Variant report

Variant	rs55739774
Chromosome Location	chr6:133108432-133108433
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:133098906..133100872-chr6:133105715..133108486,2	K562	blood:
2	chr6:133104366..133109365-chr6:133114099..133117737,7	K562	blood:
3	chr6:133107254..133109666-chr6:133118778..133121416,3	K562	blood:
4	chr6:133107874..133110494-chr6:133110931..133113504,2	K562	blood:
5	chr6:133105508..133109219-chr6:133117769..133121864,5	K562	blood:
6	chr6:133105010..133109903-chr6:133109992..133112640,5	K562	blood:

Variant related genes	Relation type
ENSG00000146409	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs11962050	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11962697	1.00[AMR][1000 genomes]
rs11962777	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11964612	0.84[AFR][1000 genomes]
rs2179535	1.00[AMR][1000 genomes]
rs55634221	0.84[AFR][1000 genomes]
rs55736382	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55757918	0.82[AFR][1000 genomes]
rs55927079	1.00[AFR][1000 genomes]
rs55937207	0.89[AFR][1000 genomes]
rs56028410	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56078645	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56195831	1.00[AFR][1000 genomes]
rs56253921	0.89[AFR][1000 genomes]
rs56272102	0.87[AFR][1000 genomes]
rs56321429	0.82[AFR][1000 genomes]
rs56335598	0.84[AFR][1000 genomes]
rs56347679	0.82[AFR][1000 genomes]
rs57507997	0.82[AFR][1000 genomes]
rs58879755	0.82[AFR][1000 genomes]
rs58969189	0.82[AFR][1000 genomes]
rs58978785	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60308475	0.89[AFR][1000 genomes]
rs61019706	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61588260	0.82[AFR][1000 genomes]
rs73772946	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73772948	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73772954	1.00[AFR][1000 genomes]
rs73772961	0.81[AFR][1000 genomes]
rs73772965	0.95[AFR][1000 genomes]
rs73772966	0.89[AFR][1000 genomes]
rs73772967	0.84[AFR][1000 genomes]
rs73772969	0.84[AFR][1000 genomes]
rs73772971	0.82[AFR][1000 genomes]
rs73772972	0.82[AFR][1000 genomes]
rs73772984	0.87[AFR][1000 genomes]
rs73772985	0.85[AFR][1000 genomes]
rs73772986	0.87[AFR][1000 genomes]
rs73772987	0.87[AFR][1000 genomes]
rs73772988	0.87[AFR][1000 genomes]
rs73772990	0.87[AFR][1000 genomes]
rs73772995	0.87[AFR][1000 genomes]
rs73772997	0.87[AFR][1000 genomes]
rs73772998	0.84[AFR][1000 genomes]
rs73773001	0.82[AFR][1000 genomes]
rs7743148	0.82[AFR][1000 genomes]
rs7754361	0.82[AFR][1000 genomes]
rs7754746	0.82[AFR][1000 genomes]
rs7755395	0.82[AFR][1000 genomes]
rs7768374	0.84[AFR][1000 genomes]
rs7768800	0.87[AFR][1000 genomes]

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	nsv532069	chr6:132776411-133462292	Active TSS Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
2	nsv1015742	chr6:132933666-133285852	Active TSS Flanking Active TSS Enhancers Strong transcription Weak transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	71 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:133083800-133118200	Weak transcription	Brain Cingulate Gyrus	brain
2	chr6:133085000-133109000	Weak transcription	GM12878-XiMat	blood
3	chr6:133085000-133114600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
4	chr6:133085000-133119000	Weak transcription	Thymus	Thymus
5	chr6:133085200-133112200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
6	chr6:133085200-133119400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr6:133085400-133114400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
8	chr6:133085600-133118800	Weak transcription	Colon Smooth Muscle	Colon
9	chr6:133085800-133119000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
10	chr6:133086000-133112800	Weak transcription	Hela-S3	cervix
11	chr6:133086000-133113800	Weak transcription	NHEK	skin
12	chr6:133086000-133118800	Weak transcription	Fetal Kidney	kidney
13	chr6:133086400-133110200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr6:133088200-133111200	Weak transcription	HUVEC	blood vessel
15	chr6:133088600-133114600	Weak transcription	Brain Inferior Temporal Lobe	brain
16	chr6:133089400-133110400	Weak transcription	Colonic Mucosa	Colon
17	chr6:133089400-133111800	Weak transcription	Lung	lung
18	chr6:133089400-133119400	Weak transcription	Gastric	stomach
19	chr6:133089600-133111400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
20	chr6:133089600-133111400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr6:133089600-133111800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr6:133089600-133118800	Weak transcription	Fetal Heart	heart
23	chr6:133089600-133119000	Weak transcription	Primary hematopoietic stem cells	blood
24	chr6:133089600-133119200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
25	chr6:133089600-133119200	Weak transcription	Right Ventricle	heart
26	chr6:133089600-133119200	Weak transcription	Stomach Mucosa	stomach
27	chr6:133089600-133119400	Weak transcription	Pancreas	Pancrea
28	chr6:133089800-133118200	Weak transcription	Fetal Brain Male	brain
29	chr6:133089800-133118800	Weak transcription	Brain Angular Gyrus	brain
30	chr6:133090000-133118800	Weak transcription	HepG2	liver
31	chr6:133090400-133114200	Strong transcription	Primary T helper cells fromperipheralblood	blood
32	chr6:133091800-133119000	Weak transcription	Psoas Muscle	Psoas
33	chr6:133094000-133110200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr6:133097400-133108600	Strong transcription	Stomach Smooth Muscle	stomach
35	chr6:133098400-133110000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
36	chr6:133098400-133119000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
37	chr6:133098400-133119000	Weak transcription	Brain Substantia Nigra	brain
38	chr6:133098600-133118800	Weak transcription	Pancreatic Islets	Pancreatic Islet
39	chr6:133098800-133110400	Weak transcription	Cortex derived primary cultured neurospheres	brain
40	chr6:133099000-133113000	Strong transcription	Fetal Intestine Large	intestine
41	chr6:133100400-133112000	Weak transcription	Adipose Nuclei	Adipose
42	chr6:133100400-133114000	Weak transcription	Spleen	Spleen
43	chr6:133100400-133114200	Weak transcription	Fetal Brain Female	brain
44	chr6:133100400-133114400	Weak transcription	Brain Hippocampus Middle	brain
45	chr6:133100400-133118600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
46	chr6:133100400-133118800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
47	chr6:133100400-133119000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
48	chr6:133100600-133109800	Weak transcription	Esophagus	oesophagus
49	chr6:133100600-133111200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
50	chr6:133100600-133111400	Weak transcription	Monocytes-CD14+_RO01746	blood

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