Variant report

Variant	rs9860843
Chromosome Location	chr3:178906876-178906877
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:178899642..178902077-chr3:178904169..178907313,3	K562	blood:
2	chr3:178889061..178891401-chr3:178905876..178907714,2	MCF-7	breast:
3	chr3:178903831..178906930-chr3:178907124..178910138,3	K562	blood:
4	chr3:178904719..178907531-chr3:178916188..178917944,2	MCF-7	breast:

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10936993	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12486399	0.96[EUR][1000 genomes]
rs12497857	0.92[EUR][1000 genomes]
rs13320527	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1517585	0.98[EUR][1000 genomes]
rs2865084	0.96[EUR][1000 genomes]
rs28697961	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs45455192	0.98[EUR][1000 genomes]
rs4854906	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4854940	0.98[EUR][1000 genomes]
rs4854955	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4854976	0.96[EUR][1000 genomes]
rs4855094	0.98[EUR][1000 genomes]
rs60713157	0.81[EUR][1000 genomes]
rs61404287	0.92[EUR][1000 genomes]
rs61796464	0.98[EUR][1000 genomes]
rs61796465	0.96[EUR][1000 genomes]
rs61796466	0.98[EUR][1000 genomes]
rs61796467	0.98[EUR][1000 genomes]
rs61798205	0.81[EUR][1000 genomes]
rs61798206	0.81[EUR][1000 genomes]
rs61798207	0.81[EUR][1000 genomes]
rs61798211	0.92[EUR][1000 genomes]
rs61798213	0.92[EUR][1000 genomes]
rs6443623	0.96[EUR][1000 genomes]
rs6791215	0.92[EUR][1000 genomes]
rs6804195	0.81[EUR][1000 genomes]
rs73051979	0.98[EUR][1000 genomes]
rs73054091	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7374077	0.88[EUR][1000 genomes]
rs7615259	0.96[EUR][1000 genomes]
rs950486	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9758036	0.81[EUR][1000 genomes]
rs9812252	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9819654	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9823044	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9833206	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9872959	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9878005	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][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	nsv998253	chr3:178622707-179196274	Flanking Active TSS Weak transcription Strong transcription Enhancers Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	nsv536814	chr3:178622707-179196274	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
3	esv3354111	chr3:178833305-179156908	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:79 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:178887200-178912000	Weak transcription	Thymus	Thymus
2	chr3:178896800-178912200	Weak transcription	Primary T cells fromperipheralblood	blood
3	chr3:178896800-178912400	Weak transcription	Duodenum Mucosa	Duodenum
4	chr3:178897800-178919400	Weak transcription	Fetal Intestine Small	intestine
5	chr3:178899000-178907400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr3:178899000-178907600	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr3:178899200-178907400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr3:178899200-178907400	Weak transcription	Brain Cingulate Gyrus	brain
9	chr3:178899200-178951800	Weak transcription	K562	blood
10	chr3:178900000-178929800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
11	chr3:178900400-178912200	Weak transcription	Primary B cells from peripheral blood	blood
12	chr3:178900400-178912400	Weak transcription	NH-A	brain
13	chr3:178900600-178907200	Weak transcription	Brain Inferior Temporal Lobe	brain
14	chr3:178900600-178912000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr3:178900600-178912000	Weak transcription	Left Ventricle	heart
16	chr3:178900600-178912200	Weak transcription	Pancreas	Pancrea
17	chr3:178900800-178907800	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr3:178900800-178912400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
19	chr3:178900800-178913400	Weak transcription	Osteobl	bone
20	chr3:178901000-178907600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
21	chr3:178901000-178907600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr3:178901000-178913200	Weak transcription	Primary hematopoietic stem cells	blood
23	chr3:178901200-178907200	Weak transcription	Fetal Lung	lung
24	chr3:178901200-178912600	Weak transcription	Liver	Liver
25	chr3:178901400-178907200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr3:178902200-178907200	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr3:178902200-178907600	Weak transcription	Psoas Muscle	Psoas
28	chr3:178902200-178907600	Weak transcription	Right Atrium	heart
29	chr3:178902200-178907600	Weak transcription	Small Intestine	intestine
30	chr3:178902400-178907200	Weak transcription	Brain Angular Gyrus	brain
31	chr3:178902400-178907200	Weak transcription	Rectal Smooth Muscle	rectum
32	chr3:178902400-178908400	Weak transcription	Aorta	Aorta
33	chr3:178902800-178907200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
34	chr3:178902800-178912000	Weak transcription	Fetal Thymus	thymus
35	chr3:178903400-178907600	Weak transcription	Adipose Nuclei	Adipose
36	chr3:178904000-178907800	Weak transcription	Right Ventricle	heart
37	chr3:178904000-178918600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
38	chr3:178904200-178907200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr3:178904200-178907200	Weak transcription	Colon Smooth Muscle	Colon
40	chr3:178904400-178907200	Weak transcription	HUES64 Cell Line	embryonic stem cell
41	chr3:178904400-178907200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr3:178904400-178907400	Weak transcription	Brain Anterior Caudate	brain
43	chr3:178904400-178907600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
44	chr3:178904400-178912400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
45	chr3:178904400-178912800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
46	chr3:178904400-178912800	Weak transcription	Brain Substantia Nigra	brain
47	chr3:178904600-178907200	Weak transcription	HUES48 Cell Line	embryonic stem cell
48	chr3:178904600-178907200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
49	chr3:178904600-178907200	Weak transcription	Muscle Satellite Cultured Cells	--
50	chr3:178904600-178907200	Weak transcription	Cortex derived primary cultured neurospheres	brain

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