Variant report

Variant	rs4742801
Chromosome Location	chr9:98734269-98734270
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10989106	0.85[MEX][hapmap]
rs12003772	0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12551596	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs12551880	0.88[ASN][1000 genomes]
rs12554182	0.85[ASN][1000 genomes]
rs12555687	0.91[ASN][1000 genomes]
rs1413178	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs16910333	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16910342	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16910409	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16910427	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17303073	1.00[ASW][hapmap]
rs17303324	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs2280143	0.89[JPT][hapmap]
rs2297009	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2423	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3739755	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3739756	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.90[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4742763	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs4742769	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs4743327	1.00[CHB][hapmap];0.86[JPT][hapmap];0.81[ASN][1000 genomes]
rs4743351	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs4743383	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4743460	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4743469	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4743507	1.00[AFR][1000 genomes]
rs4743508	1.00[AFR][1000 genomes]
rs55651016	0.95[ASN][1000 genomes]
rs55770584	0.88[ASN][1000 genomes]
rs55781050	0.91[ASN][1000 genomes]
rs55797980	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs55849673	1.00[AFR][1000 genomes]
rs55865494	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs55881510	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55888215	1.00[AFR][1000 genomes]
rs56063686	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56070531	0.88[ASN][1000 genomes]
rs56110216	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56125887	0.91[ASN][1000 genomes]
rs56319412	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs56372801	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56403401	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57096664	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs57287260	1.00[AFR][1000 genomes]
rs58654424	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs59046245	0.91[ASN][1000 genomes]
rs59189545	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs60351339	1.00[AFR][1000 genomes]
rs61036807	0.91[ASN][1000 genomes]
rs61093440	0.91[ASN][1000 genomes]
rs9792431	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9792684	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 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
3	nsv1035723	chr9:98701628-98734356	Weak transcription ZNF genes & repeats Strong transcription Enhancers Genic enhancers	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:98681800-98736600	Weak transcription	Colonic Mucosa	Colon
2	chr9:98686400-98743800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
3	chr9:98695800-98742400	Weak transcription	NHLF	lung
4	chr9:98706400-98777400	Weak transcription	Psoas Muscle	Psoas
5	chr9:98710000-98735000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr9:98710400-98741400	Weak transcription	Brain Anterior Caudate	brain
7	chr9:98711000-98743400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
8	chr9:98714000-98782600	Weak transcription	HUVEC	blood vessel
9	chr9:98716600-98734400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr9:98719000-98738600	Weak transcription	Aorta	Aorta
11	chr9:98719000-98743800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
12	chr9:98719000-98751400	Weak transcription	Stomach Mucosa	stomach
13	chr9:98719200-98734800	Weak transcription	Brain Hippocampus Middle	brain
14	chr9:98719200-98744000	Weak transcription	Brain Substantia Nigra	brain
15	chr9:98719200-98744400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
16	chr9:98719200-98749600	Weak transcription	Fetal Intestine Small	intestine
17	chr9:98719200-98749800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr9:98719200-98752800	Weak transcription	Pancreas	Pancrea
19	chr9:98719200-98764200	Weak transcription	Spleen	Spleen
20	chr9:98719200-98767800	Weak transcription	Rectal Smooth Muscle	rectum
21	chr9:98719400-98734800	Weak transcription	Fetal Kidney	kidney
22	chr9:98719400-98742800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
23	chr9:98719400-98744000	Weak transcription	Brain Cingulate Gyrus	brain
24	chr9:98719400-98744000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
25	chr9:98719400-98767200	Weak transcription	Right Ventricle	heart
26	chr9:98719400-98771000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr9:98719600-98743800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
28	chr9:98719600-98766800	Weak transcription	Colon Smooth Muscle	Colon
29	chr9:98720000-98735600	Weak transcription	Placenta Amnion	Placenta Amnion
30	chr9:98722400-98734400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr9:98722400-98747800	Weak transcription	Fetal Heart	heart
32	chr9:98722800-98734600	Weak transcription	Brain Germinal Matrix	brain
33	chr9:98723000-98734800	Weak transcription	Fetal Brain Male	brain
34	chr9:98723800-98749800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
35	chr9:98725400-98743600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr9:98726400-98767800	Weak transcription	Gastric	stomach
37	chr9:98728600-98736400	Strong transcription	Dnd41	blood
38	chr9:98730000-98744400	Weak transcription	Fetal Stomach	stomach
39	chr9:98730600-98751200	Weak transcription	Small Intestine	intestine
40	chr9:98731600-98736200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
41	chr9:98731600-98736400	Strong transcription	Primary hematopoietic stem cells	blood
42	chr9:98731800-98735400	Strong transcription	Primary T helper cells PMA-I stimulated	--
43	chr9:98731800-98736800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
44	chr9:98732000-98735400	Strong transcription	NH-A	brain
45	chr9:98732000-98735600	Strong transcription	Primary T cells fromperipheralblood	blood
46	chr9:98732200-98747400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
47	chr9:98732200-98751200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
48	chr9:98732600-98736600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
49	chr9:98732600-98737000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
50	chr9:98732600-98737000	Strong transcription	Fetal Lung	lung

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