Variant report

Variant	rs17422406
Chromosome Location	chr5:60735393-60735394
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	chr5:60734169..60736983-chr5:60739460..60742166,2	MCF-7	breast:

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10447098	0.89[ASW][hapmap];0.95[CEU][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs17422055	0.95[CEU][hapmap];1.00[YRI][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17422192	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2084130	1.00[CHD][hapmap]
rs56802710	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs58234049	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs59375059	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs60859415	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs61325511	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7713032	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7719672	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7723653	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7732866	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]

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	esv2753894	chr5:60731458-60777345	Weak transcription Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:60711000-60735800	Weak transcription	Monocytes-CD14+_RO01746	blood
2	chr5:60719800-60745200	Weak transcription	NHDF-Ad	bronchial
3	chr5:60720000-60736400	Weak transcription	Primary hematopoietic stem cells	blood
4	chr5:60720000-60737400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr5:60720600-60743200	Weak transcription	HSMMtube	muscle
6	chr5:60725600-60737400	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr5:60726000-60736600	Weak transcription	Right Atrium	heart
8	chr5:60726800-60745600	Weak transcription	Stomach Mucosa	stomach
9	chr5:60728400-60737200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr5:60728400-60745400	Weak transcription	Ovary	ovary
11	chr5:60728600-60737400	Weak transcription	Fetal Lung	lung
12	chr5:60728600-60737400	Weak transcription	Fetal Stomach	stomach
13	chr5:60728800-60737600	Weak transcription	Colon Smooth Muscle	Colon
14	chr5:60729000-60737000	Weak transcription	Rectal Mucosa Donor 29	rectum
15	chr5:60730200-60737600	Enhancers	Brain Inferior Temporal Lobe	brain
16	chr5:60730400-60735800	Enhancers	Brain Substantia Nigra	brain
17	chr5:60731200-60737000	Enhancers	Brain Anterior Caudate	brain
18	chr5:60731600-60736600	Weak transcription	Pancreatic Islets	Pancreatic Islet
19	chr5:60732000-60737800	Enhancers	Brain Hippocampus Middle	brain
20	chr5:60732400-60736000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
21	chr5:60732400-60737200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr5:60732600-60736200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr5:60732600-60743000	Weak transcription	Aorta	Aorta
24	chr5:60733000-60745600	Weak transcription	Psoas Muscle	Psoas
25	chr5:60733200-60735400	Weak transcription	HMEC	breast
26	chr5:60733400-60735400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
27	chr5:60733400-60737400	Weak transcription	Gastric	stomach
28	chr5:60733400-60745200	Weak transcription	Pancreas	Pancrea
29	chr5:60733400-60745400	Weak transcription	Esophagus	oesophagus
30	chr5:60733400-60746800	Weak transcription	Left Ventricle	heart
31	chr5:60733600-60737400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr5:60734200-60736600	Weak transcription	Duodenum Smooth Muscle	Duodenum
33	chr5:60734200-60738000	Enhancers	Brain Cingulate Gyrus	brain
34	chr5:60734400-60737800	Enhancers	Breast Myoepithelial Primary Cells	Breast
35	chr5:60734600-60735600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr5:60734600-60745200	Weak transcription	Osteobl	bone
37	chr5:60734800-60737600	Weak transcription	Fetal Brain Male	brain
38	chr5:60734800-60740600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr5:60735200-60736400	Weak transcription	A549	lung
40	chr5:60735200-60737000	Enhancers	NHEK	skin
41	chr5:60735200-60737800	Enhancers	Brain Angular Gyrus	brain
42	chr5:60735200-60745400	Weak transcription	Muscle Satellite Cultured Cells	--

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