Variant report

Variant	rs11153000
Chromosome Location	chr6:106975536-106975537
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:106972979..106975776-chr6:106983451..106985409,2	MCF-7	breast:

Extended variants
information (count: 19 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10499048	0.90[YRI][hapmap]
rs11152999	1.00[YRI][hapmap]
rs11153001	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11153002	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13212508	0.81[ASN][1000 genomes]
rs13212772	0.81[ASN][1000 genomes]
rs1340624	1.00[ASW][hapmap];0.82[GIH][hapmap];0.85[MEX][hapmap];0.81[MKK][hapmap];0.92[TSI][hapmap];1.00[YRI][hapmap]
rs17067184	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2219666	0.86[CHB][hapmap];0.80[ASN][1000 genomes]
rs4945755	0.91[YRI][hapmap]
rs4946758	0.84[ASW][hapmap];1.00[LWK][hapmap];0.94[MKK][hapmap];0.91[YRI][hapmap]
rs62423286	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6928874	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9320172	0.84[ASW][hapmap];0.87[CEU][hapmap];0.84[GIH][hapmap];0.86[TSI][hapmap];1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932155	chr6:106281728-107030467	Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv532047	chr6:106591482-107143252	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	nsv870375	chr6:106696090-107047892	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
4	nsv1025510	chr6:106791080-106982400	Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
5	nsv538404	chr6:106791080-106982400	Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11153000	AIM1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:75 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:106961000-106981000	Weak transcription	Lung	lung
2	chr6:106961000-107001400	Weak transcription	Gastric	stomach
3	chr6:106964800-106991000	Weak transcription	Spleen	Spleen
4	chr6:106964800-107029800	Weak transcription	Small Intestine	intestine
5	chr6:106967800-106975600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr6:106968200-106976400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr6:106968200-106980800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr6:106968800-106975800	Weak transcription	HSMM	muscle
9	chr6:106970000-106981000	Weak transcription	Esophagus	oesophagus
10	chr6:106970600-107022400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr6:106970800-106975800	Weak transcription	HepG2	liver
12	chr6:106971000-106976200	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr6:106972800-106976800	Enhancers	NH-A	brain
14	chr6:106973200-106981000	Weak transcription	Colonic Mucosa	Colon
15	chr6:106973200-106981000	Weak transcription	Fetal Intestine Small	intestine
16	chr6:106973400-106976000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
17	chr6:106973400-106976400	Weak transcription	Fetal Thymus	thymus
18	chr6:106973400-106977400	Weak transcription	Pancreatic Islets	Pancreatic Islet
19	chr6:106973400-106979800	Enhancers	Hela-S3	cervix
20	chr6:106973400-106981000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
21	chr6:106973400-106985600	Weak transcription	Stomach Mucosa	stomach
22	chr6:106973600-106975800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
23	chr6:106973600-106976000	Genic enhancers	Primary T killer memory cells from peripheral blood	blood
24	chr6:106973600-106976000	Weak transcription	Duodenum Mucosa	Duodenum
25	chr6:106973600-106979400	Enhancers	HUVEC	blood vessel
26	chr6:106973600-106980000	Weak transcription	Rectal Smooth Muscle	rectum
27	chr6:106973600-106980800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
28	chr6:106973600-106985800	Weak transcription	Thymus	Thymus
29	chr6:106973600-106986000	Genic enhancers	Primary T helper memory cells from peripheral blood 1	blood
30	chr6:106973600-106992800	Weak transcription	Duodenum Smooth Muscle	Duodenum
31	chr6:106973800-106975800	Weak transcription	Liver	Liver
32	chr6:106973800-106979400	Genic enhancers	Primary T helper 17 cells PMA-I stimulated	--
33	chr6:106973800-106980200	Strong transcription	Primary neutrophils fromperipheralblood	blood
34	chr6:106974000-106975800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
35	chr6:106974000-106976000	Weak transcription	Fetal Intestine Large	intestine
36	chr6:106974000-106976600	Genic enhancers	Primary T helper cells fromperipheralblood	blood
37	chr6:106974000-106977400	Genic enhancers	Primary T regulatory cells fromperipheralblood	blood
38	chr6:106974000-106980800	Strong transcription	Primary monocytes fromperipheralblood	blood
39	chr6:106974000-106980800	Strong transcription	Monocytes-CD14+_RO01746	blood
40	chr6:106974400-106976600	Genic enhancers	Primary T helper naive cells from peripheral blood	blood
41	chr6:106974400-106978800	Strong transcription	Dnd41	blood
42	chr6:106974600-106975600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr6:106974600-106979600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr6:106974600-106982400	Strong transcription	Primary hematopoietic stem cells	blood
45	chr6:106974800-106981000	Strong transcription	Primary T cells fromperipheralblood	blood
46	chr6:106974800-106982600	Strong transcription	Rectal Mucosa Donor 29	rectum
47	chr6:106975000-106975600	Transcr. at gene 5' and 3'	Foreskin Keratinocyte Primary Cells skin03	Skin
48	chr6:106975000-106975600	Enhancers	A549	lung
49	chr6:106975000-106975800	Enhancers	Muscle Satellite Cultured Cells	--
50	chr6:106975000-106976200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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