Weak transcription	Ovary	ovary
2	chr5:41392400-41409400	Weak transcription	Right Ventricle	heart
3	chr5:41392600-41408400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr5:41397600-41406600	Weak transcription	Left Ventricle	heart
5	chr5:41400800-41406200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr5:41402800-41406000	Enhancers	A549	lung
7	chr5:41403400-41404800	Weak transcription	Fetal Intestine Large	intestine
8	chr5:41404000-41412000	Enhancers	Fetal Heart	heart

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