Variant report

Variant	rs1334143
Chromosome Location	chr1:86892390-86892391
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:86890838..86893158-chr1:86893303..86895296,2	MCF-7	breast:
2	chr1:86890911..86893215-chr1:86893778..86895291,2	K562	blood:
3	chr1:86891052..86893486-chr1:86893692..86895662,2	MCF-7	breast:

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10493789	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10747328	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10873777	0.95[CEU][hapmap];0.95[CHB][hapmap];0.85[JPT][hapmap];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10873782	0.91[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes]
rs11161820	0.86[ASN][1000 genomes]
rs1158505	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1158506	0.97[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs1182102	0.95[CEU][hapmap];0.80[EUR][1000 genomes]
rs1334144	0.97[AFR][1000 genomes]
rs1334145	0.96[CEU][hapmap];1.00[YRI][hapmap]
rs1334146	0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1334147	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1334148	0.96[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1334150	0.85[ASN][1000 genomes]
rs166626	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs166627	0.85[ASN][1000 genomes]
rs175363	0.95[CEU][hapmap];0.90[CHB][hapmap];0.85[JPT][hapmap];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs185655	0.90[CHB][hapmap];0.81[JPT][hapmap];0.87[YRI][hapmap]
rs187971	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1931363	0.95[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2104962	0.94[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs2104963	0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2151708	0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2151709	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2250857	0.80[CHB][hapmap];0.85[ASN][1000 genomes]
rs272491	0.83[CEU][hapmap];0.95[CHB][hapmap];0.85[JPT][hapmap];0.90[YRI][hapmap];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs272492	0.95[CEU][hapmap];0.90[CHB][hapmap];0.84[JPT][hapmap];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs272494	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs272498	1.00[CEU][hapmap];0.94[CHB][hapmap];0.83[JPT][hapmap];0.87[YRI][hapmap];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs272504	0.95[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs272507	0.95[CEU][hapmap];0.95[CHB][hapmap];0.85[JPT][hapmap];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs272510	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs272511	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs272516	0.95[CEU][hapmap];0.89[CHB][hapmap];0.84[JPT][hapmap];0.86[YRI][hapmap];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3765975	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3765978	0.87[ASN][1000 genomes]
rs405424	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4288573	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4292929	0.86[ASN][1000 genomes]
rs6695671	0.92[CEU][hapmap];0.95[CHB][hapmap];0.85[JPT][hapmap];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs883200	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1003838	chr1:86591841-87212231	Flanking Bivalent TSS/Enh Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv1002541	chr1:86689088-86905902	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases
3	nsv871081	chr1:86806372-86892819	Weak transcription Active TSS Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:86882200-86894800	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr1:86887200-86895000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr1:86888000-86894800	Weak transcription	NHDF-Ad	bronchial
4	chr1:86888200-86894600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr1:86889400-86894400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
6	chr1:86889800-86895200	Weak transcription	Psoas Muscle	Psoas
7	chr1:86890200-86895200	Weak transcription	Skeletal Muscle Female	skeletal muscle
8	chr1:86890400-86892400	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr1:86890400-86895000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr1:86890600-86894600	Weak transcription	Osteobl	bone
11	chr1:86890600-86894800	Weak transcription	Adipose Nuclei	Adipose
12	chr1:86890600-86903000	Weak transcription	Esophagus	oesophagus
13	chr1:86890800-86894400	Weak transcription	Hela-S3	cervix
14	chr1:86890800-86894600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
15	chr1:86890800-86894600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr1:86891400-86893000	Transcr. at gene 5' and 3'	NHEK	skin
17	chr1:86891600-86894800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr1:86892000-86892400	Transcr. at gene 5' and 3'	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr1:86892000-86892800	Transcr. at gene 5' and 3'	HMEC	breast
20	chr1:86892000-86893000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr1:86892000-86894400	Weak transcription	Sigmoid Colon	Sigmoid Colon
22	chr1:86892200-86892400	Transcr. at gene 5' and 3'	Foreskin Keratinocyte Primary Cells skin03	Skin

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