Variant report

Variant	rs1868090
Chromosome Location	chr2:46638563-46638564
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:46599672..46601854-chr2:46635973..46638690,2	K562	blood:
2	chr2:46636115..46638908-chr2:46687157..46689113,2	MCF-7	breast:
3	chr2:46634878..46637734-chr2:46638527..46641360,4	MCF-7	breast:

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs1105595	0.95[CHB][hapmap];0.91[CHD][hapmap];0.94[GIH][hapmap];0.86[JPT][hapmap];0.88[MEX][hapmap];0.95[ASN][1000 genomes]
rs11125078	0.82[CHB][hapmap];0.81[CHD][hapmap];0.94[MEX][hapmap]
rs12470939	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs12474961	1.00[CEU][hapmap];0.82[CHB][hapmap];0.91[YRI][hapmap];0.88[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs12475015	0.82[ASN][1000 genomes]
rs12612916	0.87[MEX][hapmap]
rs12615460	1.00[CEU][hapmap]
rs12619696	0.81[CHD][hapmap];0.86[MEX][hapmap]
rs12619754	0.88[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs12622818	1.00[CEU][hapmap];0.86[CHB][hapmap];0.86[CHD][hapmap];1.00[MEX][hapmap];0.84[ASN][1000 genomes]
rs12623342	0.82[EUR][1000 genomes]
rs1530623	1.00[CEU][hapmap];0.86[CHB][hapmap];0.86[CHD][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];0.91[YRI][hapmap];0.93[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs1551123	0.87[MEX][hapmap]
rs1562454	0.81[MEX][hapmap]
rs17035200	0.93[MEX][hapmap]
rs1868095	0.83[ASN][1000 genomes]
rs2053766	0.82[ASN][1000 genomes]
rs2121699	1.00[CEU][hapmap];0.82[CHB][hapmap];0.84[ASN][1000 genomes]
rs2166746	1.00[CEU][hapmap];0.86[CHB][hapmap];0.91[YRI][hapmap];0.93[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2276556	0.93[MEX][hapmap]
rs2881326	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs34405528	0.83[ASN][1000 genomes]
rs4145835	0.82[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs4952825	0.81[CHD][hapmap]
rs4952826	0.81[CHD][hapmap];0.94[MEX][hapmap]
rs4952827	0.83[YRI][hapmap]
rs4953363	1.00[CEU][hapmap];0.86[CHB][hapmap];0.81[GIH][hapmap];0.91[JPT][hapmap];1.00[TSI][hapmap];0.86[ASN][1000 genomes]
rs4953364	1.00[CEU][hapmap];0.82[CHB][hapmap];0.86[CHD][hapmap];0.91[JPT][hapmap];1.00[MEX][hapmap];0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4953369	0.93[ASN][1000 genomes]
rs4953370	0.93[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4953376	1.00[CEU][hapmap];0.82[CHB][hapmap];0.81[CHD][hapmap];1.00[MEX][hapmap];0.83[YRI][hapmap];0.83[ASN][1000 genomes]
rs59013670	0.85[ASN][1000 genomes]
rs61193538	0.84[ASN][1000 genomes]
rs6723195	0.83[ASN][1000 genomes]
rs67435514	0.94[ASN][1000 genomes]
rs72618619	0.82[EUR][1000 genomes]
rs72618620	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs72618621	0.98[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs72618622	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs72618623	0.98[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs72618624	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs72618625	0.98[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs72618626	0.82[AMR][1000 genomes]
rs72618627	0.82[ASN][1000 genomes]
rs7573688	0.87[MEX][hapmap]
rs7574467	1.00[CEU][hapmap];0.81[CHB][hapmap];0.95[JPT][hapmap];0.98[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7595513	0.82[CHB][hapmap];0.81[CHD][hapmap];0.94[MEX][hapmap]

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	nsv1012446	chr2:45921682-46737036	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	62 gene(s)	inside rSNPs	diseases
2	esv2757795	chr2:46532812-46874151	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
3	esv2759046	chr2:46532812-46874151	Active TSS Enhancers Flanking Active TSS Strong transcription Weak transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
4	esv34650	chr2:46605659-46818992	Enhancers Weak transcription ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
5	esv2756919	chr2:46614235-46756431	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
6	nsv437435	chr2:46636967-46763587	Active TSS Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
7	nsv457330	chr2:46637081-46660752	Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
8	nsv581744	chr2:46637081-46660752	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:46613200-46644200	Weak transcription	Aorta	Aorta
2	chr2:46630600-46638600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr2:46631200-46639600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr2:46633600-46639000	Enhancers	Esophagus	oesophagus
5	chr2:46633800-46638800	Enhancers	Stomach Mucosa	stomach
6	chr2:46633800-46642000	Enhancers	Breast Myoepithelial Primary Cells	Breast
7	chr2:46634600-46639400	Enhancers	HMEC	breast
8	chr2:46634800-46641800	Weak transcription	Spleen	Spleen
9	chr2:46635400-46639400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr2:46636000-46639400	Enhancers	Skeletal Muscle Female	skeletal muscle
11	chr2:46636800-46640400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr2:46636800-46646200	Weak transcription	K562	blood
13	chr2:46637200-46639400	Enhancers	Hela-S3	cervix
14	chr2:46637200-46642600	Enhancers	HepG2	liver
15	chr2:46637400-46638600	Weak transcription	A549	lung
16	chr2:46637600-46638800	Weak transcription	Skeletal Muscle Male	skeletal muscle
17	chr2:46637800-46638600	Weak transcription	Right Ventricle	heart
18	chr2:46637800-46638800	Weak transcription	Left Ventricle	heart
19	chr2:46637800-46640400	Weak transcription	NHEK	skin
20	chr2:46638000-46638800	Weak transcription	Gastric	stomach
21	chr2:46638200-46638800	Enhancers	Muscle Satellite Cultured Cells	--
22	chr2:46638200-46638800	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr2:46638200-46639600	Enhancers	Placenta	Placenta
24	chr2:46638400-46638800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung

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