Variant report

Variant	rs9388789
Chromosome Location	chr6:99320715-99320716
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 53 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10484609	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[ASN][1000 genomes]
rs12110362	1.00[ASN][1000 genomes]
rs12110701	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];1.00[ASN][1000 genomes]
rs12110702	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];1.00[ASN][1000 genomes]
rs13194064	1.00[ASN][1000 genomes]
rs13217727	1.00[ASN][1000 genomes]
rs195842	0.94[ASN][1000 genomes]
rs2016597	0.85[EUR][1000 genomes]
rs2124137	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2267924	1.00[ASN][1000 genomes]
rs2281123	1.00[ASN][1000 genomes]
rs2300060	1.00[ASN][1000 genomes]
rs2300063	1.00[CEU][hapmap];0.81[YRI][hapmap]
rs2388750	0.85[EUR][1000 genomes]
rs2572095	1.00[CEU][hapmap]
rs3765239	1.00[ASN][1000 genomes]
rs3811071	0.99[ASN][1000 genomes]
rs3823035	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.85[YRI][hapmap];1.00[ASN][1000 genomes]
rs4407721	0.97[ASN][1000 genomes]
rs67597785	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6924301	0.85[EUR][1000 genomes]
rs6928645	0.85[EUR][1000 genomes]
rs6929427	1.00[ASN][1000 genomes]
rs73503620	0.85[EUR][1000 genomes]
rs7450561	0.81[EUR][1000 genomes]
rs7453242	0.83[ASN][1000 genomes]
rs760765	0.97[ASN][1000 genomes]
rs760766	0.97[ASN][1000 genomes]
rs7742800	1.00[CEU][hapmap];0.83[YRI][hapmap]
rs9321243	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.85[YRI][hapmap];1.00[ASN][1000 genomes]
rs9372960	0.85[EUR][1000 genomes]
rs9372961	0.81[EUR][1000 genomes]
rs9372982	1.00[CEU][hapmap];1.00[TSI][hapmap];0.83[YRI][hapmap]
rs9375713	1.00[ASN][1000 genomes]
rs9375721	1.00[CEU][hapmap];0.88[TSI][hapmap];0.83[YRI][hapmap];0.85[EUR][1000 genomes]
rs9375728	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];1.00[ASN][1000 genomes]
rs9375729	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];0.88[MEX][hapmap];0.89[MKK][hapmap];0.88[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]
rs9375730	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9375733	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];1.00[ASN][1000 genomes]
rs9375750	0.99[ASN][1000 genomes]
rs9375807	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9385541	0.99[ASN][1000 genomes]
rs9385544	1.00[CEU][hapmap];0.83[YRI][hapmap];0.85[EUR][1000 genomes]
rs9388788	1.00[ASN][1000 genomes]
rs9388809	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.99[ASN][1000 genomes]
rs9388814	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap]
rs9388815	1.00[ASN][1000 genomes]
rs9388895	1.00[CEU][hapmap];0.83[YRI][hapmap]
rs9402227	0.99[ASN][1000 genomes]
rs9402228	1.00[ASN][1000 genomes]
rs9402235	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];1.00[ASN][1000 genomes]
rs9402255	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.85[YRI][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	nsv604253	chr6:98857397-99630038	Flanking Bivalent TSS/Enh Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:85 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:99294600-99347800	Weak transcription	Brain Substantia Nigra	brain
2	chr6:99297000-99386000	Weak transcription	Fetal Brain Male	brain
3	chr6:99298200-99333200	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr6:99298600-99345400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr6:99304000-99326600	Weak transcription	Left Ventricle	heart
6	chr6:99304000-99358600	Weak transcription	Aorta	Aorta
7	chr6:99304600-99387200	Weak transcription	A549	lung
8	chr6:99309200-99323200	Weak transcription	HSMM	muscle
9	chr6:99309400-99326600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr6:99309600-99346800	Weak transcription	Rectal Smooth Muscle	rectum
11	chr6:99309600-99351600	Weak transcription	NHDF-Ad	bronchial
12	chr6:99309600-99383400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr6:99309800-99377400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr6:99310400-99328400	Weak transcription	Fetal Intestine Small	intestine
15	chr6:99310800-99330200	Weak transcription	Fetal Lung	lung
16	chr6:99310800-99334400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr6:99311000-99326800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr6:99311400-99326200	Weak transcription	Gastric	stomach
19	chr6:99311400-99356600	Weak transcription	Brain Angular Gyrus	brain
20	chr6:99312000-99322400	Weak transcription	Monocytes-CD14+_RO01746	blood
21	chr6:99312000-99370800	Weak transcription	Esophagus	oesophagus
22	chr6:99312200-99321200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
23	chr6:99312200-99322600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr6:99312200-99323200	Weak transcription	Rectal Mucosa Donor 29	rectum
25	chr6:99312200-99326600	Weak transcription	Skeletal Muscle Female	skeletal muscle
26	chr6:99312400-99323200	Weak transcription	Brain Cingulate Gyrus	brain
27	chr6:99312400-99323400	Weak transcription	Primary T helper cells PMA-I stimulated	--
28	chr6:99312400-99323400	Weak transcription	Brain Hippocampus Middle	brain
29	chr6:99312600-99321200	Weak transcription	Primary T helper cells fromperipheralblood	blood
30	chr6:99312600-99322200	Weak transcription	Primary neutrophils fromperipheralblood	blood
31	chr6:99312600-99326800	Weak transcription	Stomach Smooth Muscle	stomach
32	chr6:99312600-99333400	Weak transcription	Ovary	ovary
33	chr6:99312600-99372600	Weak transcription	Skeletal Muscle Male	skeletal muscle
34	chr6:99312800-99326800	Weak transcription	Placenta	Placenta
35	chr6:99312800-99334400	Weak transcription	Colon Smooth Muscle	Colon
36	chr6:99312800-99340400	Weak transcription	Rectal Mucosa Donor 31	rectum
37	chr6:99312800-99340800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
38	chr6:99312800-99351600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
39	chr6:99313000-99328000	Weak transcription	Liver	Liver
40	chr6:99313200-99327200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
41	chr6:99313600-99333800	Weak transcription	Fetal Thymus	thymus
42	chr6:99314800-99326600	Weak transcription	Fetal Muscle Leg	muscle
43	chr6:99314800-99339600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
44	chr6:99315200-99322400	Weak transcription	Primary B cells from peripheral blood	blood
45	chr6:99315400-99326600	Weak transcription	Primary T cells fromperipheralblood	blood
46	chr6:99315600-99327200	Weak transcription	Duodenum Mucosa	Duodenum
47	chr6:99315600-99358600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
48	chr6:99316800-99345400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
49	chr6:99317000-99329200	Strong transcription	Primary T cells from cord blood	blood
50	chr6:99317600-99334400	Weak transcription	Primary monocytes fromperipheralblood	blood

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