Variant report

Variant	rs28402797
Chromosome Location	chr15:77192176-77192177
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	chr15:77190700..77193071-chr15:77213963..77216212,2	MCF-7	breast:

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs11072640	1.00[AMR][1000 genomes]
rs11853683	1.00[AMR][1000 genomes]
rs2469198	1.00[AMR][1000 genomes]
rs2469207	1.00[AMR][1000 genomes]
rs2469237	1.00[AMR][1000 genomes]
rs28391551	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28412669	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28421596	1.00[AMR][1000 genomes]
rs28508056	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28641730	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28644501	1.00[AMR][1000 genomes]
rs28744566	1.00[AMR][1000 genomes]
rs3099135	1.00[AMR][1000 genomes]
rs3110376	1.00[AMR][1000 genomes]
rs3110377	1.00[AMR][1000 genomes]
rs3110383	1.00[AMR][1000 genomes]
rs3110386	1.00[AMR][1000 genomes]
rs4886833	1.00[AMR][1000 genomes]
rs7173333	1.00[AMR][1000 genomes]
rs7178723	1.00[AMR][1000 genomes]
rs8026664	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8035685	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8038253	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8038701	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9920797	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv542439	chr15:76762161-77196336	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	9 gene(s)	inside rSNPs	diseases
2	esv3440794	chr15:76764595-77571114	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
3	nsv1046137	chr15:76892097-77196336	ZNF genes & repeats Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv542442	chr15:76892097-77196336	ZNF genes & repeats Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	esv3367577	chr15:77015618-77442634	Genic enhancers Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
6	esv1803942	chr15:77151005-77210457	Active TSS Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
7	nsv1040852	chr15:77160237-78137541	Enhancers Flanking Active TSS Active TSS Strong transcription Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
8	esv2758388	chr15:77170550-77373448	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
9	esv2760041	chr15:77170550-77373448	Enhancers Genic enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:59 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:77112200-77196000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr15:77133200-77196800	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr15:77140800-77195800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr15:77142000-77195800	Weak transcription	Right Ventricle	heart
5	chr15:77146400-77196400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr15:77148600-77195600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
7	chr15:77148800-77195600	Weak transcription	Dnd41	blood
8	chr15:77158800-77195600	Weak transcription	Brain Hippocampus Middle	brain
9	chr15:77158800-77195600	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr15:77168400-77195000	Weak transcription	Adipose Nuclei	Adipose
11	chr15:77168600-77195000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr15:77168600-77195600	Weak transcription	Colon Smooth Muscle	Colon
13	chr15:77168600-77196800	Weak transcription	Pancreas	Pancrea
14	chr15:77168600-77196800	Weak transcription	Spleen	Spleen
15	chr15:77172800-77195600	Weak transcription	HSMM	muscle
16	chr15:77175600-77196800	Weak transcription	Aorta	Aorta
17	chr15:77175600-77196800	Weak transcription	Fetal Muscle Trunk	muscle
18	chr15:77175800-77195600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
19	chr15:77176000-77192800	Weak transcription	Liver	Liver
20	chr15:77176000-77192800	Weak transcription	Left Ventricle	heart
21	chr15:77176000-77195800	Weak transcription	Primary T cells fromperipheralblood	blood
22	chr15:77176000-77196800	Weak transcription	Ovary	ovary
23	chr15:77176200-77195400	Weak transcription	Primary B cells from cord blood	blood
24	chr15:77176200-77195800	Weak transcription	Primary B cells from peripheral blood	blood
25	chr15:77176400-77195600	Weak transcription	Primary T helper cells fromperipheralblood	blood
26	chr15:77179400-77196000	Weak transcription	Thymus	Thymus
27	chr15:77179800-77195600	Weak transcription	Duodenum Mucosa	Duodenum
28	chr15:77180000-77196800	Weak transcription	Lung	lung
29	chr15:77184400-77195800	Weak transcription	Primary T cells from cord blood	blood
30	chr15:77186800-77195400	Weak transcription	Primary hematopoietic stem cells	blood
31	chr15:77186800-77195400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr15:77186800-77195800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr15:77187800-77195400	Weak transcription	GM12878-XiMat	blood
34	chr15:77189000-77192800	Weak transcription	Fetal Heart	heart
35	chr15:77189000-77195600	Weak transcription	Brain Substantia Nigra	brain
36	chr15:77189200-77194400	Weak transcription	Brain Inferior Temporal Lobe	brain
37	chr15:77189200-77195400	Weak transcription	Primary T helper cells PMA-I stimulated	--
38	chr15:77189200-77196800	Weak transcription	Gastric	stomach
39	chr15:77190200-77196800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
40	chr15:77190200-77196800	Weak transcription	Esophagus	oesophagus
41	chr15:77190600-77192600	Weak transcription	K562	blood
42	chr15:77190600-77194800	Weak transcription	Monocytes-CD14+_RO01746	blood
43	chr15:77191000-77192800	Weak transcription	A549	lung
44	chr15:77191000-77196800	Weak transcription	Placenta Amnion	Placenta Amnion
45	chr15:77191200-77195200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
46	chr15:77191200-77195200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
47	chr15:77191200-77195600	Weak transcription	NHEK	skin
48	chr15:77191200-77195800	Weak transcription	Brain Cingulate Gyrus	brain
49	chr15:77191200-77195800	Weak transcription	Sigmoid Colon	Sigmoid Colon
50	chr15:77191600-77192800	Weak transcription	Fetal Brain Female	brain

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