Variant report

Variant	rs12708456
Chromosome Location	chr15:59215835-59215836
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:59212424..59217333-chr15:59223129..59226870,5	MCF-7	breast:
2	chr15:59184668..59186750-chr15:59215804..59218388,2	K562	blood:
3	chr15:59205247..59208199-chr15:59214036..59216910,3	K562	blood:

Variant related genes	Relation type
ENSG00000137776	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10162821	0.80[AFR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10518991	0.91[ASN][1000 genomes]
rs10518992	0.91[ASN][1000 genomes]
rs1078001	0.91[ASN][1000 genomes]
rs11071400	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11071401	0.92[ASN][1000 genomes]
rs11630160	0.92[ASN][1000 genomes]
rs11636723	0.92[ASN][1000 genomes]
rs11637077	0.90[ASN][1000 genomes]
rs11858989	0.92[ASN][1000 genomes]
rs12148858	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12443436	0.84[ASN][1000 genomes]
rs12595482	0.91[ASN][1000 genomes]
rs12909894	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12914723	0.89[ASN][1000 genomes]
rs12916751	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17302038	0.92[ASN][1000 genomes]
rs17302045	0.91[ASN][1000 genomes]
rs173214	0.86[ASN][1000 genomes]
rs2013117	0.84[ASN][1000 genomes]
rs2270664	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2279719	0.86[ASN][1000 genomes]
rs28473013	0.92[ASN][1000 genomes]
rs28529423	0.92[ASN][1000 genomes]
rs28538484	0.91[ASN][1000 genomes]
rs28641638	0.95[ASN][1000 genomes]
rs28709922	0.92[ASN][1000 genomes]
rs3145	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35477914	0.91[ASN][1000 genomes]
rs4774315	0.83[AFR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4775101	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs67851431	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs71407077	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7173317	0.92[ASN][1000 genomes]
rs793571	0.81[EUR][1000 genomes]
rs8035628	0.91[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	esv34110	chr15:58949991-59381634	Weak transcription Bivalent Enhancer Strong transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
2	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
3	nsv904270	chr15:59140329-59238415	Genic enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
4	esv1850946	chr15:59174539-59429160	Enhancers Genic enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	70 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:59168600-59220000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
2	chr15:59169200-59223200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr15:59170800-59224200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr15:59179800-59224200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr15:59180800-59216400	Weak transcription	Stomach Mucosa	stomach
6	chr15:59182200-59224200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr15:59192200-59223400	Weak transcription	Right Ventricle	heart
8	chr15:59192600-59223400	Weak transcription	Placenta Amnion	Placenta Amnion
9	chr15:59192800-59221200	Weak transcription	Small Intestine	intestine
10	chr15:59192800-59223200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr15:59192800-59224200	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr15:59193000-59217000	Weak transcription	Rectal Smooth Muscle	rectum
13	chr15:59193000-59219000	Weak transcription	Spleen	Spleen
14	chr15:59193000-59223200	Weak transcription	Aorta	Aorta
15	chr15:59193000-59223200	Weak transcription	Brain Cingulate Gyrus	brain
16	chr15:59193000-59224200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr15:59193000-59224200	Weak transcription	Colonic Mucosa	Colon
18	chr15:59193000-59224400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr15:59194000-59223600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
20	chr15:59194200-59216800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
21	chr15:59197200-59225000	Weak transcription	Gastric	stomach
22	chr15:59199800-59217000	Weak transcription	Psoas Muscle	Psoas
23	chr15:59199800-59224200	Weak transcription	Esophagus	oesophagus
24	chr15:59200600-59224200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
25	chr15:59202000-59219000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
26	chr15:59202200-59219000	Weak transcription	H9 Cell Line	embryonic stem cell
27	chr15:59203200-59221000	Weak transcription	Brain Substantia Nigra	brain
28	chr15:59206800-59217600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
29	chr15:59207000-59216200	Weak transcription	Colon Smooth Muscle	Colon
30	chr15:59207000-59216200	Weak transcription	NHLF	lung
31	chr15:59207200-59219200	Weak transcription	Brain Germinal Matrix	brain
32	chr15:59208000-59216200	Weak transcription	Stomach Smooth Muscle	stomach
33	chr15:59208000-59217000	Weak transcription	Fetal Kidney	kidney
34	chr15:59208000-59223200	Weak transcription	Brain Angular Gyrus	brain
35	chr15:59208000-59223200	Weak transcription	Brain Hippocampus Middle	brain
36	chr15:59209000-59217600	Weak transcription	Primary neutrophils fromperipheralblood	blood
37	chr15:59209200-59217000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr15:59209400-59216400	Weak transcription	Duodenum Smooth Muscle	Duodenum
39	chr15:59209400-59219400	Weak transcription	HSMMtube	muscle
40	chr15:59209600-59216200	Weak transcription	NHDF-Ad	bronchial
41	chr15:59209600-59217400	Weak transcription	HSMM	muscle
42	chr15:59209600-59218400	Weak transcription	HMEC	breast
43	chr15:59209600-59218400	Weak transcription	NH-A	brain
44	chr15:59209600-59223400	Weak transcription	Fetal Brain Male	brain
45	chr15:59209600-59223400	Weak transcription	Fetal Brain Female	brain
46	chr15:59209800-59216800	Weak transcription	Liver	Liver
47	chr15:59209800-59219200	Weak transcription	Brain Anterior Caudate	brain
48	chr15:59210600-59219000	Weak transcription	HepG2	liver
49	chr15:59210800-59216800	Weak transcription	Fetal Lung	lung
50	chr15:59210800-59217000	Weak transcription	Primary T helper naive cells from peripheral blood	blood

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