Variant report

Variant	rs11856466
Chromosome Location	chr15:73348186-73348187
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:73325101..73327806-chr15:73347351..73348941,2	MCF-7	breast:
2	chr15:73095998..73099016-chr15:73347374..73350745,4	MCF-7	breast:
3	chr15:73343741..73345939-chr15:73347113..73349925,2	K562	blood:
4	chr15:73342947..73345241-chr15:73347113..73349760,2	K562	blood:

Variant related genes	Relation type
ENSG00000067141	Chromatin interaction

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs1017809	1.00[GIH][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1029	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1038136	1.00[CEU][hapmap];0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11852881	1.00[CEU][hapmap];0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11853109	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11856383	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11856433	1.00[CEU][hapmap];0.87[YRI][hapmap];0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11857053	1.00[CEU][hapmap];0.85[YRI][hapmap];0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12101540	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12101734	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13329282	1.00[CEU][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1382780	0.88[EUR][1000 genomes]
rs1678245	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs16957661	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.84[LWK][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap];0.87[YRI][hapmap];0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1714529	0.88[EUR][1000 genomes]
rs1714530	0.88[EUR][1000 genomes]
rs1714532	0.88[EUR][1000 genomes]
rs1812363	0.88[EUR][1000 genomes]
rs1842164	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1963253	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1963254	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1979410	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2169952	1.00[CEU][hapmap];0.87[YRI][hapmap];0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2254390	0.85[EUR][1000 genomes]
rs2254818	0.85[EUR][1000 genomes]
rs2623990	0.85[EUR][1000 genomes]
rs2623996	0.88[EUR][1000 genomes]
rs2680347	0.88[EUR][1000 genomes]
rs2680348	0.82[EUR][1000 genomes]
rs2680351	0.88[EUR][1000 genomes]
rs28547177	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs28572029	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs28582318	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs28645758	0.86[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs28676873	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28808999	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28828370	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4238459	1.00[CEU][hapmap];0.91[YRI][hapmap];0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4287530	1.00[CEU][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4325518	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.94[LWK][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap];0.83[YRI][hapmap];0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4539561	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.87[LWK][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap];0.87[YRI][hapmap];0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4635304	1.00[CEU][hapmap];0.91[YRI][hapmap];0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4776626	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4777584	1.00[CEU][hapmap];0.91[YRI][hapmap];0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55969660	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57453823	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6495054	1.00[CEU][hapmap];0.91[YRI][hapmap];0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7176908	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7180017	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.94[LWK][hapmap];1.00[MEX][hapmap];0.86[MKK][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73438015	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7403367	1.00[CEU][hapmap];0.83[YRI][hapmap];0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7497831	1.00[CEU][hapmap];0.90[TSI][hapmap];0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8031718	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.94[LWK][hapmap];1.00[MEX][hapmap];0.86[MKK][hapmap];1.00[TSI][hapmap];0.83[YRI][hapmap];0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8034243	1.00[CEU][hapmap];0.87[YRI][hapmap];0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs8034826	0.84[AFR][1000 genomes]
rs8035499	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs8035717	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs8038411	1.00[CEU][hapmap];0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs899480	1.00[GIH][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9920152	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9920459	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9920675	0.88[AMR][1000 genomes];0.88[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	esv3352103	chr15:73191535-73454001	Bivalent/Poised TSS Active TSS Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv482421	chr15:73279141-73426897	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
3	nsv904338	chr15:73313691-73483718	Enhancers Active TSS Strong transcription ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:73346200-73348200	Enhancers	Stomach Mucosa	stomach
2	chr15:73346200-73348800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr15:73346400-73348800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr15:73346400-73349400	Enhancers	Breast Myoepithelial Primary Cells	Breast
5	chr15:73346400-73349600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr15:73346400-73350400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr15:73346400-73350800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr15:73346400-73353400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr15:73346400-73355000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr15:73346400-73355400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr15:73346600-73348200	Enhancers	Fetal Lung	lung
12	chr15:73346600-73348600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
13	chr15:73346800-73349400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
14	chr15:73346800-73353200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
15	chr15:73347000-73348200	Weak transcription	HUES48 Cell Line	embryonic stem cell
16	chr15:73347000-73348200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr15:73347000-73349000	Enhancers	Psoas Muscle	Psoas
18	chr15:73347000-73358800	Weak transcription	HUES64 Cell Line	embryonic stem cell
19	chr15:73347200-73348200	Genic enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr15:73347200-73348200	Enhancers	Brain Anterior Caudate	brain
21	chr15:73347200-73348200	Enhancers	Brain Substantia Nigra	brain
22	chr15:73347200-73349200	Enhancers	Brain Cingulate Gyrus	brain
23	chr15:73347200-73349400	Enhancers	Brain Hippocampus Middle	brain
24	chr15:73347200-73349800	Enhancers	Brain Angular Gyrus	brain
25	chr15:73347200-73350600	Weak transcription	Liver	Liver
26	chr15:73347200-73352600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr15:73347200-73354400	Weak transcription	Brain Inferior Temporal Lobe	brain
28	chr15:73347600-73350400	Weak transcription	Skeletal Muscle Male	skeletal muscle
29	chr15:73347600-73350600	Weak transcription	Fetal Intestine Small	intestine
30	chr15:73347600-73351000	Enhancers	Fetal Brain Male	brain
31	chr15:73347600-73354200	Weak transcription	Pancreatic Islets	Pancreatic Islet
32	chr15:73347800-73348200	Enhancers	Colonic Mucosa	Colon
33	chr15:73347800-73348400	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
34	chr15:73347800-73348800	Active TSS	Fetal Brain Female	brain
35	chr15:73348000-73348200	Flanking Active TSS	Duodenum Mucosa	Duodenum
36	chr15:73348000-73348400	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
37	chr15:73348000-73348600	Enhancers	H9 Cell Line	embryonic stem cell
38	chr15:73348000-73348600	Enhancers	Aorta	Aorta
39	chr15:73348000-73348600	Enhancers	Small Intestine	intestine
40	chr15:73348000-73348800	Genic enhancers	Fetal Intestine Large	intestine
41	chr15:73348000-73349200	Enhancers	Sigmoid Colon	Sigmoid Colon
42	chr15:73348000-73349400	Enhancers	Rectal Mucosa Donor 31	rectum
43	chr15:73348000-73351200	Weak transcription	Fetal Kidney	kidney

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