Variant report

Variant	rs35142499
Chromosome Location	chr15:56215274-56215275
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:110586878..110589672-chr15:56212609..56215497,2	MCF-7	breast:

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10518823	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12898478	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12899701	0.81[EUR][1000 genomes]
rs12901802	0.96[EUR][1000 genomes]
rs12902173	0.96[EUR][1000 genomes]
rs12904236	0.96[EUR][1000 genomes]
rs12906245	0.82[EUR][1000 genomes]
rs12906350	0.82[EUR][1000 genomes]
rs12908286	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12908466	0.81[EUR][1000 genomes]
rs12911101	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12913220	0.82[EUR][1000 genomes]
rs17819270	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1912397	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1912403	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2899593	0.81[EUR][1000 genomes]
rs34162982	0.96[EUR][1000 genomes]
rs34223710	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34333169	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs34652186	0.96[EUR][1000 genomes]
rs34718758	0.82[EUR][1000 genomes]
rs34727807	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34995202	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35086304	0.96[EUR][1000 genomes]
rs35313340	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs35759462	0.82[EUR][1000 genomes]
rs4296197	0.96[EUR][1000 genomes]
rs66857236	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs67046147	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs67825863	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs71476753	0.96[EUR][1000 genomes]
rs71476755	0.96[EUR][1000 genomes]
rs71476760	0.96[EUR][1000 genomes]
rs7172454	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs8038204	0.96[EUR][1000 genomes]
rs8039617	0.96[EUR][1000 genomes]
rs8042074	0.96[EUR][1000 genomes]
rs8042216	0.96[EUR][1000 genomes]
rs8043427	0.96[EUR][1000 genomes]
rs906811	0.96[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	nsv457157	chr15:55722213-56255774	Flanking Active TSS Enhancers Active TSS Strong transcription Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	nsv569539	chr15:55722213-56255774	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	esv2761872	chr15:56211065-56426501	Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:56176000-56216200	Weak transcription	Fetal Intestine Small	intestine
2	chr15:56188600-56218400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr15:56190000-56220000	Weak transcription	Pancreas	Pancrea
4	chr15:56190200-56221200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr15:56190400-56219800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr15:56200800-56218000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
7	chr15:56201000-56230000	Weak transcription	Fetal Intestine Large	intestine
8	chr15:56201200-56217200	Weak transcription	Primary neutrophils fromperipheralblood	blood
9	chr15:56206800-56217800	Weak transcription	Duodenum Mucosa	Duodenum
10	chr15:56207600-56221200	Weak transcription	Right Ventricle	heart
11	chr15:56208600-56218000	Weak transcription	Esophagus	oesophagus
12	chr15:56208800-56221600	Weak transcription	Primary hematopoietic stem cells	blood
13	chr15:56208800-56230000	Weak transcription	Liver	Liver
14	chr15:56209000-56218400	Weak transcription	Fetal Stomach	stomach
15	chr15:56209000-56230400	Weak transcription	Primary T cells from cord blood	blood
16	chr15:56209200-56221200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr15:56209200-56221600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr15:56209200-56230200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr15:56209200-56230200	Weak transcription	Aorta	Aorta
20	chr15:56209600-56216200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr15:56209600-56230800	Weak transcription	Stomach Smooth Muscle	stomach
22	chr15:56209600-56247400	Weak transcription	Psoas Muscle	Psoas
23	chr15:56210000-56216400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr15:56210200-56221600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr15:56210200-56229600	Weak transcription	HSMMtube	muscle
26	chr15:56210200-56229800	Weak transcription	Duodenum Smooth Muscle	Duodenum
27	chr15:56210800-56228800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
28	chr15:56210800-56229200	Weak transcription	HUVEC	blood vessel
29	chr15:56211000-56219800	Weak transcription	NHLF	lung
30	chr15:56211000-56221200	Weak transcription	NHEK	skin
31	chr15:56211000-56221800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr15:56211400-56230800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
33	chr15:56211600-56229400	Weak transcription	A549	lung
34	chr15:56211800-56242400	Weak transcription	Hela-S3	cervix
35	chr15:56212200-56218600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
36	chr15:56215000-56221200	Weak transcription	Thymus	Thymus
37	chr15:56215200-56216600	Weak transcription	Muscle Satellite Cultured Cells	--
38	chr15:56215200-56217600	Weak transcription	Spleen	Spleen

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