Variant report

Variant	rs9354987
Chromosome Location	chr6:72005794-72005795
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	chr6:72005106..72007492-chr6:72008536..72010126,3	MCF-7	breast:

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10945296	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1322760	0.88[CEU][hapmap];0.82[EUR][1000 genomes]
rs1407595	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1885674	0.81[CHB][hapmap]
rs1885676	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1885677	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4585521	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4706482	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4707905	0.88[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs4707906	0.96[CEU][hapmap];0.86[CHB][hapmap];0.95[JPT][hapmap];0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4707908	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4707911	0.82[EUR][1000 genomes]
rs6902228	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6902283	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6907281	0.96[CEU][hapmap];0.85[CHB][hapmap];0.95[JPT][hapmap];0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6914937	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7750270	0.85[ASN][1000 genomes]
rs7753063	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7766995	0.81[CHB][hapmap]
rs828633	0.82[EUR][1000 genomes]
rs828648	0.81[EUR][1000 genomes]
rs828649	0.81[EUR][1000 genomes]
rs828652	0.81[EUR][1000 genomes]
rs873864	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9346454	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9346458	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9354991	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][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	esv1795873	chr6:71997278-72005794	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	esv1841286	chr6:71997278-72006512	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	esv1802752	chr6:71998480-72005794	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:71999600-72012600	Weak transcription	Colonic Mucosa	Colon
2	chr6:71999800-72008000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
3	chr6:71999800-72008200	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr6:71999800-72008400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr6:71999800-72010400	Weak transcription	Primary T cells from cord blood	blood
6	chr6:71999800-72011200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr6:71999800-72015200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr6:71999800-72033800	Weak transcription	Right Ventricle	heart
9	chr6:72000000-72007800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr6:72000000-72008000	Weak transcription	H1 Cell Line	embryonic stem cell
11	chr6:72000000-72009400	Weak transcription	Duodenum Mucosa	Duodenum
12	chr6:72000000-72012800	Weak transcription	Brain Germinal Matrix	brain
13	chr6:72000000-72013200	Weak transcription	Rectal Smooth Muscle	rectum
14	chr6:72000000-72014200	Weak transcription	Thymus	Thymus
15	chr6:72000000-72015400	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr6:72000600-72009400	Weak transcription	Primary T helper cells PMA-I stimulated	--
17	chr6:72000800-72017600	Weak transcription	Fetal Heart	heart
18	chr6:72001000-72008400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
19	chr6:72001000-72012000	Weak transcription	Colon Smooth Muscle	Colon
20	chr6:72001000-72021600	Weak transcription	Fetal Lung	lung
21	chr6:72001000-72038800	Weak transcription	Aorta	Aorta
22	chr6:72001400-72014200	Weak transcription	Fetal Intestine Small	intestine
23	chr6:72001600-72006000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr6:72001800-72013200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
25	chr6:72001800-72020000	Weak transcription	Fetal Brain Female	brain
26	chr6:72002000-72007800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
27	chr6:72002000-72008200	Weak transcription	Hela-S3	cervix
28	chr6:72002000-72010400	Weak transcription	Brain Inferior Temporal Lobe	brain
29	chr6:72002000-72013400	Weak transcription	Placenta Amnion	Placenta Amnion
30	chr6:72002000-72014600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
31	chr6:72002000-72017600	Weak transcription	Brain Cingulate Gyrus	brain
32	chr6:72002000-72022000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
33	chr6:72002200-72006000	Weak transcription	Primary T helper cells fromperipheralblood	blood
34	chr6:72002200-72011000	Weak transcription	Brain Anterior Caudate	brain
35	chr6:72002200-72011200	Weak transcription	Fetal Brain Male	brain
36	chr6:72002200-72011600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
37	chr6:72002200-72015400	Weak transcription	GM12878-XiMat	blood
38	chr6:72003000-72007000	Strong transcription	Primary hematopoietic stem cells	blood
39	chr6:72003000-72011800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr6:72003200-72011600	Strong transcription	Primary B cells from peripheral blood	blood
41	chr6:72003200-72013200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr6:72003200-72014400	Strong transcription	Primary B cells from cord blood	blood
43	chr6:72003200-72016200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
44	chr6:72003400-72006800	Strong transcription	Cortex derived primary cultured neurospheres	brain
45	chr6:72003400-72007000	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
46	chr6:72003400-72007000	Strong transcription	Liver	Liver
47	chr6:72003600-72005800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
48	chr6:72003600-72007000	Strong transcription	HUES48 Cell Line	embryonic stem cell
49	chr6:72003600-72007200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
50	chr6:72003600-72008400	Strong transcription	Primary T cells fromperipheralblood	blood

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