Variant report

Variant	rs2802531
Chromosome Location	chr1:98545954-98545955
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:98543496..98545967-chr1:98546001..98547800,2	MCF-7	breast:

Extended variants
information (count: 156 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:148)

rs_ID	r²[population]
rs10747495	0.93[ASN][1000 genomes]
rs10747496	0.93[ASN][1000 genomes]
rs10783082	0.93[ASN][1000 genomes]
rs10875121	0.84[ASN][1000 genomes]
rs10875125	0.93[ASN][1000 genomes]
rs11165935	0.84[ASN][1000 genomes]
rs11165937	0.84[ASN][1000 genomes]
rs1198571	0.93[ASN][1000 genomes]
rs1198572	0.93[ASN][1000 genomes]
rs1198573	0.93[ASN][1000 genomes]
rs1198574	0.93[ASN][1000 genomes]
rs1198575	1.00[ASN][1000 genomes]
rs1198576	1.00[ASN][1000 genomes]
rs1198577	1.00[ASN][1000 genomes]
rs1198578	1.00[ASN][1000 genomes]
rs1198579	1.00[ASN][1000 genomes]
rs1198580	1.00[ASN][1000 genomes]
rs1198581	1.00[ASN][1000 genomes]
rs1198582	1.00[ASN][1000 genomes]
rs1198583	1.00[ASN][1000 genomes]
rs1198588	1.00[ASN][1000 genomes]
rs1198589	1.00[ASN][1000 genomes]
rs1198590	1.00[ASN][1000 genomes]
rs1198591	1.00[ASN][1000 genomes]
rs1198592	1.00[ASN][1000 genomes]
rs1198593	1.00[ASN][1000 genomes]
rs1198594	1.00[ASN][1000 genomes]
rs1198596	1.00[ASN][1000 genomes]
rs1198598	1.00[ASN][1000 genomes]
rs1198600	1.00[ASN][1000 genomes]
rs1211661	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1622611	1.00[ASN][1000 genomes]
rs1628294	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1702291	1.00[ASN][1000 genomes]
rs1702292	1.00[ASN][1000 genomes]
rs1702293	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1702294	0.93[ASN][1000 genomes]
rs1782810	0.93[ASN][1000 genomes]
rs1782811	0.93[ASN][1000 genomes]
rs1782812	1.00[ASN][1000 genomes]
rs1782813	0.93[ASN][1000 genomes]
rs1782815	0.93[ASN][1000 genomes]
rs1782818	1.00[ASN][1000 genomes]
rs1892549	0.93[ASN][1000 genomes]
rs1892550	0.93[ASN][1000 genomes]
rs1892551	0.93[ASN][1000 genomes]
rs1892552	0.93[ASN][1000 genomes]
rs1938558	0.93[ASN][1000 genomes]
rs1938559	0.93[ASN][1000 genomes]
rs1938560	0.93[ASN][1000 genomes]
rs1938561	0.93[ASN][1000 genomes]
rs1938562	0.93[ASN][1000 genomes]
rs1938563	0.80[ASN][1000 genomes]
rs1938564	0.93[ASN][1000 genomes]
rs1938565	0.93[ASN][1000 genomes]
rs1938566	0.86[ASN][1000 genomes]
rs1938567	0.93[ASN][1000 genomes]
rs1938568	0.93[ASN][1000 genomes]
rs1938569	0.93[ASN][1000 genomes]
rs1938571	0.93[ASN][1000 genomes]
rs1938572	0.81[ASN][1000 genomes]
rs2022864	0.87[ASN][1000 genomes]
rs2022865	0.93[ASN][1000 genomes]
rs2154402	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2154403	0.93[ASN][1000 genomes]
rs2391873	0.93[ASN][1000 genomes]
rs2391902	0.93[ASN][1000 genomes]
rs2391903	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2391904	0.93[ASN][1000 genomes]
rs2391905	0.90[ASN][1000 genomes]
rs2660298	1.00[ASN][1000 genomes]
rs2660299	1.00[ASN][1000 genomes]
rs2660300	1.00[ASN][1000 genomes]
rs2660301	1.00[ASN][1000 genomes]
rs2660303	0.82[EUR][1000 genomes]
rs2660304	0.93[ASN][1000 genomes]
rs2802525	1.00[ASN][1000 genomes]
rs2802529	1.00[ASN][1000 genomes]
rs2802530	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2802532	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2802533	1.00[ASN][1000 genomes]
rs2802535	0.90[ASN][1000 genomes]
rs2802536	1.00[ASN][1000 genomes]
rs28582591	0.84[ASN][1000 genomes]
rs28641479	0.84[ASN][1000 genomes]
rs2893376	0.93[ASN][1000 genomes]
rs41285694	0.87[ASN][1000 genomes]
rs4245673	0.93[ASN][1000 genomes]
rs4246516	0.84[ASN][1000 genomes]
rs4292998	0.93[ASN][1000 genomes]
rs4411173	0.93[ASN][1000 genomes]
rs4447033	0.80[ASN][1000 genomes]
rs4477335	0.93[ASN][1000 genomes]
rs4480407	0.93[ASN][1000 genomes]
rs45522136	0.83[ASN][1000 genomes]
rs4573558	0.93[ASN][1000 genomes]
rs4584446	0.93[ASN][1000 genomes]
rs4634961	0.93[ASN][1000 genomes]
rs4950117	0.93[ASN][1000 genomes]
rs4950118	0.93[ASN][1000 genomes]
rs4950119	0.93[ASN][1000 genomes]
rs4950120	0.93[ASN][1000 genomes]
rs5005705	0.93[ASN][1000 genomes]
rs61785881	0.84[ASN][1000 genomes]
rs61785883	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs61785886	0.90[ASN][1000 genomes]
rs61785887	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs61785888	0.93[ASN][1000 genomes]
rs61785889	1.00[AFR][1000 genomes]
rs61785940	1.00[AFR][1000 genomes]
rs61786696	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61786697	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61787783	1.00[AFR][1000 genomes]
rs61787824	1.00[AFR][1000 genomes]
rs61787827	1.00[AFR][1000 genomes]
rs61787828	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs61787829	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs61787830	0.84[AMR][1000 genomes]
rs61789073	1.00[AFR][1000 genomes]
rs61789075	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs61789077	0.84[ASN][1000 genomes]
rs61789078	0.84[ASN][1000 genomes]
rs61789079	0.84[ASN][1000 genomes]
rs61789082	0.84[ASN][1000 genomes]
rs72963738	0.84[ASN][1000 genomes]
rs9285628	0.84[ASN][1000 genomes]
rs9324379	0.84[ASN][1000 genomes]
rs9324380	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9324381	0.93[ASN][1000 genomes]
rs9324382	0.93[ASN][1000 genomes]
rs9324383	0.93[ASN][1000 genomes]
rs9324384	0.93[ASN][1000 genomes]
rs9324385	0.93[ASN][1000 genomes]
rs9324386	0.93[ASN][1000 genomes]
rs9324387	0.93[ASN][1000 genomes]
rs9324388	0.93[ASN][1000 genomes]
rs9324389	0.93[ASN][1000 genomes]
rs9440288	0.93[ASN][1000 genomes]
rs9440293	0.93[ASN][1000 genomes]
rs9440393	0.93[ASN][1000 genomes]
rs9658841	0.93[ASN][1000 genomes]
rs9659380	0.84[ASN][1000 genomes]
rs9659624	0.93[ASN][1000 genomes]
rs9659996	0.87[ASN][1000 genomes]
rs9661157	0.93[ASN][1000 genomes]
rs9724773	0.93[ASN][1000 genomes]
rs9725319	0.93[ASN][1000 genomes]
rs9727941	0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1012958	chr1:98081528-98864746	Weak transcription Enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv871625	chr1:98165091-98564736	Weak transcription Bivalent/Poised TSS Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
3	nsv1009621	chr1:98435638-98599284	Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	20 gene(s)	inside rSNPs	diseases
4	nsv871230	chr1:98436232-98564736	Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	20 gene(s)	inside rSNPs	diseases
5	nsv470729	chr1:98461443-98564736	Bivalent/Poised TSS Flanking Active TSS Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
6	nsv546874	chr1:98461443-98564736	Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
7	nsv830736	chr1:98488491-98663726	Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases
8	nsv432531	chr1:98524979-98604179	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:98540800-98549400	Weak transcription	HUES48 Cell Line	embryonic stem cell
2	chr1:98543800-98548800	Weak transcription	NHLF	lung
3	chr1:98543800-98549200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr1:98543800-98550800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr1:98544400-98550000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr1:98544400-98550400	Weak transcription	NHDF-Ad	bronchial
7	chr1:98544400-98551400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr1:98544600-98552600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr1:98545800-98547000	Weak transcription	HUVEC	blood vessel

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