Variant report

Variant	rs802709
Chromosome Location	chr6:128228643-128228644
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs1089649	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1089651	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs156062	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs156063	1.00[CEU][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs156064	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs166581	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs198523	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs198524	1.00[CEU][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs270022	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs270052	0.93[YRI][hapmap]
rs404528	1.00[CEU][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs413612	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4243492	0.87[YRI][hapmap]
rs428016	0.96[CEU][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4895826	0.82[YRI][hapmap]
rs699416	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs699417	0.96[CEU][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs699418	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs699419	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs802704	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs802708	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs802712	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs802713	0.88[EUR][1000 genomes]
rs802715	1.00[CEU][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs802716	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs802752	0.89[EUR][1000 genomes]
rs802753	0.87[EUR][1000 genomes]
rs802755	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs802756	0.91[AMR][1000 genomes];0.93[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:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:128224000-128235600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
2	chr6:128225600-128232800	Weak transcription	Fetal Thymus	thymus
3	chr6:128228200-128229000	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
4	chr6:128228200-128229000	Enhancers	Primary T helper cells fromperipheralblood	blood
5	chr6:128228600-128228800	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
6	chr6:128228600-128228800	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
7	chr6:128228600-128228800	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
8	chr6:128228600-128228800	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
9	chr6:128228600-128228800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
10	chr6:128228600-128228800	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
11	chr6:128228600-128228800	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
12	chr6:128228600-128229800	Active TSS	Primary T cells fromperipheralblood	blood
13	chr6:128228600-128230000	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood

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