Variant report

Variant	rs9372960
Chromosome Location	chr6:99313252-99313253
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs1474606	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1884185	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs2016597	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2124137	0.85[EUR][1000 genomes]
rs2300062	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2300063	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2388750	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2572095	0.80[AMR][1000 genomes]
rs2572099	0.84[AMR][1000 genomes]
rs2572109	0.84[AMR][1000 genomes]
rs2747731	0.84[AMR][1000 genomes]
rs2747733	0.84[AMR][1000 genomes]
rs28488166	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs35727107	0.87[ASN][1000 genomes]
rs3756986	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs55923681	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs67597785	0.81[AFR][1000 genomes]
rs6924301	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6928645	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73503620	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73505759	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs7450561	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7742800	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9372961	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9372982	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9372983	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9375721	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9375729	0.85[EUR][1000 genomes]
rs9375807	0.81[AFR][1000 genomes]
rs9385544	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9388785	0.86[AFR][1000 genomes];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9388789	0.85[EUR][1000 genomes]
rs9388899	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs9388909	0.84[AMR][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:56 , 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	chr6:99300000-99313800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr6:99303800-99317000	Weak transcription	Primary T cells from cord blood	blood
7	chr6:99304000-99326600	Weak transcription	Left Ventricle	heart
8	chr6:99304000-99358600	Weak transcription	Aorta	Aorta
9	chr6:99304600-99387200	Weak transcription	A549	lung
10	chr6:99305800-99319400	Weak transcription	Dnd41	blood
11	chr6:99309200-99323200	Weak transcription	HSMM	muscle
12	chr6:99309400-99326600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr6:99309600-99319000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr6:99309600-99319400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
15	chr6:99309600-99346800	Weak transcription	Rectal Smooth Muscle	rectum
16	chr6:99309600-99351600	Weak transcription	NHDF-Ad	bronchial
17	chr6:99309600-99383400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr6:99309800-99377400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr6:99310400-99319200	Weak transcription	Primary B cells from cord blood	blood
20	chr6:99310400-99328400	Weak transcription	Fetal Intestine Small	intestine
21	chr6:99310600-99319000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr6:99310800-99319400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr6:99310800-99319600	Weak transcription	NHEK	skin
24	chr6:99310800-99330200	Weak transcription	Fetal Lung	lung
25	chr6:99310800-99334400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr6:99311000-99313800	Weak transcription	Primary hematopoietic stem cells	blood
27	chr6:99311000-99326800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr6:99311200-99318600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr6:99311400-99318800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr6:99311400-99326200	Weak transcription	Gastric	stomach
31	chr6:99311400-99356600	Weak transcription	Brain Angular Gyrus	brain
32	chr6:99311600-99319600	Weak transcription	Duodenum Smooth Muscle	Duodenum
33	chr6:99311800-99319800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
34	chr6:99312000-99322400	Weak transcription	Monocytes-CD14+_RO01746	blood
35	chr6:99312000-99370800	Weak transcription	Esophagus	oesophagus
36	chr6:99312200-99321200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
37	chr6:99312200-99322600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
38	chr6:99312200-99323200	Weak transcription	Rectal Mucosa Donor 29	rectum
39	chr6:99312200-99326600	Weak transcription	Skeletal Muscle Female	skeletal muscle
40	chr6:99312400-99323200	Weak transcription	Brain Cingulate Gyrus	brain
41	chr6:99312400-99323400	Weak transcription	Primary T helper cells PMA-I stimulated	--
42	chr6:99312400-99323400	Weak transcription	Brain Hippocampus Middle	brain
43	chr6:99312600-99321200	Weak transcription	Primary T helper cells fromperipheralblood	blood
44	chr6:99312600-99322200	Weak transcription	Primary neutrophils fromperipheralblood	blood
45	chr6:99312600-99326800	Weak transcription	Stomach Smooth Muscle	stomach
46	chr6:99312600-99333400	Weak transcription	Ovary	ovary
47	chr6:99312600-99372600	Weak transcription	Skeletal Muscle Male	skeletal muscle
48	chr6:99312800-99319200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
49	chr6:99312800-99319600	Weak transcription	Adipose Nuclei	Adipose
50	chr6:99312800-99326800	Weak transcription	Placenta	Placenta

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