Variant report

Variant	rs57639701
Chromosome Location	chr10:25349189-25349190
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:25343578..25346366-chr10:25349000..25351556,3	MCF-7	breast:
2	chr10:25306319..25307953-chr10:25346499..25349389,2	MCF-7	breast:
3	chr10:25340489..25343849-chr10:25349173..25351054,3	K562	blood:
4	chr10:25304955..25307281-chr10:25348708..25354586,7	MCF-7	breast:
5	chr10:25341537..25343849-chr10:25349173..25350705,2	K562	blood:
6	chr10:25239858..25243208-chr10:25347592..25352504,4	K562	blood:

Variant related genes	Relation type
ENSG00000151023	Chromatin interaction
ENSG00000185875	Chromatin interaction
ENSG00000099256	Chromatin interaction
ENSG00000273107	Chromatin interaction

Extended variants
information (count: 69 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs1124490	1.00[EUR][1000 genomes]
rs12241288	1.00[EUR][1000 genomes]
rs12248877	0.86[EUR][1000 genomes]
rs12261100	0.93[EUR][1000 genomes]
rs1388926	0.93[EUR][1000 genomes]
rs1409305	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1552772	1.00[EUR][1000 genomes]
rs16925193	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16925198	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3808907	0.87[EUR][1000 genomes]
rs41279882	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41279886	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41279890	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41279894	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41304607	0.93[EUR][1000 genomes]
rs41307498	0.93[EUR][1000 genomes]
rs55788231	0.93[EUR][1000 genomes]
rs57642444	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57695610	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58164169	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs58320082	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59189661	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59876862	0.93[EUR][1000 genomes]
rs60880723	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61278248	1.00[EUR][1000 genomes]
rs61585865	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6482464	1.00[EUR][1000 genomes]
rs7072278	0.80[EUR][1000 genomes]
rs7073171	0.93[EUR][1000 genomes]
rs7075327	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7080371	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7083691	0.93[EUR][1000 genomes]
rs7099168	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73606594	0.93[EUR][1000 genomes]
rs73606599	1.00[EUR][1000 genomes]
rs73606600	1.00[EUR][1000 genomes]
rs73608203	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608204	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608206	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608208	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608210	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73608211	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608212	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608213	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608214	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73608216	0.93[EUR][1000 genomes]
rs73608217	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73608218	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73608219	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73608223	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608224	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608225	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608226	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs73608229	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608233	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608234	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608235	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608236	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608237	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608238	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608239	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608240	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608241	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7905478	1.00[EUR][1000 genomes]
rs7920527	0.93[EUR][1000 genomes]
rs9663998	0.90[AMR][1000 genomes];1.00[EUR][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	nsv550224	chr10:25335854-25385858	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
2	nsv1036683	chr10:25337592-25398119	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
3	nsv894969	chr10:25345720-25395579	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:25345200-25349400	Enhancers	Fetal Intestine Small	intestine
2	chr10:25345600-25350600	Enhancers	Fetal Intestine Large	intestine
3	chr10:25346000-25349200	Enhancers	K562	blood
4	chr10:25347200-25350600	Weak transcription	Liver	Liver
5	chr10:25347200-25350600	Weak transcription	Gastric	stomach
6	chr10:25347200-25350800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr10:25348200-25350600	Enhancers	Rectal Mucosa Donor 31	rectum
8	chr10:25348200-25351200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr10:25348200-25351600	Enhancers	Placenta Amnion	Placenta Amnion
10	chr10:25348200-25352200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr10:25348400-25349600	Enhancers	Duodenum Mucosa	Duodenum
12	chr10:25348400-25349600	Flanking Active TSS	A549	lung
13	chr10:25348400-25349800	Enhancers	Placenta	Placenta
14	chr10:25348400-25350800	Enhancers	HepG2	liver
15	chr10:25348400-25351000	Enhancers	HMEC	breast
16	chr10:25348400-25351200	Enhancers	HUVEC	blood vessel
17	chr10:25348400-25351600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr10:25348400-25352200	Enhancers	Stomach Mucosa	stomach
19	chr10:25348400-25352800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr10:25348600-25349200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr10:25348600-25349600	Enhancers	Breast Myoepithelial Primary Cells	Breast
22	chr10:25348600-25350000	Enhancers	Muscle Satellite Cultured Cells	--
23	chr10:25348600-25350800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr10:25348600-25351000	Enhancers	Osteobl	bone
25	chr10:25348800-25349200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr10:25348800-25349200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr10:25348800-25349200	Flanking Active TSS	Hela-S3	cervix
28	chr10:25348800-25349400	Enhancers	ES-I3 Cell Line	embryonic stem cell
29	chr10:25348800-25349400	Enhancers	NHDF-Ad	bronchial
30	chr10:25348800-25349600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr10:25348800-25349600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr10:25348800-25349600	Weak transcription	Aorta	Aorta
33	chr10:25348800-25349600	Enhancers	HSMM	muscle
34	chr10:25348800-25349800	Enhancers	NH-A	brain
35	chr10:25348800-25350800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr10:25348800-25352000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
37	chr10:25349000-25349200	Enhancers	NHEK	skin
38	chr10:25349000-25350000	Weak transcription	Small Intestine	intestine
39	chr10:25349000-25350600	Weak transcription	Lung	lung
40	chr10:25349000-25351200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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