Variant report

Variant	rs17725644
Chromosome Location	chr9:101999398-101999399
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:101946925..101949879-chr9:101998361..102000209,2	K562	blood:
2	chr9:101932557..101934266-chr9:101997104..101999753,2	MCF-7	breast:
3	chr9:101995691..101997304-chr9:101997737..101999686,2	MCF-7	breast:
4	chr9:101984678..101986667-chr9:101998272..102000928,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000240235	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10819642	0.82[EUR][1000 genomes]
rs10988749	0.85[GIH][hapmap]
rs11545137	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11788822	0.86[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs12002203	1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[ASN][1000 genomes]
rs12003123	0.87[ASN][1000 genomes]
rs12005715	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs16918376	1.00[ASN][1000 genomes]
rs17725470	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17725597	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17725608	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17725679	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs17725720	1.00[ASN][1000 genomes]
rs17787503	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17787533	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17787606	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[MEX][hapmap];0.84[TSI][hapmap];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28608552	1.00[ASN][1000 genomes]
rs35626507	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3780616	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41274646	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs41274648	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4265241	1.00[ASN][1000 genomes]
rs4554535	1.00[ASN][1000 genomes]
rs55676416	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58644416	1.00[ASN][1000 genomes]
rs73653775	1.00[ASN][1000 genomes]
rs7857426	0.87[ASN][1000 genomes]
rs7863354	1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[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	nsv831666	chr9:101874985-102018690	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:109 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:101985400-102004400	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr9:101986200-102003000	Strong transcription	Fetal Muscle Leg	muscle
3	chr9:101987800-102007600	Weak transcription	Small Intestine	intestine
4	chr9:101988800-102005800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
5	chr9:101989200-102001600	Weak transcription	Right Atrium	heart
6	chr9:101989200-102001800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr9:101991000-102001600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr9:101991000-102015800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
9	chr9:101991200-102000800	Weak transcription	Fetal Intestine Small	intestine
10	chr9:101991200-102002600	Weak transcription	Colonic Mucosa	Colon
11	chr9:101991200-102007400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr9:101991800-102000800	Weak transcription	Aorta	Aorta
13	chr9:101991800-102001600	Weak transcription	Gastric	stomach
14	chr9:101991800-102004000	Weak transcription	Spleen	Spleen
15	chr9:101991800-102007800	Weak transcription	Pancreatic Islets	Pancreatic Islet
16	chr9:101992000-101999600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr9:101992000-102003600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
18	chr9:101993400-102000800	Weak transcription	Brain Angular Gyrus	brain
19	chr9:101993400-102007400	Weak transcription	Fetal Lung	lung
20	chr9:101993600-101999400	Weak transcription	Stomach Mucosa	stomach
21	chr9:101993600-102015800	Weak transcription	Brain Cingulate Gyrus	brain
22	chr9:101993600-102018200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr9:101993800-102001200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
24	chr9:101993800-102008000	Weak transcription	Cortex derived primary cultured neurospheres	brain
25	chr9:101994000-102005800	Weak transcription	Hela-S3	cervix
26	chr9:101994200-102007000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
27	chr9:101994400-102007600	Weak transcription	Fetal Kidney	kidney
28	chr9:101994600-101999600	Weak transcription	K562	blood
29	chr9:101994600-102002000	Weak transcription	NHLF	lung
30	chr9:101994800-102016000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
31	chr9:101995000-102001400	Weak transcription	NHDF-Ad	bronchial
32	chr9:101995000-102003600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
33	chr9:101995000-102005400	Weak transcription	Brain Substantia Nigra	brain
34	chr9:101995400-102003400	Weak transcription	HUVEC	blood vessel
35	chr9:101995400-102003600	Weak transcription	NHEK	skin
36	chr9:101995600-101999400	Weak transcription	Brain Inferior Temporal Lobe	brain
37	chr9:101995600-102001600	Weak transcription	Left Ventricle	heart
38	chr9:101995600-102001600	Weak transcription	Lung	lung
39	chr9:101995600-102001600	Weak transcription	HMEC	breast
40	chr9:101995600-102004200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
41	chr9:101995600-102015400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
42	chr9:101995800-102001000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
43	chr9:101995800-102001200	Weak transcription	HUES64 Cell Line	embryonic stem cell
44	chr9:101995800-102001200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
45	chr9:101995800-102001400	Weak transcription	HSMM	muscle
46	chr9:101995800-102001400	Weak transcription	NH-A	brain
47	chr9:101995800-102001400	Weak transcription	Osteobl	bone
48	chr9:101995800-102001600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
49	chr9:101995800-102001600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
50	chr9:101995800-102001600	Weak transcription	Duodenum Mucosa	Duodenum

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