Variant report

Variant	rs7181249
Chromosome Location	chr15:59540485-59540486
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:59539485..59542336-chr15:59663424..59665650,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000157470	Chromatin interaction
ENSG00000157483	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs3794488	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4774323	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs57487429	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs58579379	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs59773793	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62002697	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6494079	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6494080	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6494084	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6494086	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6494087	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6494089	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7172489	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7172761	0.92[ASN][1000 genomes]
rs7174147	0.92[ASN][1000 genomes]
rs7175876	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7179352	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8027055	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8027766	0.91[EUR][1000 genomes]
rs8038705	0.92[EUR][1000 genomes]
rs8040147	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv527307	chr15:59103328-60018487	Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	145 gene(s)	inside rSNPs	diseases
2	nsv833027	chr15:59474806-59608544	Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv904272	chr15:59500577-59549018	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	nsv904273	chr15:59518488-59567137	Weak transcription Enhancers Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:86 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:59511400-59549200	Weak transcription	Colonic Mucosa	Colon
2	chr15:59515800-59566600	Weak transcription	Pancreas	Pancrea
3	chr15:59517600-59546400	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr15:59517800-59564200	Weak transcription	Fetal Muscle Trunk	muscle
5	chr15:59521600-59566400	Weak transcription	Psoas Muscle	Psoas
6	chr15:59524000-59541800	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr15:59524000-59542200	Weak transcription	Gastric	stomach
8	chr15:59524000-59546200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr15:59524600-59569200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr15:59524600-59574600	Weak transcription	Lung	lung
11	chr15:59524800-59542200	Weak transcription	Esophagus	oesophagus
12	chr15:59525000-59541800	Weak transcription	Fetal Muscle Leg	muscle
13	chr15:59525000-59546400	Weak transcription	Stomach Smooth Muscle	stomach
14	chr15:59525200-59543000	Weak transcription	Right Atrium	heart
15	chr15:59525200-59547800	Weak transcription	Colon Smooth Muscle	Colon
16	chr15:59525200-59554000	Weak transcription	Rectal Smooth Muscle	rectum
17	chr15:59525200-59566600	Weak transcription	Small Intestine	intestine
18	chr15:59525200-59582000	Weak transcription	Duodenum Smooth Muscle	Duodenum
19	chr15:59525400-59541000	Weak transcription	Cortex derived primary cultured neurospheres	brain
20	chr15:59525400-59542200	Weak transcription	Rectal Mucosa Donor 29	rectum
21	chr15:59529200-59540800	Weak transcription	Adipose Nuclei	Adipose
22	chr15:59529200-59547200	Weak transcription	Aorta	Aorta
23	chr15:59529200-59547800	Weak transcription	Duodenum Mucosa	Duodenum
24	chr15:59529800-59545000	Weak transcription	HepG2	liver
25	chr15:59530200-59548000	Weak transcription	HUES64 Cell Line	embryonic stem cell
26	chr15:59530600-59558200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
27	chr15:59530600-59568000	Weak transcription	H1 Cell Line	embryonic stem cell
28	chr15:59530800-59543200	Weak transcription	Monocytes-CD14+_RO01746	blood
29	chr15:59530800-59549400	Weak transcription	Primary monocytes fromperipheralblood	blood
30	chr15:59530800-59569000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
31	chr15:59532800-59544200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr15:59533400-59541000	Weak transcription	Brain Cingulate Gyrus	brain
33	chr15:59533400-59541800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
34	chr15:59533400-59542000	Weak transcription	Skeletal Muscle Male	skeletal muscle
35	chr15:59533400-59543200	Weak transcription	NHDF-Ad	bronchial
36	chr15:59533400-59559800	Weak transcription	NHLF	lung
37	chr15:59533400-59564000	Weak transcription	Ovary	ovary
38	chr15:59533400-59566800	Weak transcription	Skeletal Muscle Female	skeletal muscle
39	chr15:59534400-59542200	Weak transcription	Fetal Stomach	stomach
40	chr15:59534400-59547800	Genic enhancers	A549	lung
41	chr15:59535200-59542000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
42	chr15:59535200-59542000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
43	chr15:59535400-59540800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
44	chr15:59536000-59547800	Genic enhancers	Hela-S3	cervix
45	chr15:59536200-59541600	Weak transcription	Placenta	Placenta
46	chr15:59536200-59542200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
47	chr15:59536200-59548000	Weak transcription	Stomach Mucosa	stomach
48	chr15:59536600-59559000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr15:59537000-59542400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
50	chr15:59537000-59547800	Weak transcription	HSMMtube	muscle

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