Variant report

Variant	rs6778958
Chromosome Location	chr3:46145011-46145012
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	chr3:46143235..46146105-chr3:46147610..46149596,2	MCF-7	breast:

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10510747	0.98[ASN][1000 genomes]
rs1118021	0.93[ASN][1000 genomes]
rs12486449	0.97[ASN][1000 genomes]
rs13434141	0.97[ASN][1000 genomes]
rs1388602	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1491960	0.97[ASN][1000 genomes]
rs1546079	0.91[ASN][1000 genomes]
rs1602580	0.93[ASN][1000 genomes]
rs1604068	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17078567	0.91[ASN][1000 genomes]
rs17078589	0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2036295	0.88[ASN][1000 genomes]
rs2173639	0.88[ASN][1000 genomes]
rs2888512	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4490402	0.89[ASN][1000 genomes]
rs4586860	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4682804	0.98[ASN][1000 genomes]
rs4682805	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4682807	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4683174	0.89[ASN][1000 genomes]
rs61066315	0.97[ASN][1000 genomes]
rs61387489	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62242846	0.87[ASN][1000 genomes]
rs62243869	0.89[ASN][1000 genomes]
rs62243873	0.98[ASN][1000 genomes]
rs62243875	0.83[ASN][1000 genomes]
rs62243876	0.83[ASN][1000 genomes]
rs751625	0.98[ASN][1000 genomes]
rs7641151	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7641164	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs880160	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9818635	0.86[ASN][1000 genomes]
rs9849715	0.98[ASN][1000 genomes]
rs9856805	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9990060	0.97[EUR][1000 genomes];0.98[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	nsv876734	chr3:45725031-46468467	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv498008	chr3:45733423-46319401	Strong transcription Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46129200-46147400	Enhancers	Primary monocytes fromperipheralblood	blood
2	chr3:46129400-46154200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
3	chr3:46131400-46152200	Weak transcription	Pancreas	Pancrea
4	chr3:46139200-46150600	Weak transcription	Lung	lung
5	chr3:46140400-46146000	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr3:46140400-46149200	Weak transcription	NHLF	lung
7	chr3:46140400-46150000	Weak transcription	Skeletal Muscle Female	skeletal muscle
8	chr3:46140600-46146200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
9	chr3:46140600-46150000	Weak transcription	Hela-S3	cervix
10	chr3:46140600-46150000	Weak transcription	HMEC	breast
11	chr3:46140800-46150000	Weak transcription	Duodenum Mucosa	Duodenum
12	chr3:46141000-46146000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
13	chr3:46141000-46148800	Weak transcription	Primary T helper cells fromperipheralblood	blood
14	chr3:46141000-46150200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
15	chr3:46141200-46145800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
16	chr3:46142000-46145200	Weak transcription	Dnd41	blood
17	chr3:46142600-46146000	Weak transcription	Primary B cells from peripheral blood	blood
18	chr3:46142800-46147400	Enhancers	Primary neutrophils fromperipheralblood	blood
19	chr3:46143000-46145800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
20	chr3:46143200-46146200	Weak transcription	Primary B cells from cord blood	blood
21	chr3:46143200-46150600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr3:46143400-46146000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr3:46143400-46147400	Enhancers	Monocytes-CD14+_RO01746	blood
24	chr3:46143800-46153000	Enhancers	Fetal Thymus	thymus
25	chr3:46144200-46147400	Enhancers	Primary T cells fromperipheralblood	blood
26	chr3:46144800-46149200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
27	chr3:46144800-46150600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr3:46145000-46147800	Enhancers	Primary T killer memory cells from peripheral blood	blood

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