Variant report

Variant	rs4946771
Chromosome Location	chr6:107036228-107036229
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:107028799..107031451-chr6:107035031..107036898,2	MCF-7	breast:

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs10499045	0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs12110543	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12111259	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12660628	0.83[JPT][hapmap]
rs12663879	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1676011	0.83[YRI][hapmap]
rs1676014	0.94[YRI][hapmap];0.93[AFR][1000 genomes]
rs1676015	0.94[YRI][hapmap];0.93[AFR][1000 genomes]
rs1676017	0.94[YRI][hapmap];0.93[AFR][1000 genomes]
rs1770727	0.83[YRI][hapmap]
rs1770729	0.93[AFR][1000 genomes]
rs1770730	0.94[YRI][hapmap];0.93[AFR][1000 genomes]
rs1824619	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1981308	0.80[AFR][1000 genomes]
rs2035152	0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2035153	1.00[CHB][hapmap];0.92[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2035154	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2035155	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2353040	0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2353041	1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs3747791	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3747792	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3804343	0.83[JPT][hapmap]
rs4946769	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4946772	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4946773	1.00[CHB][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs59238907	1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6568446	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6900830	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6900886	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6905061	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6905519	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6906495	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6914497	1.00[CHB][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6916265	1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6919395	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6923868	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6925367	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6925512	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6933064	0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6938201	1.00[YRI][hapmap]
rs72613231	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72613232	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72613233	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72613234	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72613235	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72613236	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72613237	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72613238	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72613241	1.00[EUR][1000 genomes]
rs7454323	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7748400	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7749873	0.93[AFR][1000 genomes]
rs7759021	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9372137	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9373878	0.93[AFR][1000 genomes]
rs9373881	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs963683	1.00[YRI][hapmap];0.93[AFR][1000 genomes]
rs968839	0.93[AFR][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	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
2	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

No data

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:106996400-107074000	Weak transcription	Fetal Kidney	kidney
2	chr6:107010200-107064600	Weak transcription	A549	lung
3	chr6:107014400-107038800	Weak transcription	Fetal Brain Female	brain
4	chr6:107016200-107039400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr6:107017800-107041000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
6	chr6:107018000-107052600	Weak transcription	Colonic Mucosa	Colon
7	chr6:107018400-107066400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
8	chr6:107018400-107076400	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr6:107018600-107039000	Weak transcription	Placenta	Placenta
10	chr6:107018800-107039400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr6:107018800-107076200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
12	chr6:107019000-107076200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
13	chr6:107019800-107076400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
14	chr6:107020200-107037600	Weak transcription	Fetal Heart	heart
15	chr6:107022000-107076400	Weak transcription	Primary neutrophils fromperipheralblood	blood
16	chr6:107023200-107038200	Weak transcription	Muscle Satellite Cultured Cells	--
17	chr6:107023200-107038600	Weak transcription	Brain Germinal Matrix	brain
18	chr6:107023400-107038200	Weak transcription	HSMM	muscle
19	chr6:107023400-107038600	Weak transcription	NH-A	brain
20	chr6:107023400-107039000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr6:107023400-107039600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr6:107023400-107050200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr6:107023400-107068800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr6:107023400-107076600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
25	chr6:107023600-107038800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr6:107026400-107038800	Weak transcription	Brain Anterior Caudate	brain
27	chr6:107027600-107038600	Weak transcription	NHDF-Ad	bronchial
28	chr6:107028600-107036400	Strong transcription	Primary B cells from peripheral blood	blood
29	chr6:107029200-107036400	Strong transcription	Monocytes-CD14+_RO01746	blood
30	chr6:107029400-107036400	Strong transcription	Primary T helper cells fromperipheralblood	blood
31	chr6:107029600-107052600	Weak transcription	Pancreas	Pancrea
32	chr6:107029800-107038600	Weak transcription	HSMMtube	muscle
33	chr6:107030600-107038600	Weak transcription	Fetal Thymus	thymus
34	chr6:107030800-107076800	Weak transcription	Small Intestine	intestine
35	chr6:107031000-107038800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr6:107031200-107037800	Weak transcription	Fetal Muscle Leg	muscle
37	chr6:107031200-107038600	Weak transcription	H9 Cell Line	embryonic stem cell
38	chr6:107031200-107038600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr6:107031200-107038600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr6:107031200-107038600	Weak transcription	Skeletal Muscle Male	skeletal muscle
41	chr6:107031200-107038600	Weak transcription	NHLF	lung
42	chr6:107031200-107038800	Weak transcription	Rectal Smooth Muscle	rectum
43	chr6:107031200-107042200	Weak transcription	Esophagus	oesophagus
44	chr6:107031200-107052200	Weak transcription	Thymus	Thymus
45	chr6:107031200-107052600	Weak transcription	Gastric	stomach
46	chr6:107031200-107052800	Weak transcription	Cortex derived primary cultured neurospheres	brain
47	chr6:107031200-107058800	Weak transcription	Psoas Muscle	Psoas
48	chr6:107031200-107077000	Weak transcription	Spleen	Spleen
49	chr6:107031400-107037600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
50	chr6:107031400-107038200	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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