Variant report

Variant	rs6909602
Chromosome Location	chr6:121654718-121654719
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs17083247	1.00[AMR][1000 genomes]
rs17083364	1.00[AMR][1000 genomes]
rs17083423	1.00[AMR][1000 genomes]
rs6569198	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6569199	1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6905024	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6918861	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6924917	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6929839	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6941053	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9482132	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9482133	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9482134	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9482135	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9482136	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9482138	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9482140	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9482141	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9482142	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9490166	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9490168	1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9490169	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9490171	1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9490172	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9490174	1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9490175	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9490176	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9490178	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9490179	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9490180	0.98[AFR][1000 genomes];1.00[AMR][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	nsv1023384	chr6:121235867-121683448	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
2	nsv530527	chr6:121298528-121789855	ZNF genes & repeats Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv830789	chr6:121581450-121732320	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:73 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:121586400-121655000	Weak transcription	Fetal Muscle Trunk	muscle
2	chr6:121588400-121655200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr6:121589200-121655000	Weak transcription	Fetal Stomach	stomach
4	chr6:121594200-121654800	Weak transcription	Primary hematopoietic stem cells	blood
5	chr6:121606600-121655000	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr6:121611200-121655000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr6:121615600-121655000	Weak transcription	Pancreas	Pancrea
8	chr6:121616200-121655000	Weak transcription	Fetal Muscle Leg	muscle
9	chr6:121622600-121655000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr6:121622800-121654800	Weak transcription	Brain Germinal Matrix	brain
11	chr6:121632200-121655000	Weak transcription	HSMM	muscle
12	chr6:121632800-121655000	Weak transcription	Lung	lung
13	chr6:121634600-121654800	Weak transcription	Fetal Brain Male	brain
14	chr6:121635200-121655200	Weak transcription	Aorta	Aorta
15	chr6:121636000-121654800	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr6:121636600-121655000	Weak transcription	Esophagus	oesophagus
17	chr6:121636800-121654800	Weak transcription	Placenta	Placenta
18	chr6:121637000-121655000	Weak transcription	Fetal Intestine Small	intestine
19	chr6:121637200-121655000	Weak transcription	Liver	Liver
20	chr6:121638200-121655200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr6:121640600-121654800	Weak transcription	Brain Angular Gyrus	brain
22	chr6:121640600-121655200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
23	chr6:121640600-121655200	Weak transcription	Adipose Nuclei	Adipose
24	chr6:121640600-121655200	Weak transcription	Brain Inferior Temporal Lobe	brain
25	chr6:121640600-121655200	Weak transcription	NH-A	brain
26	chr6:121640600-121655400	Weak transcription	Fetal Heart	heart
27	chr6:121640800-121654800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr6:121640800-121655000	Weak transcription	Brain Anterior Caudate	brain
29	chr6:121642800-121655000	Weak transcription	Left Ventricle	heart
30	chr6:121643000-121655000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr6:121651600-121656200	Active TSS	K562	blood
32	chr6:121652000-121654800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
33	chr6:121652000-121654800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
34	chr6:121653000-121655200	Weak transcription	NHLF	lung
35	chr6:121653400-121655200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
36	chr6:121653400-121655200	Flanking Active TSS	Dnd41	blood
37	chr6:121653400-121656600	Active TSS	GM12878-XiMat	blood
38	chr6:121653800-121654800	Enhancers	Primary T helper cells fromperipheralblood	blood
39	chr6:121653800-121655200	Enhancers	Primary T helper naive cells from peripheral blood	blood
40	chr6:121653800-121655400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
41	chr6:121654000-121654800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr6:121654000-121655200	Enhancers	Cortex derived primary cultured neurospheres	brain
43	chr6:121654200-121654800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
44	chr6:121654200-121655000	Enhancers	Breast Myoepithelial Primary Cells	Breast
45	chr6:121654200-121655000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
46	chr6:121654200-121655000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
47	chr6:121654200-121655000	Enhancers	NHEK	skin
48	chr6:121654200-121655200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
49	chr6:121654200-121655200	Enhancers	Fetal Intestine Large	intestine
50	chr6:121654400-121654800	Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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