Variant report

Variant	rs9390166
Chromosome Location	chr6:144681683-144681684
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:144671254..144672966-chr6:144680487..144682454,2	MCF-7	breast:

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs1746	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2473157	0.85[AMR][1000 genomes]
rs4574662	0.96[CEU][hapmap];0.86[CHB][hapmap];0.91[JPT][hapmap];0.91[YRI][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs74671	0.81[YRI][hapmap]
rs9321970	0.81[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];0.90[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	nsv830832	chr6:144572378-144759023	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	esv2422260	chr6:144574591-144731630	Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Active TSS Genic enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv1031253	chr6:144599055-144883013	Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv538461	chr6:144599055-144883013	Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:89 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:144653200-144684600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr6:144663200-144685800	Weak transcription	Brain Substantia Nigra	brain
3	chr6:144665400-144696400	Weak transcription	Fetal Intestine Small	intestine
4	chr6:144670800-144691200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr6:144671000-144683200	Weak transcription	Gastric	stomach
6	chr6:144671200-144692000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr6:144671800-144683200	Weak transcription	HSMM	muscle
8	chr6:144671800-144685200	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr6:144672000-144683200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr6:144673200-144683000	Weak transcription	Rectal Mucosa Donor 29	rectum
11	chr6:144673200-144683200	Weak transcription	Liver	Liver
12	chr6:144673200-144683200	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr6:144673400-144683200	Weak transcription	Stomach Mucosa	stomach
14	chr6:144673400-144683400	Weak transcription	Colon Smooth Muscle	Colon
15	chr6:144673400-144699600	Weak transcription	Fetal Stomach	stomach
16	chr6:144673800-144682800	Weak transcription	Fetal Muscle Leg	muscle
17	chr6:144674200-144683400	Weak transcription	Stomach Smooth Muscle	stomach
18	chr6:144675400-144685600	Weak transcription	Primary hematopoietic stem cells	blood
19	chr6:144675600-144692000	Weak transcription	Dnd41	blood
20	chr6:144675800-144684000	Enhancers	Primary T helper cells fromperipheralblood	blood
21	chr6:144675800-144687000	Enhancers	Primary T helper cells PMA-I stimulated	--
22	chr6:144676000-144683200	Weak transcription	Primary monocytes fromperipheralblood	blood
23	chr6:144676000-144683200	Weak transcription	Monocytes-CD14+_RO01746	blood
24	chr6:144676000-144683400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr6:144676000-144685800	Weak transcription	Thymus	Thymus
26	chr6:144676000-144688200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
27	chr6:144676600-144685200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
28	chr6:144677400-144683400	Weak transcription	GM12878-XiMat	blood
29	chr6:144679000-144685400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr6:144679200-144682200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
31	chr6:144680200-144682200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
32	chr6:144680600-144681800	Weak transcription	Skeletal Muscle Male	skeletal muscle
33	chr6:144680600-144682800	Weak transcription	Aorta	Aorta
34	chr6:144680600-144682800	Weak transcription	Lung	lung
35	chr6:144680600-144682800	Weak transcription	Ovary	ovary
36	chr6:144680600-144683200	Weak transcription	Psoas Muscle	Psoas
37	chr6:144680600-144683200	Weak transcription	HUVEC	blood vessel
38	chr6:144681000-144681800	Weak transcription	Fetal Heart	heart
39	chr6:144681200-144683000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
40	chr6:144681200-144684000	Enhancers	Skeletal Muscle Female	skeletal muscle
41	chr6:144681400-144681800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
42	chr6:144681400-144681800	Enhancers	Esophagus	oesophagus
43	chr6:144681400-144681800	Enhancers	Left Ventricle	heart
44	chr6:144681400-144681800	Enhancers	Right Ventricle	heart
45	chr6:144681400-144681800	Enhancers	NHEK	skin
46	chr6:144681400-144682000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
47	chr6:144681400-144682000	Genic enhancers	Primary T cells fromperipheralblood	blood
48	chr6:144681400-144682000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
49	chr6:144681400-144682000	Enhancers	Placenta	Placenta
50	chr6:144681400-144682400	Enhancers	Primary T regulatory cells fromperipheralblood	blood

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