Variant report

Variant	rs6922804
Chromosome Location	chr6:145087443-145087444
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	chr6:145056718..145059016-chr6:145087206..145088827,2	MCF-7	breast:

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10499237	0.80[CEU][hapmap];0.94[CHB][hapmap];0.89[JPT][hapmap];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11751954	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11753714	0.86[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs11754229	0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11754249	0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12525007	0.94[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs17074210	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17074221	0.80[CEU][hapmap];0.88[CHB][hapmap];0.94[JPT][hapmap];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17074224	0.80[CEU][hapmap];0.88[CHB][hapmap];0.94[JPT][hapmap];0.86[AMR][1000 genomes];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4143181	0.80[CEU][hapmap];0.89[CHB][hapmap];0.94[JPT][hapmap];0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4266507	0.80[CEU][hapmap];0.88[CHB][hapmap];0.94[JPT][hapmap];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4419685	0.94[JPT][hapmap]
rs4895653	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4895656	0.88[ASN][1000 genomes]
rs4896739	0.85[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs4896741	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4896746	0.80[CEU][hapmap];0.83[CHB][hapmap];0.89[JPT][hapmap];0.86[AMR][1000 genomes];0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4896748	0.80[CEU][hapmap];0.86[ASN][1000 genomes]
rs56901236	0.81[ASN][1000 genomes]
rs62427228	0.87[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs62427231	0.86[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs62427233	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62427244	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62427245	0.80[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs62427246	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62427251	0.88[ASN][1000 genomes]
rs62427253	0.88[ASN][1000 genomes]
rs6920589	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7744118	0.80[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9497087	0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9497090	0.80[CEU][hapmap];0.89[CHB][hapmap];0.94[JPT][hapmap];0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9497091	0.80[EUR][1000 genomes];0.88[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	nsv1016747	chr6:144917411-145599874	Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv1032838	chr6:144978504-145110121	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv830833	chr6:145001310-145201143	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
4	nsv1021098	chr6:145017386-145106441	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:145011800-145090200	Weak transcription	Skeletal Muscle Male	skeletal muscle
2	chr6:145011800-145096600	Weak transcription	Thymus	Thymus
3	chr6:145040000-145094600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr6:145040000-145114600	Weak transcription	NHLF	lung
5	chr6:145046000-145122200	Weak transcription	Colonic Mucosa	Colon
6	chr6:145047600-145096600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr6:145047600-145115000	Weak transcription	Esophagus	oesophagus
8	chr6:145047600-145115000	Weak transcription	Rectal Smooth Muscle	rectum
9	chr6:145049400-145098400	Strong transcription	Primary monocytes fromperipheralblood	blood
10	chr6:145049600-145088800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
11	chr6:145054000-145095600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
12	chr6:145054200-145093400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
13	chr6:145054400-145100000	Weak transcription	Rectal Mucosa Donor 31	rectum
14	chr6:145059600-145096600	Weak transcription	Lung	lung
15	chr6:145059600-145097400	Weak transcription	Spleen	Spleen
16	chr6:145059800-145096600	Weak transcription	Fetal Stomach	stomach
17	chr6:145066200-145090200	Weak transcription	Fetal Kidney	kidney
18	chr6:145066200-145126200	Weak transcription	Stomach Mucosa	stomach
19	chr6:145066400-145087800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
20	chr6:145066400-145090400	Weak transcription	Pancreas	Pancrea
21	chr6:145066400-145090600	Weak transcription	H1 Cell Line	embryonic stem cell
22	chr6:145067800-145115800	Strong transcription	Monocytes-CD14+_RO01746	blood
23	chr6:145068800-145090600	Weak transcription	Small Intestine	intestine
24	chr6:145068800-145115000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr6:145069000-145089200	Weak transcription	HSMMtube	muscle
26	chr6:145069600-145093400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
27	chr6:145069800-145094200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
28	chr6:145069800-145101800	Weak transcription	Aorta	Aorta
29	chr6:145070000-145090600	Weak transcription	Left Ventricle	heart
30	chr6:145070000-145092600	Weak transcription	Fetal Intestine Small	intestine
31	chr6:145070200-145088600	Weak transcription	Primary neutrophils fromperipheralblood	blood
32	chr6:145070200-145094000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr6:145070600-145094400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
34	chr6:145072200-145101800	Weak transcription	Fetal Intestine Large	intestine
35	chr6:145072600-145094800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
36	chr6:145072800-145093600	Weak transcription	Placenta	Placenta
37	chr6:145073200-145105400	Weak transcription	Sigmoid Colon	Sigmoid Colon
38	chr6:145073400-145090200	Weak transcription	Skeletal Muscle Female	skeletal muscle
39	chr6:145073800-145089200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr6:145073800-145089800	Weak transcription	HUES64 Cell Line	embryonic stem cell
41	chr6:145074200-145089400	Weak transcription	Fetal Heart	heart
42	chr6:145074400-145094000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
43	chr6:145074600-145087600	Weak transcription	Fetal Muscle Leg	muscle
44	chr6:145074600-145089000	Weak transcription	HUES48 Cell Line	embryonic stem cell
45	chr6:145074600-145089600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
46	chr6:145074600-145089800	Weak transcription	NHDF-Ad	bronchial
47	chr6:145074600-145094400	Weak transcription	Osteobl	bone
48	chr6:145075000-145108800	Strong transcription	Primary B cells from cord blood	blood
49	chr6:145075400-145089800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
50	chr6:145075600-145094400	Weak transcription	GM12878-XiMat	blood

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