Variant report

Variant	rs9866423
Chromosome Location	chr3:70010089-70010090
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	chr3:70009370..70011252-chr3:70011508..70014285,2	MCF-7	breast:

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs11128148	0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs11128151	1.00[CHB][hapmap]
rs12106831	1.00[CHB][hapmap]
rs12106842	1.00[CHB][hapmap]
rs12106907	1.00[CHB][hapmap]
rs12106913	1.00[CHB][hapmap]
rs12107208	1.00[CHB][hapmap]
rs12107267	1.00[CHB][hapmap]
rs12107405	1.00[CHB][hapmap]
rs12107744	1.00[CHB][hapmap]
rs12108172	1.00[CHB][hapmap]
rs1430600	0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs1532199	1.00[CHB][hapmap]
rs17006441	1.00[CHB][hapmap]
rs17006565	1.00[CHB][hapmap]
rs17006578	1.00[CHB][hapmap]
rs28480308	0.83[ASN][1000 genomes]
rs6549252	1.00[CHB][hapmap]
rs724794	1.00[CHB][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9310177	1.00[CHB][hapmap]
rs9820221	1.00[CHB][hapmap];0.83[ASN][1000 genomes]
rs9827888	1.00[CHB][hapmap];0.84[YRI][hapmap]
rs9840417	1.00[CHB][hapmap];0.81[YRI][hapmap]
rs9843596	1.00[CHB][hapmap]
rs9843611	1.00[CHB][hapmap];0.81[YRI][hapmap]
rs9847658	1.00[CHB][hapmap];0.81[YRI][hapmap]
rs9873727	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9882545	0.81[YRI][hapmap]
rs9882576	1.00[CHB][hapmap];0.84[YRI][hapmap]
rs9917631	1.00[CHB][hapmap];0.84[YRI][hapmap]
rs9917633	1.00[CHB][hapmap];0.94[YRI][hapmap];0.83[AMR][1000 genomes]
rs9917634	1.00[CHB][hapmap];0.83[YRI][hapmap]
rs9917686	1.00[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533396	chr3:69964029-70538306	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:59 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:69975800-70013800	Weak transcription	Psoas Muscle	Psoas
2	chr3:69978600-70014000	Weak transcription	Esophagus	oesophagus
3	chr3:69981800-70016800	Weak transcription	K562	blood
4	chr3:69990800-70015600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr3:69993600-70015600	Weak transcription	Colonic Mucosa	Colon
6	chr3:69994400-70016200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr3:69998000-70016000	Weak transcription	Rectal Mucosa Donor 31	rectum
8	chr3:69998200-70017600	Weak transcription	Duodenum Mucosa	Duodenum
9	chr3:69998400-70011200	Weak transcription	Brain Hippocampus Middle	brain
10	chr3:69998400-70016000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
11	chr3:69998800-70014200	Weak transcription	A549	lung
12	chr3:70001600-70017200	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr3:70003800-70016600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
14	chr3:70004600-70017000	Weak transcription	Pancreatic Islets	Pancreatic Islet
15	chr3:70005400-70017000	Weak transcription	Hela-S3	cervix
16	chr3:70006000-70017400	Weak transcription	Muscle Satellite Cultured Cells	--
17	chr3:70006200-70010200	Strong transcription	Skeletal Muscle Female	skeletal muscle
18	chr3:70006800-70012600	Strong transcription	Monocytes-CD14+_RO01746	blood
19	chr3:70007200-70017400	Weak transcription	Fetal Muscle Trunk	muscle
20	chr3:70007400-70010200	Genic enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr3:70007400-70010200	Strong transcription	Stomach Smooth Muscle	stomach
22	chr3:70007600-70010200	Strong transcription	Primary monocytes fromperipheralblood	blood
23	chr3:70007600-70015400	Weak transcription	Sigmoid Colon	Sigmoid Colon
24	chr3:70007600-70016200	Weak transcription	Spleen	Spleen
25	chr3:70008400-70010200	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr3:70008400-70010200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr3:70008400-70010200	Strong transcription	Adipose Nuclei	Adipose
28	chr3:70008400-70010200	Strong transcription	Fetal Muscle Leg	muscle
29	chr3:70008400-70010200	Strong transcription	Left Ventricle	heart
30	chr3:70008400-70010200	Strong transcription	Ovary	ovary
31	chr3:70008400-70010200	Strong transcription	HSMMtube	muscle
32	chr3:70008400-70010400	Strong transcription	Skeletal Muscle Male	skeletal muscle
33	chr3:70008600-70010200	Strong transcription	Liver	Liver
34	chr3:70008600-70010200	Strong transcription	Fetal Kidney	kidney
35	chr3:70009000-70016000	Weak transcription	Gastric	stomach
36	chr3:70009000-70021200	Weak transcription	Rectal Smooth Muscle	rectum
37	chr3:70009200-70010800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
38	chr3:70009200-70014000	Weak transcription	Lung	lung
39	chr3:70009200-70014000	Weak transcription	NHLF	lung
40	chr3:70009200-70015800	Weak transcription	Brain Angular Gyrus	brain
41	chr3:70009200-70015800	Weak transcription	HSMM	muscle
42	chr3:70009400-70011200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr3:70009400-70015400	Weak transcription	Fetal Lung	lung
44	chr3:70009400-70015800	Weak transcription	Brain Inferior Temporal Lobe	brain
45	chr3:70009600-70013800	Weak transcription	Fetal Stomach	stomach
46	chr3:70009600-70015800	Weak transcription	Brain Substantia Nigra	brain
47	chr3:70009600-70015800	Weak transcription	Right Ventricle	heart
48	chr3:70009600-70016000	Weak transcription	Aorta	Aorta
49	chr3:70009600-70018800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr3:70009800-70014000	Weak transcription	Duodenum Smooth Muscle	Duodenum

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