Variant report

Variant	rs156062
Chromosome Location	chr6:128218878-128218879
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:128216642..128219486-chr6:128221737..128224434,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000172673	Chromatin interaction

Extended variants
information (count: 42 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs1089649	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1089651	0.93[EUR][1000 genomes]
rs11759373	1.00[CHD][hapmap]
rs12194062	1.00[CHD][hapmap]
rs12201026	1.00[CHD][hapmap]
rs156063	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs156064	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs166581	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs198523	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs198524	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs269999	1.00[CHD][hapmap]
rs270002	1.00[CHD][hapmap]
rs270003	1.00[CHD][hapmap]
rs270011	1.00[CHD][hapmap]
rs270015	1.00[CHD][hapmap]
rs270022	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs404528	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs413612	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs428016	0.96[CEU][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs490008	1.00[CHD][hapmap]
rs564461	1.00[CHD][hapmap]
rs6569519	1.00[CHD][hapmap]
rs6921729	1.00[CHD][hapmap]
rs699416	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs699417	0.96[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs699418	0.92[AFR][1000 genomes];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs699419	0.92[AFR][1000 genomes];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs802704	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs802708	1.00[CEU][hapmap];0.80[GIH][hapmap];0.97[TSI][hapmap];0.94[EUR][1000 genomes]
rs802709	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs802712	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs802713	0.88[EUR][1000 genomes]
rs802715	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs802716	1.00[CEU][hapmap];0.80[GIH][hapmap];0.90[TSI][hapmap];0.91[EUR][1000 genomes]
rs802752	0.89[EUR][1000 genomes]
rs802753	0.81[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs802755	0.92[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs802756	0.92[AFR][1000 genomes];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9321104	1.00[CHD][hapmap]
rs9398863	1.00[CHD][hapmap]

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:1)

SNP	Gene	Cis/trans	Tissue	Source
rs156062	THEMIS	cis	cerebellum	SCAN

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:128214800-128221400	Active TSS	Primary mononuclear cells fromperipheralblood	Blood
2	chr6:128215200-128222400	Active TSS	Primary T helper cells PMA-I stimulated	--
3	chr6:128215200-128222400	Active TSS	Primary T killer naive cells fromperipheralblood	blood
4	chr6:128216000-128221400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr6:128216400-128219400	Flanking Active TSS	Primary T cells from cord blood	blood
6	chr6:128216400-128221800	Active TSS	Primary T helper 17 cells PMA-I stimulated	--
7	chr6:128216800-128222200	Active TSS	Fetal Thymus	thymus
8	chr6:128217000-128221800	Active TSS	Primary T helper naive cells fromperipheralblood	blood
9	chr6:128217600-128219000	Active TSS	Primary T killer memory cells from peripheral blood	blood
10	chr6:128217600-128222200	Active TSS	Primary T cells fromperipheralblood	blood
11	chr6:128217600-128223200	Active TSS	Thymus	Thymus
12	chr6:128218200-128222400	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
13	chr6:128218400-128219000	Active TSS	Primary T helper naive cells from peripheral blood	blood
14	chr6:128218400-128221600	Active TSS	Primary T helper cells fromperipheralblood	blood
15	chr6:128218600-128219400	Flanking Active TSS	Dnd41	blood
16	chr6:128218800-128219200	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
17	chr6:128218800-128219400	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
18	chr6:128218800-128219400	Active TSS	Primary Natural Killer cells fromperipheralblood	blood

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