Variant report

Variant	rs428016
Chromosome Location	chr6:128205645-128205646
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:165475774..165478358-chr6:128205269..128207397,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000115290	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs1089649	0.87[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1089651	0.91[EUR][1000 genomes]
rs156062	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]
rs156063	0.96[CEU][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs156064	0.96[CEU][hapmap];0.95[EUR][1000 genomes]
rs166581	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs198523	0.96[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs198524	0.96[CEU][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs270022	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs404528	0.96[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs413612	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs699416	0.96[CEU][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs699417	0.92[CEU][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs699418	0.90[AFR][1000 genomes];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs699419	0.90[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs802704	0.96[CEU][hapmap];0.95[EUR][1000 genomes]
rs802708	0.96[CEU][hapmap];0.92[EUR][1000 genomes]
rs802709	0.96[CEU][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs802712	0.96[CEU][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs802713	0.86[EUR][1000 genomes]
rs802715	0.96[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs802716	0.96[CEU][hapmap];0.90[EUR][1000 genomes]
rs802752	0.87[EUR][1000 genomes]
rs802753	0.85[EUR][1000 genomes]
rs802755	0.90[AFR][1000 genomes];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs802756	0.90[AFR][1000 genomes];0.81[AMR][1000 genomes];0.91[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:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:128196600-128211600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
2	chr6:128197200-128208200	Enhancers	Primary T helper cells fromperipheralblood	blood
3	chr6:128201000-128214600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr6:128201200-128207200	Enhancers	Primary T helper naive cells from peripheral blood	blood
5	chr6:128201400-128206200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
6	chr6:128202000-128208600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
7	chr6:128204400-128208400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
8	chr6:128205000-128206200	Enhancers	Primary T killer memory cells from peripheral blood	blood
9	chr6:128205000-128206200	Genic enhancers	Fetal Thymus	thymus
10	chr6:128205000-128209400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
11	chr6:128205200-128206400	Enhancers	Thymus	Thymus
12	chr6:128205200-128207600	Genic enhancers	Primary T helper 17 cells PMA-I stimulated	--
13	chr6:128205200-128208200	Genic enhancers	Primary T cells from cord blood	blood
14	chr6:128205400-128205800	Strong transcription	Primary T cells fromperipheralblood	blood
15	chr6:128205400-128206000	Weak transcription	Dnd41	blood
16	chr6:128205600-128206000	Enhancers	Primary T helper cells PMA-I stimulated	--

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