Variant report

Variant	rs9468537
Chromosome Location	chr6:11173821-11173822
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:11173246..11175839-chr6:11231318..11234093,2	MCF-7	breast:
2	chr1:40503937..40506110-chr6:11172221..11174586,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000111859	Chromatin interaction
ENSG00000131236	Chromatin interaction

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs1007741	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10601	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12209631	1.00[CHB][hapmap]
rs13849	0.91[CEU][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1803710	1.00[CEU][hapmap];1.00[CHB][hapmap];0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2146344	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2208840	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2327336	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2327338	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3035	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34044517	1.00[ASN][1000 genomes]
rs4711193	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[YRI][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4711194	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[YRI][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4713227	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4713228	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4713229	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6456946	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6456968	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6906952	1.00[CHB][hapmap]
rs6912556	0.88[CEU][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6923556	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6923725	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6935824	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7739880	0.85[CEU][hapmap]
rs7746976	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7750787	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7751344	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7755052	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7755536	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7759674	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7770498	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9283888	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9295806	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9368595	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9468556	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs960944	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs960945	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021078	chr6:10819083-11558560	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv538135	chr6:10819083-11558560	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:11162400-11185400	Weak transcription	Esophagus	oesophagus
2	chr6:11169800-11174600	Weak transcription	Left Ventricle	heart
3	chr6:11171800-11185400	Weak transcription	Gastric	stomach
4	chr6:11172000-11174200	Enhancers	Fetal Thymus	thymus
5	chr6:11172400-11174000	Enhancers	A549	lung
6	chr6:11172600-11174000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr6:11172600-11174000	Enhancers	HUES48 Cell Line	embryonic stem cell
8	chr6:11172600-11174000	Enhancers	Fetal Heart	heart
9	chr6:11172800-11175000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr6:11172800-11195000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
11	chr6:11173000-11174000	Enhancers	ES-I3 Cell Line	embryonic stem cell
12	chr6:11173000-11174000	Enhancers	HUES6 Cell Line	embryonic stem cell
13	chr6:11173000-11174000	Enhancers	iPS-18 Cell Line	embryonic stem cell
14	chr6:11173000-11174200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr6:11173200-11174000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr6:11173200-11174000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr6:11173200-11174200	Enhancers	HepG2	liver
18	chr6:11173200-11174400	Weak transcription	Primary monocytes fromperipheralblood	blood
19	chr6:11173200-11175800	Weak transcription	Stomach Mucosa	stomach
20	chr6:11173200-11179400	Weak transcription	Placenta	Placenta
21	chr6:11173200-11181600	Weak transcription	Primary T cells from cord blood	blood
22	chr6:11173200-11181600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
23	chr6:11173200-11182400	Weak transcription	Primary T cells fromperipheralblood	blood
24	chr6:11173200-11182600	Weak transcription	Primary B cells from cord blood	blood
25	chr6:11173200-11183400	Weak transcription	Monocytes-CD14+_RO01746	blood
26	chr6:11173200-11183600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
27	chr6:11173200-11183600	Weak transcription	Sigmoid Colon	Sigmoid Colon
28	chr6:11173200-11184000	Weak transcription	Primary neutrophils fromperipheralblood	blood
29	chr6:11173200-11184000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
30	chr6:11173200-11184000	Weak transcription	Duodenum Mucosa	Duodenum
31	chr6:11173200-11184000	Weak transcription	Lung	lung
32	chr6:11173200-11184000	Weak transcription	Rectal Smooth Muscle	rectum
33	chr6:11173200-11184000	Weak transcription	Spleen	Spleen
34	chr6:11173200-11184200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
35	chr6:11173200-11184600	Weak transcription	Colon Smooth Muscle	Colon
36	chr6:11173200-11184800	Weak transcription	Brain Cingulate Gyrus	brain
37	chr6:11173200-11184800	Weak transcription	Pancreas	Pancrea
38	chr6:11173200-11185400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
39	chr6:11173200-11185400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
40	chr6:11173200-11185400	Weak transcription	Ovary	ovary
41	chr6:11173200-11187600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
42	chr6:11173400-11174200	Weak transcription	Brain Anterior Caudate	brain
43	chr6:11173400-11178800	Weak transcription	Brain Substantia Nigra	brain
44	chr6:11173400-11180600	Weak transcription	Placenta Amnion	Placenta Amnion
45	chr6:11173400-11182200	Weak transcription	Primary B cells from peripheral blood	blood
46	chr6:11173400-11183200	Weak transcription	Pancreatic Islets	Pancreatic Islet
47	chr6:11173400-11183600	Weak transcription	Rectal Mucosa Donor 29	rectum
48	chr6:11173400-11183600	Weak transcription	Osteobl	bone
49	chr6:11173400-11183800	Weak transcription	GM12878-XiMat	blood
50	chr6:11173400-11184000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood

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