Variant report

Variant	rs17009168
Chromosome Location	chr4:85530796-85530797
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 11 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs10000060	0.92[ASN][1000 genomes]
rs10446678	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11099650	0.82[MEX][hapmap];0.94[YRI][hapmap]
rs13110728	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1838038	0.95[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs2120091	0.95[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35928242	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6842038	0.86[CEU][hapmap];0.86[CHB][hapmap];0.94[YRI][hapmap];0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6853486	0.95[CHB][hapmap];0.98[CHD][hapmap];0.95[JPT][hapmap];0.87[MEX][hapmap];0.82[TSI][hapmap];0.99[ASN][1000 genomes]
rs7689916	0.83[ASN][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	esv2830333	chr4:85520643-85545644	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17009168	NCRNA00247	cis	cerebellum	SCAN

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:85508800-85531000	Weak transcription	Pancreas	Pancrea
2	chr4:85512000-85531000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr4:85515400-85544400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr4:85517800-85531400	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr4:85518000-85531200	Weak transcription	HUES6 Cell Line	embryonic stem cell
6	chr4:85518600-85536200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr4:85518600-85574800	Weak transcription	Stomach Mucosa	stomach
8	chr4:85518800-85531000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr4:85519000-85536000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr4:85520400-85559400	Weak transcription	Fetal Heart	heart
11	chr4:85524400-85530800	Weak transcription	Rectal Mucosa Donor 29	rectum
12	chr4:85524600-85536400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr4:85524600-85536400	Weak transcription	Esophagus	oesophagus
14	chr4:85524800-85533800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
15	chr4:85525000-85564200	Weak transcription	Placenta	Placenta
16	chr4:85526800-85583000	Weak transcription	Gastric	stomach
17	chr4:85527800-85535400	Strong transcription	Fetal Intestine Small	intestine
18	chr4:85528200-85548200	Weak transcription	Colonic Mucosa	Colon
19	chr4:85528400-85531200	Weak transcription	NHEK	skin
20	chr4:85528400-85564000	Weak transcription	Fetal Kidney	kidney
21	chr4:85528800-85534600	Weak transcription	Right Ventricle	heart
22	chr4:85529000-85533200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr4:85529200-85532600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr4:85529200-85532600	Strong transcription	Fetal Intestine Large	intestine
25	chr4:85529200-85534400	Weak transcription	Lung	lung
26	chr4:85529400-85531000	Weak transcription	Sigmoid Colon	Sigmoid Colon
27	chr4:85529400-85581600	Weak transcription	Ovary	ovary
28	chr4:85529600-85532200	Weak transcription	Small Intestine	intestine
29	chr4:85529600-85533800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr4:85529600-85587600	Weak transcription	Placenta Amnion	Placenta Amnion
31	chr4:85529800-85532400	Strong transcription	Duodenum Mucosa	Duodenum
32	chr4:85529800-85533600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
33	chr4:85530000-85530800	Weak transcription	Brain Anterior Caudate	brain
34	chr4:85530000-85531200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
35	chr4:85530000-85532600	Strong transcription	HUES64 Cell Line	embryonic stem cell
36	chr4:85530400-85533200	Strong transcription	HMEC	breast
37	chr4:85530600-85531400	Strong transcription	Monocytes-CD14+_RO01746	blood
38	chr4:85530600-85531800	Strong transcription	iPS-18 Cell Line	embryonic stem cell
39	chr4:85530600-85532200	Strong transcription	H1 Cell Line	embryonic stem cell
40	chr4:85530600-85532600	Strong transcription	HUES48 Cell Line	embryonic stem cell
41	chr4:85530600-85532600	Strong transcription	Rectal Mucosa Donor 31	rectum

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