Variant report

Variant	rs60909394
Chromosome Location	chr6:36054932-36054933
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 79 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:78)

rs_ID	r²[population]
rs10456082	0.92[ASN][1000 genomes]
rs10456438	0.92[ASN][1000 genomes]
rs12204910	0.83[ASN][1000 genomes]
rs12206103	0.81[ASN][1000 genomes]
rs16883819	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16883860	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16883989	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16884628	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16884660	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16884694	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs16884857	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16884906	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16884919	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1967966	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2237094	0.85[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs2237096	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3730327	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3730366	0.93[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3761980	0.89[AFR][1000 genomes];0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3804451	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs41271263	0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs55878630	0.83[ASN][1000 genomes]
rs56044978	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs56059109	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56133220	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56156688	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56327416	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56362075	0.93[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56413204	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56715462	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58390233	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58583792	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58690654	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60100837	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60342497	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60481532	0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61195139	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61212706	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61364424	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61763101	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6457878	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6908622	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6910685	0.93[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6914570	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6921999	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6930333	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6932598	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6934216	0.92[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6936327	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73407868	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73407870	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73407871	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73407876	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73409842	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73729685	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73729698	0.93[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73730437	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73730440	0.93[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73730459	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7745082	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7745536	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7745927	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7747846	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7748078	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7752459	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7759175	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7760405	0.87[EUR][1000 genomes]
rs7760578	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7761118	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7762483	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7764494	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7766032	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7769981	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7770183	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7771484	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7772088	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7775290	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9380547	0.81[AFR][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	esv3363467	chr6:35820920-36222197	Enhancers Strong transcription Bivalent Enhancer Active TSS Genic enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs60909394	SLC26A8	cis	Adipose Subcutaneous	GTEx
rs60909394	SLC26A8	cis	Nerve Tibial	GTEx
rs60909394	SLC26A8	cis	Thyroid	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:36022000-36088800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr6:36039800-36062000	Weak transcription	Stomach Mucosa	stomach
3	chr6:36043200-36062400	Weak transcription	Small Intestine	intestine
4	chr6:36044200-36055000	Strong transcription	Primary neutrophils fromperipheralblood	blood
5	chr6:36048800-36057400	Weak transcription	Fetal Heart	heart
6	chr6:36051200-36059600	Weak transcription	NHDF-Ad	bronchial
7	chr6:36051400-36058800	Weak transcription	NHEK	skin
8	chr6:36051400-36059200	Weak transcription	NH-A	brain
9	chr6:36051400-36062200	Weak transcription	K562	blood
10	chr6:36051400-36062400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
11	chr6:36051400-36062400	Weak transcription	Fetal Kidney	kidney
12	chr6:36051400-36063400	Weak transcription	HUVEC	blood vessel
13	chr6:36051600-36060400	Weak transcription	HSMM	muscle
14	chr6:36051600-36062600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
15	chr6:36051600-36062600	Weak transcription	Pancreatic Islets	Pancreatic Islet
16	chr6:36051600-36067600	Weak transcription	Brain Substantia Nigra	brain
17	chr6:36051600-36088800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr6:36051800-36058800	Weak transcription	Osteobl	bone
19	chr6:36051800-36062400	Weak transcription	Colonic Mucosa	Colon
20	chr6:36051800-36062600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
21	chr6:36051800-36070600	Weak transcription	Pancreas	Pancrea
22	chr6:36051800-36070600	Weak transcription	Psoas Muscle	Psoas
23	chr6:36051800-36070800	Weak transcription	Aorta	Aorta
24	chr6:36051800-36075800	Weak transcription	H9 Cell Line	embryonic stem cell
25	chr6:36052000-36059200	Weak transcription	Lung	lung
26	chr6:36052000-36059800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr6:36052000-36059800	Weak transcription	Fetal Brain Female	brain
28	chr6:36052000-36062200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
29	chr6:36052000-36062600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
30	chr6:36052000-36062600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
31	chr6:36052000-36062600	Weak transcription	Rectal Smooth Muscle	rectum
32	chr6:36052000-36063800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr6:36052000-36070600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr6:36052000-36070600	Weak transcription	Brain Angular Gyrus	brain
35	chr6:36052000-36070600	Weak transcription	NHLF	lung
36	chr6:36052000-36070800	Weak transcription	Esophagus	oesophagus
37	chr6:36052000-36075200	Weak transcription	Right Ventricle	heart
38	chr6:36052200-36057400	Weak transcription	HSMMtube	muscle
39	chr6:36052200-36058600	Weak transcription	Sigmoid Colon	Sigmoid Colon
40	chr6:36052200-36059000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
41	chr6:36052200-36059200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
42	chr6:36052200-36059200	Weak transcription	Thymus	Thymus
43	chr6:36052200-36059400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
44	chr6:36052200-36059800	Weak transcription	Left Ventricle	heart
45	chr6:36052200-36059800	Weak transcription	Ovary	ovary
46	chr6:36052200-36059800	Weak transcription	Hela-S3	cervix
47	chr6:36052200-36059800	Weak transcription	HMEC	breast
48	chr6:36052200-36062400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
49	chr6:36052200-36062600	Weak transcription	HUES48 Cell Line	embryonic stem cell
50	chr6:36052200-36062600	Weak transcription	GM12878-XiMat	blood

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