Variant report

Variant	rs156065
Chromosome Location	chr6:128222626-128222627
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs1089650	0.98[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1089655	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs149805	1.00[CHB][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs156060	1.00[CHB][hapmap];0.90[CHD][hapmap];0.91[GIH][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs198526	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs198527	1.00[CHB][hapmap];0.90[CHD][hapmap];0.91[GIH][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs270016	1.00[CHB][hapmap];0.89[YRI][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs270017	1.00[CHB][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs270018	1.00[CHB][hapmap];0.90[CHD][hapmap];0.91[GIH][hapmap];0.95[TSI][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs270019	1.00[CHB][hapmap];0.89[YRI][hapmap];0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs270020	1.00[CHB][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs270021	1.00[CHB][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs436868	1.00[CHB][hapmap];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs802705	1.00[CHB][hapmap];0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs802706	0.93[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs802707	0.88[CHB][hapmap];0.89[YRI][hapmap];0.93[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs802710	1.00[CHB][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs802714	0.83[ASW][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];0.98[GIH][hapmap];0.90[LWK][hapmap];1.00[MKK][hapmap];0.91[TSI][hapmap];0.84[YRI][hapmap];0.92[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs802754	0.88[AFR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][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	esv1849854	chr6:128143774-128287313	Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv1024516	chr6:128184182-128298278	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs156065	THEMIS	cis	Lymphoblastoid	GTEx
rs156065	C6orf190	cis	multi-tissue	Pritchard

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:128217600-128223200	Active TSS	Thymus	Thymus
2	chr6:128221600-128222800	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
3	chr6:128222200-128222800	Enhancers	Primary hematopoietic stem cells short term culture	blood
4	chr6:128222200-128223200	Flanking Active TSS	Primary T cells from cord blood	blood
5	chr6:128222400-128222800	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
6	chr6:128222400-128222800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
7	chr6:128222400-128222800	Flanking Active TSS	Primary T killer naive cells fromperipheralblood	blood
8	chr6:128222400-128222800	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
9	chr6:128222400-128223000	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
10	chr6:128222400-128223000	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
11	chr6:128222600-128222800	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
12	chr6:128222600-128223000	Enhancers	Dnd41	blood
13	chr6:128222600-128223200	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
14	chr6:128222600-128223200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
15	chr6:128222600-128223600	Weak transcription	Placenta Amnion	Placenta Amnion
16	chr6:128222600-128223800	Enhancers	Primary T cells fromperipheralblood	blood
17	chr6:128222600-128224000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
18	chr6:128222600-128225600	Enhancers	Fetal Thymus	thymus
19	chr6:128222600-128226400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
20	chr6:128222600-128228600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood

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