Variant report

Variant	rs156060
Chromosome Location	chr6:128214882-128214883
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	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1089655	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs149805	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs156065	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	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs198527	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.86[MKK][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs270016	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs270017	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs270018	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.86[MKK][hapmap];0.95[TSI][hapmap];0.91[YRI][hapmap];0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs270019	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs270020	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs270021	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs436868	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs802705	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs802706	0.93[ASN][1000 genomes]
rs802707	0.88[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs802710	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs802714	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.91[MKK][hapmap];0.91[TSI][hapmap];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs802754	0.83[EUR][1000 genomes];0.88[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
rs156060	C6orf190	cis	multi-tissue	Pritchard
rs156060	THEMIS	cis	Lymphoblastoid	GTEx

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:128214400-128215000	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
2	chr6:128214400-128215200	Active TSS	Primary T helper 17 cells PMA-I stimulated	--
3	chr6:128214400-128215200	Flanking Active TSS	Primary T killer naive cells fromperipheralblood	blood
4	chr6:128214400-128215600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr6:128214400-128216000	Flanking Active TSS	Primary T cells from cord blood	blood
6	chr6:128214600-128215000	Enhancers	H1 Cell Line	embryonic stem cell
7	chr6:128214600-128215000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr6:128214600-128215000	Enhancers	Brain Substantia Nigra	brain
9	chr6:128214600-128215000	Flanking Active TSS	Thymus	Thymus
10	chr6:128214600-128215200	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
11	chr6:128214600-128215200	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
12	chr6:128214600-128215200	Enhancers	Brain Hippocampus Middle	brain
13	chr6:128214600-128215400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr6:128214600-128215400	Enhancers	HUES64 Cell Line	embryonic stem cell
15	chr6:128214600-128215400	Enhancers	iPS-18 Cell Line	embryonic stem cell
16	chr6:128214600-128215400	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
17	chr6:128214600-128215600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr6:128214600-128215800	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
19	chr6:128214600-128215800	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
20	chr6:128214600-128216000	Active TSS	Primary Natural Killer cells fromperipheralblood	blood
21	chr6:128214600-128216400	Active TSS	Primary T cells fromperipheralblood	blood
22	chr6:128214600-128218600	Enhancers	Dnd41	blood
23	chr6:128214800-128215000	Flanking Active TSS	Fetal Thymus	thymus
24	chr6:128214800-128215200	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
25	chr6:128214800-128215200	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
26	chr6:128214800-128216000	Enhancers	Primary hematopoietic stem cells short term culture	blood
27	chr6:128214800-128221400	Active TSS	Primary mononuclear cells fromperipheralblood	Blood

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