Variant report

Variant	rs73409842
Chromosome Location	chr6:36051413-36051414
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 78 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs10456082	0.89[ASN][1000 genomes]
rs10456438	0.89[ASN][1000 genomes]
rs12204910	0.81[ASN][1000 genomes]
rs16883819	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16883860	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16883989	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16884628	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16884660	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16884694	0.89[EUR][1000 genomes]
rs16884857	0.95[EUR][1000 genomes]
rs16884906	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16884919	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1967966	0.92[EUR][1000 genomes]
rs2237094	0.96[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs2237096	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3730327	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3730366	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3761980	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3804451	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3804454	0.88[AFR][1000 genomes]
rs41271263	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs55878630	0.81[ASN][1000 genomes]
rs56044978	0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs56059109	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56133220	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56156688	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56327416	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56362075	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56413204	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56715462	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58390233	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58583792	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58690654	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs60100837	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs60342497	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs60481532	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs60909394	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61195139	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61212706	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61364424	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61763101	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6457878	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6908622	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6910685	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6914570	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6921999	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6930333	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6932598	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6934216	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6936327	0.95[EUR][1000 genomes]
rs73407868	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73407870	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73407871	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73407876	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73729685	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73729698	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73730437	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73730440	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73730459	0.92[EUR][1000 genomes]
rs7745082	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7745536	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7745927	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7747846	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7748078	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7752459	0.92[EUR][1000 genomes]
rs7759175	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7760405	0.83[EUR][1000 genomes]
rs7760578	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7761118	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7762483	0.95[EUR][1000 genomes]
rs7764494	0.92[EUR][1000 genomes]
rs7766032	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7769981	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7770183	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7771484	0.95[EUR][1000 genomes]
rs7772088	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7775290	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[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	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
rs73409842	SLC26A8	cis	Thyroid	GTEx
rs73409842	SLC26A8	cis	Adipose Subcutaneous	GTEx
rs73409842	SLC26A8	cis	Nerve Tibial	GTEx

Chromatin state (count:125 , 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	chr6:36040600-36051600	Strong transcription	HSMM	muscle
4	chr6:36040600-36053400	Strong transcription	Primary T helper cells fromperipheralblood	blood
5	chr6:36040800-36052600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr6:36040800-36053400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr6:36040800-36053600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr6:36041200-36053400	Strong transcription	Fetal Thymus	thymus
9	chr6:36041200-36053600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr6:36041400-36053000	Strong transcription	Primary monocytes fromperipheralblood	blood
11	chr6:36041600-36053200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr6:36042400-36052600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
13	chr6:36043000-36052200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
14	chr6:36043000-36053800	Strong transcription	Fetal Lung	lung
15	chr6:36043200-36051800	Strong transcription	Osteobl	bone
16	chr6:36043200-36052200	Strong transcription	Hela-S3	cervix
17	chr6:36043200-36052800	Strong transcription	Primary T helper cells PMA-I stimulated	--
18	chr6:36043200-36053000	Strong transcription	Rectal Mucosa Donor 31	rectum
19	chr6:36043200-36062400	Weak transcription	Small Intestine	intestine
20	chr6:36043400-36052800	Strong transcription	Placenta	Placenta
21	chr6:36043400-36053000	Strong transcription	Rectal Mucosa Donor 29	rectum
22	chr6:36043600-36053000	Strong transcription	Duodenum Mucosa	Duodenum
23	chr6:36043600-36053600	Strong transcription	Primary T cells fromperipheralblood	blood
24	chr6:36043600-36053600	Strong transcription	Adipose Nuclei	Adipose
25	chr6:36043800-36052200	Strong transcription	HMEC	breast
26	chr6:36044200-36053200	Strong transcription	HepG2	liver
27	chr6:36044200-36055000	Strong transcription	Primary neutrophils fromperipheralblood	blood
28	chr6:36044600-36051600	Strong transcription	Primary T killer memory cells from peripheral blood	blood
29	chr6:36044800-36053600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr6:36045000-36053800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr6:36045600-36052200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr6:36045600-36052800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
33	chr6:36045600-36053000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr6:36045600-36053000	Strong transcription	Fetal Intestine Large	intestine
35	chr6:36045800-36052200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr6:36045800-36052800	Strong transcription	Duodenum Smooth Muscle	Duodenum
37	chr6:36045800-36053400	Strong transcription	Liver	Liver
38	chr6:36046000-36052400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
39	chr6:36046200-36052600	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
40	chr6:36046600-36051800	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood
41	chr6:36046600-36052200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
42	chr6:36046600-36052600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
43	chr6:36046800-36052200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
44	chr6:36047400-36052000	Strong transcription	Primary T helper memory cells from peripheral blood 2	blood
45	chr6:36047400-36052600	Strong transcription	Brain Cingulate Gyrus	brain
46	chr6:36047400-36053200	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
47	chr6:36047800-36052400	Strong transcription	Skeletal Muscle Female	skeletal muscle
48	chr6:36047800-36053000	Strong transcription	Colon Smooth Muscle	Colon
49	chr6:36048000-36051800	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
50	chr6:36048000-36052200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood

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