Variant report

Variant	rs6661687
Chromosome Location	chr1:224884691-224884692
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:224883559..224885900-chr1:224887129..224888856,2	K562	blood:
2	chr1:224884331..224887289-chr1:224890034..224891821,2	MCF-7	breast:
3	chr1:224882945..224885447-chr1:224889455..224891684,2	K562	blood:

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10915704	1.00[CHB][hapmap]
rs12239521	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13374273	0.82[YRI][hapmap]
rs16851979	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16852009	0.82[YRI][hapmap]
rs16852027	0.82[YRI][hapmap]
rs16852032	0.82[YRI][hapmap]
rs2117941	1.00[CHB][hapmap]
rs4653594	1.00[CHB][hapmap]
rs56879180	0.91[ASN][1000 genomes]
rs57247814	0.91[ASN][1000 genomes]
rs58011163	0.91[ASN][1000 genomes]
rs58316565	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58632343	0.91[ASN][1000 genomes]
rs58793647	1.00[ASN][1000 genomes]
rs58973007	1.00[ASN][1000 genomes]
rs59093574	1.00[ASN][1000 genomes]
rs59151274	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60017318	0.91[ASN][1000 genomes]
rs60936981	0.91[ASN][1000 genomes]
rs61625041	1.00[ASN][1000 genomes]
rs61631299	0.91[ASN][1000 genomes]
rs6426149	1.00[AFR][1000 genomes]
rs6426151	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6679959	0.89[YRI][hapmap];1.00[AFR][1000 genomes]
rs6685335	0.82[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs6685547	0.82[YRI][hapmap]
rs6690547	0.87[AFR][1000 genomes]
rs6692860	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6694298	0.82[YRI][hapmap]
rs6695061	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs74146218	0.91[ASN][1000 genomes]
rs7513442	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7545558	0.82[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7554221	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs7555388	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs879363	0.82[YRI][hapmap]
rs9729870	1.00[YRI][hapmap];0.96[AFR][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	nsv1014717	chr1:224551939-224885543	Flanking Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv535311	chr1:224551939-224885543	Strong transcription Genic enhancers Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:224862400-224902000	Weak transcription	Pancreas	Pancrea
2	chr1:224873000-224884800	Weak transcription	NHLF	lung
3	chr1:224875600-224888400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr1:224877600-224891600	Weak transcription	Dnd41	blood
5	chr1:224881000-224885200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr1:224881400-224895400	Weak transcription	Ovary	ovary
7	chr1:224884000-224885800	Genic enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr1:224884000-224885800	Enhancers	NHDF-Ad	bronchial
9	chr1:224884000-224887000	Enhancers	Cortex derived primary cultured neurospheres	brain
10	chr1:224884200-224885600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr1:224884200-224885800	Enhancers	Fetal Brain Male	brain
12	chr1:224884200-224886200	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr1:224884200-224886400	Enhancers	Brain Germinal Matrix	brain
14	chr1:224884200-224887400	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr1:224884400-224885200	Enhancers	ES-I3 Cell Line	embryonic stem cell
16	chr1:224884600-224885000	Enhancers	Right Atrium	heart
17	chr1:224884600-224885400	Enhancers	Fetal Brain Female	brain
18	chr1:224884600-224885600	Enhancers	NH-A	brain
19	chr1:224884600-224885800	Genic enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr1:224884600-224886200	Enhancers	Brain Cingulate Gyrus	brain

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