Variant report

Variant	rs11632887
Chromosome Location	chr15:75953274-75953275
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:75951981..75955869-chr15:75961912..75967583,8	MCF-7	breast:
2	chr15:75930676..75935484-chr15:75948921..75956484,11	MCF-7	breast:
3	chr15:75952724..75954958-chr15:75955903..75959191,3	K562	blood:
4	chr15:75952729..75955178-chr15:75965202..75967064,2	K562	blood:
5	chr15:75953121..75955415-chr15:76012310..76015183,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000177971	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs11547316	1.00[CHD][hapmap]
rs11634828	1.00[CHD][hapmap]
rs11635996	1.00[CHD][hapmap]
rs11637785	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11638663	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11856001	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12593327	0.95[LWK][hapmap];0.81[YRI][hapmap]
rs12899163	1.00[JPT][hapmap]
rs62027227	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs62027229	0.86[EUR][1000 genomes]
rs62027230	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs62027233	0.92[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs8031394	0.90[GIH][hapmap]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531901	chr15:75600108-76019966	Genic enhancers Flanking Active TSS Enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	166 gene(s)	inside rSNPs	diseases
2	esv3445070	chr15:75623136-76045948	Enhancers Active TSS Weak transcription Genic enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	165 gene(s)	inside rSNPs	diseases
3	nsv1048028	chr15:75637515-76019967	Strong transcription Genic enhancers Weak transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Active TSS 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	161 gene(s)	inside rSNPs	diseases
4	nsv542436	chr15:75637515-76019967	Strong transcription Weak transcription Flanking Active TSS Genic enhancers Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	161 gene(s)	inside rSNPs	diseases
5	esv1800424	chr15:75692303-75991451	Flanking Active TSS Strong transcription Weak transcription Genic enhancers Enhancers Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	124 gene(s)	inside rSNPs	diseases
6	nsv531903	chr15:75889302-76342128	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	97 gene(s)	inside rSNPs	diseases
7	esv1813854	chr15:75898640-76002392	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	66 gene(s)	inside rSNPs	diseases
8	nsv527186	chr15:75924443-76107730	Active TSS Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	69 gene(s)	inside rSNPs	diseases
9	nsv904391	chr15:75930757-76001654	Weak transcription Strong transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	52 gene(s)	inside rSNPs	diseases
10	nsv904392	chr15:75930757-76039262	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	58 gene(s)	inside rSNPs	diseases
11	nsv904393	chr15:75932177-76001654	Flanking Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Weak transcription Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	51 gene(s)	inside rSNPs	diseases
12	nsv984485	chr15:75932760-75965433	Weak transcription Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	41 gene(s)	inside rSNPs	diseases
13	nsv904394	chr15:75948671-76039262	Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs11632887	NRG4	cis	parietal	SCAN
rs11632887	MAN2C1	cis	parietal	SCAN
rs11632887	SNX33	cis	cerebellum	SCAN

Chromatin state (count:100 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:75944600-75954400	Genic enhancers	Lung	lung
2	chr15:75944800-75953800	Weak transcription	HUES64 Cell Line	embryonic stem cell
3	chr15:75945000-75954000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
4	chr15:75945000-75954400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr15:75945200-75955000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
6	chr15:75946000-75953400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr15:75946800-75956600	Weak transcription	K562	blood
8	chr15:75947200-75955200	Genic enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr15:75948800-75954200	Transcr. at gene 5' and 3'	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr15:75948800-75957400	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr15:75950000-75953400	Genic enhancers	Placenta Amnion	Placenta Amnion
12	chr15:75950400-75964000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr15:75950600-75957200	Genic enhancers	Fetal Muscle Trunk	muscle
14	chr15:75950600-75959200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr15:75950800-75956200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr15:75950800-75957600	Weak transcription	Primary monocytes fromperipheralblood	blood
17	chr15:75951000-75953400	Genic enhancers	Adipose Nuclei	Adipose
18	chr15:75951000-75953600	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr15:75951000-75954400	Enhancers	Skeletal Muscle Female	skeletal muscle
20	chr15:75951200-75954200	Genic enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
21	chr15:75951400-75953400	Genic enhancers	Sigmoid Colon	Sigmoid Colon
22	chr15:75951400-75953400	Genic enhancers	NHEK	skin
23	chr15:75951400-75954600	Weak transcription	Brain Germinal Matrix	brain
24	chr15:75951400-75955400	Weak transcription	Cortex derived primary cultured neurospheres	brain
25	chr15:75951400-75956600	Genic enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr15:75951600-75953400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr15:75951600-75953400	Genic enhancers	NHLF	lung
28	chr15:75951600-75956000	Enhancers	NHDF-Ad	bronchial
29	chr15:75952000-75953400	Enhancers	Brain Inferior Temporal Lobe	brain
30	chr15:75952000-75954400	Enhancers	Brain Substantia Nigra	brain
31	chr15:75952000-75954400	Enhancers	Right Atrium	heart
32	chr15:75952200-75953600	Enhancers	Brain Hippocampus Middle	brain
33	chr15:75952400-75953400	Transcr. at gene 5' and 3'	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr15:75952400-75953400	Enhancers	Brain Anterior Caudate	brain
35	chr15:75952400-75953400	Genic enhancers	Brain Cingulate Gyrus	brain
36	chr15:75952400-75953600	Genic enhancers	Gastric	stomach
37	chr15:75952400-75954600	Enhancers	NH-A	brain
38	chr15:75952600-75953400	Strong transcription	Monocytes-CD14+_RO01746	blood
39	chr15:75952600-75953400	Genic enhancers	Osteobl	bone
40	chr15:75952600-75953800	Enhancers	Duodenum Smooth Muscle	Duodenum
41	chr15:75952600-75954200	Genic enhancers	A549	lung
42	chr15:75952600-75954400	Genic enhancers	Fetal Stomach	stomach
43	chr15:75952600-75954600	Enhancers	Liver	Liver
44	chr15:75952800-75953400	Enhancers	Fetal Heart	heart
45	chr15:75952800-75953400	Enhancers	Small Intestine	intestine
46	chr15:75952800-75953400	Genic enhancers	HepG2	liver
47	chr15:75952800-75954400	Genic enhancers	Fetal Intestine Small	intestine
48	chr15:75952800-75956600	Genic enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
49	chr15:75953000-75953400	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr15:75953000-75953400	Enhancers	Colonic Mucosa	Colon

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