Variant report

Variant	rs17396240
Chromosome Location	chr9:98738799-98738800
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 83 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:81)

rs_ID	r²[population]
rs10512243	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10512244	0.85[GIH][hapmap];0.93[TSI][hapmap]
rs1410297	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1434729	0.83[CEU][hapmap];0.86[TSI][hapmap];0.81[AMR][1000 genomes]
rs16910291	0.83[CEU][hapmap];0.90[AMR][1000 genomes]
rs16910302	0.83[CEU][hapmap];0.95[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes]
rs16910370	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes]
rs16910376	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs16910382	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs16910396	0.85[GIH][hapmap];0.87[TSI][hapmap]
rs17303045	0.83[CEU][hapmap];0.90[GIH][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes]
rs17304942	1.00[CEU][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17305138	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17305329	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17305917	0.90[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs17393861	0.83[CEU][hapmap];0.90[GIH][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap]
rs17394582	0.83[CEU][hapmap];0.90[GIH][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes]
rs17394881	0.98[AMR][1000 genomes]
rs17396338	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17396553	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17396860	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1972802	0.86[AMR][1000 genomes]
rs2026643	0.85[YRI][hapmap]
rs2149099	1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2149100	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2176026	1.00[CEU][hapmap];1.00[AMR][1000 genomes]
rs3802439	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4144585	1.00[CEU][hapmap];1.00[AMR][1000 genomes]
rs55645821	0.84[EUR][1000 genomes]
rs55699149	0.90[AMR][1000 genomes]
rs55746108	0.90[AMR][1000 genomes]
rs55787215	0.87[EUR][1000 genomes]
rs55810950	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55923424	0.90[AMR][1000 genomes]
rs55962207	0.83[AMR][1000 genomes]
rs55983886	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56016781	0.87[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs56108623	0.98[AMR][1000 genomes]
rs56162045	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs56217203	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56225283	0.84[EUR][1000 genomes]
rs56379566	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs56678652	1.00[AMR][1000 genomes]
rs62559011	0.90[AMR][1000 genomes]
rs62559012	0.90[AMR][1000 genomes]
rs62559013	0.90[AMR][1000 genomes]
rs62559025	0.90[AMR][1000 genomes]
rs62559027	0.90[AMR][1000 genomes]
rs62559029	0.93[AMR][1000 genomes]
rs62559030	0.93[AMR][1000 genomes]
rs62559031	0.93[AMR][1000 genomes]
rs62559053	0.98[AMR][1000 genomes]
rs62559054	1.00[AMR][1000 genomes]
rs62559055	1.00[AMR][1000 genomes]
rs62559057	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs62559058	0.98[AMR][1000 genomes]
rs62559059	1.00[AMR][1000 genomes]
rs62559760	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62559762	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62559763	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62559766	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62559769	0.87[EUR][1000 genomes]
rs62559794	0.90[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs62559796	0.84[EUR][1000 genomes]
rs62562960	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs62562961	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs62562963	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs62562966	0.95[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62562967	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62562970	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62562979	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62562980	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62562981	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62562982	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62562985	0.98[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62562986	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62562989	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62562992	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73532684	0.82[AMR][1000 genomes]
rs7848465	0.83[CEU][hapmap]
rs7864473	0.82[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893599	chr9:98542410-98991254	Bivalent Enhancer Enhancers Strong transcription Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	52 gene(s)	inside rSNPs	diseases
2	nsv893600	chr9:98608989-98775459	Weak transcription Strong transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:98686400-98743800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
2	chr9:98695800-98742400	Weak transcription	NHLF	lung
3	chr9:98706400-98777400	Weak transcription	Psoas Muscle	Psoas
4	chr9:98710400-98741400	Weak transcription	Brain Anterior Caudate	brain
5	chr9:98711000-98743400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
6	chr9:98714000-98782600	Weak transcription	HUVEC	blood vessel
7	chr9:98719000-98743800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
8	chr9:98719000-98751400	Weak transcription	Stomach Mucosa	stomach
9	chr9:98719200-98744000	Weak transcription	Brain Substantia Nigra	brain
10	chr9:98719200-98744400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr9:98719200-98749600	Weak transcription	Fetal Intestine Small	intestine
12	chr9:98719200-98749800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr9:98719200-98752800	Weak transcription	Pancreas	Pancrea
14	chr9:98719200-98764200	Weak transcription	Spleen	Spleen
15	chr9:98719200-98767800	Weak transcription	Rectal Smooth Muscle	rectum
16	chr9:98719400-98742800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
17	chr9:98719400-98744000	Weak transcription	Brain Cingulate Gyrus	brain
18	chr9:98719400-98744000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr9:98719400-98767200	Weak transcription	Right Ventricle	heart
20	chr9:98719400-98771000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr9:98719600-98743800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
22	chr9:98719600-98766800	Weak transcription	Colon Smooth Muscle	Colon
23	chr9:98722400-98747800	Weak transcription	Fetal Heart	heart
24	chr9:98723800-98749800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr9:98725400-98743600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr9:98726400-98767800	Weak transcription	Gastric	stomach
27	chr9:98730000-98744400	Weak transcription	Fetal Stomach	stomach
28	chr9:98730600-98751200	Weak transcription	Small Intestine	intestine
29	chr9:98732200-98747400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
30	chr9:98732200-98751200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr9:98732600-98741000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr9:98733000-98749600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
33	chr9:98734400-98739200	Weak transcription	Esophagus	oesophagus
34	chr9:98734600-98742600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr9:98734600-98742600	Weak transcription	Brain Inferior Temporal Lobe	brain
36	chr9:98734600-98744000	Weak transcription	Brain Angular Gyrus	brain
37	chr9:98734600-98749800	Weak transcription	H9 Cell Line	embryonic stem cell
38	chr9:98734600-98764400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
39	chr9:98734600-98767800	Weak transcription	Skeletal Muscle Male	skeletal muscle
40	chr9:98734600-98782400	Weak transcription	NHEK	skin
41	chr9:98735000-98742600	Weak transcription	Brain Germinal Matrix	brain
42	chr9:98735200-98740200	Weak transcription	Primary B cells from peripheral blood	blood
43	chr9:98735200-98742400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
44	chr9:98735200-98742600	Weak transcription	Rectal Mucosa Donor 31	rectum
45	chr9:98735200-98751600	Weak transcription	NHDF-Ad	bronchial
46	chr9:98735400-98740400	Weak transcription	Duodenum Smooth Muscle	Duodenum
47	chr9:98735400-98741400	Weak transcription	NH-A	brain
48	chr9:98735400-98743200	Weak transcription	Primary T helper cells PMA-I stimulated	--
49	chr9:98735400-98747200	Weak transcription	A549	lung
50	chr9:98735400-98778400	Weak transcription	Hela-S3	cervix

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