Variant report

Variant	rs62018088
Chromosome Location	chr15:55539892-55539893
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:55532208..55534403-chr15:55539105..55541114,2	MCF-7	breast:
2	chr15:55539059..55540962-chr15:55541694..55543566,2	K562	blood:
3	chr15:55527245..55529399-chr15:55538940..55540733,2	K562	blood:
4	chr15:55538333..55540219-chr15:55542009..55544600,2	MCF-7	breast:
5	chr15:55526209..55528745-chr15:55538036..55540440,2	K562	blood:
6	chr15:55538847..55540639-chr15:55576116..55578035,2	MCF-7	breast:

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs62018092	0.85[AMR][1000 genomes]
rs62018103	1.00[AMR][1000 genomes]
rs62020099	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1043176	chr15:55010228-55563000	Genic enhancers Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv1042741	chr15:55068022-55622497	Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
3	nsv1039471	chr15:55137606-55552555	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
4	nsv917323	chr15:55290499-56041334	Genic enhancers Active TSS ZNF genes & repeats Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
5	nsv1043789	chr15:55400872-56092454	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
6	nsv1049977	chr15:55502508-55555694	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv1036924	chr15:55527874-55616480	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
8	nsv1051046	chr15:55529291-55821973	Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
9	nsv569522	chr15:55532211-55611126	Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
10	nsv904241	chr15:55534342-55611126	Weak transcription Bivalent/Poised TSS Active TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:55489800-55540200	Weak transcription	Esophagus	oesophagus
2	chr15:55490000-55562800	Weak transcription	Ovary	ovary
3	chr15:55509400-55541600	Weak transcription	Small Intestine	intestine
4	chr15:55512800-55541600	Weak transcription	Colonic Mucosa	Colon
5	chr15:55514200-55540400	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr15:55514200-55545200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr15:55514400-55541200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr15:55514600-55542600	Weak transcription	Hela-S3	cervix
9	chr15:55514600-55543200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr15:55514800-55560400	Weak transcription	Spleen	Spleen
11	chr15:55516000-55559600	Weak transcription	Fetal Stomach	stomach
12	chr15:55517600-55542800	Weak transcription	Thymus	Thymus
13	chr15:55517800-55542200	Weak transcription	Fetal Thymus	thymus
14	chr15:55517800-55542800	Weak transcription	Primary B cells from peripheral blood	blood
15	chr15:55518800-55541200	Weak transcription	Aorta	Aorta
16	chr15:55520800-55574800	Weak transcription	Stomach Smooth Muscle	stomach
17	chr15:55521000-55541400	Weak transcription	Fetal Intestine Large	intestine
18	chr15:55522800-55540600	Weak transcription	Liver	Liver
19	chr15:55522800-55543200	Weak transcription	Pancreas	Pancrea
20	chr15:55522800-55547000	Weak transcription	GM12878-XiMat	blood
21	chr15:55523200-55542600	Weak transcription	HMEC	breast
22	chr15:55526800-55543200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
23	chr15:55527000-55542400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr15:55527000-55544200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
25	chr15:55527200-55542800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr15:55533800-55543400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
27	chr15:55534400-55541600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
28	chr15:55534400-55545600	Weak transcription	Osteobl	bone
29	chr15:55534600-55542200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr15:55535000-55542200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr15:55535800-55540400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
32	chr15:55537200-55543200	Enhancers	Primary T helper cells PMA-I stimulated	--
33	chr15:55538000-55542400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
34	chr15:55538000-55542600	Weak transcription	NHEK	skin
35	chr15:55538000-55542800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
36	chr15:55538200-55540000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
37	chr15:55538200-55541600	Weak transcription	Lung	lung
38	chr15:55538600-55544200	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr15:55538600-55549000	Enhancers	Primary monocytes fromperipheralblood	blood
40	chr15:55538800-55541600	Genic enhancers	Primary hematopoietic stem cells short term culture	blood
41	chr15:55538800-55544600	Genic enhancers	K562	blood
42	chr15:55539000-55541800	Enhancers	Sigmoid Colon	Sigmoid Colon
43	chr15:55539000-55543800	Enhancers	Rectal Mucosa Donor 31	rectum
44	chr15:55539000-55544600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
45	chr15:55539200-55540600	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
46	chr15:55539200-55540600	Genic enhancers	Primary T helper 17 cells PMA-I stimulated	--
47	chr15:55539200-55540600	Enhancers	Gastric	stomach
48	chr15:55539200-55541000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
49	chr15:55539400-55540000	Enhancers	Primary hematopoietic stem cells	blood
50	chr15:55539400-55540600	Enhancers	Primary T cells fromperipheralblood	blood

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