Variant report

Variant	rs9375539
Chromosome Location	chr6:128219683-128219684
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs1000066	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.93[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1543373	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs156064	1.00[CHB][hapmap];0.82[ASN][1000 genomes]
rs17055105	0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17055123	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2875995	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4895827	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4897235	0.90[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs61234808	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs723651	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72618504	1.00[EUR][1000 genomes]
rs802704	1.00[CHB][hapmap];0.82[ASN][1000 genomes]
rs802708	1.00[CHB][hapmap];0.97[CHD][hapmap];0.84[ASN][1000 genomes]
rs802713	0.81[ASN][1000 genomes]
rs802716	1.00[CHB][hapmap];0.97[CHD][hapmap];0.82[ASN][1000 genomes]
rs802753	0.81[ASN][1000 genomes]
rs9372879	1.00[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs9375538	0.90[CHB][hapmap];0.91[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9385443	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9385444	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9388600	0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9388602	1.00[ASW][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9388607	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9398855	1.00[GIH][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs9398858	1.00[CHB][hapmap];1.00[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9398859	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9402000	1.00[EUR][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

No data

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	chr6:128216400-128221800	Active TSS	Primary T helper 17 cells PMA-I stimulated	--
6	chr6:128216800-128222200	Active TSS	Fetal Thymus	thymus
7	chr6:128217000-128221800	Active TSS	Primary T helper naive cells fromperipheralblood	blood
8	chr6:128217600-128222200	Active TSS	Primary T cells fromperipheralblood	blood
9	chr6:128217600-128223200	Active TSS	Thymus	Thymus
10	chr6:128218200-128222400	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr6:128218400-128221600	Active TSS	Primary T helper cells fromperipheralblood	blood
12	chr6:128219200-128220000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
13	chr6:128219400-128219800	Active TSS	Primary T helper naive cells from peripheral blood	blood
14	chr6:128219400-128220400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
15	chr6:128219400-128222000	Active TSS	Primary T helper memory cells from peripheral blood 1	blood
16	chr6:128219400-128222200	Active TSS	Primary T cells from cord blood	blood
17	chr6:128219400-128222400	Active TSS	Primary T killer memory cells from peripheral blood	blood
18	chr6:128219600-128219800	Flanking Active TSS	Dnd41	blood

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