Variant report

Variant	rs6456865
Chromosome Location	chr6:28852364-28852365
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	chr6:28851004..28853039-chr6:28863239..28865119,3	MCF-7	breast:
2	chr6:28851984..28853619-chr6:28890283..28892430,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000204713	Chromatin interaction
ENSG00000224157	Chromatin interaction

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs3763338	0.80[ASN][1000 genomes]
rs4713183	0.80[ASN][1000 genomes]
rs4713197	0.80[EUR][1000 genomes]
rs56158159	0.80[EUR][1000 genomes]
rs6456866	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs67829526	0.81[EUR][1000 genomes]
rs6904278	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6928948	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6936343	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs72853516	0.80[ASN][1000 genomes]
rs72853522	0.80[ASN][1000 genomes]
rs73408958	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs763007	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7746064	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9295782	0.80[ASN][1000 genomes]
rs9468423	0.81[EUR][1000 genomes]
rs9468458	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv883518	chr6:28792477-28911802	Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	56 gene(s)	inside rSNPs	diseases
2	nsv883519	chr6:28792477-28936556	Transcr. at gene 5' and 3' Genic enhancers Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	57 gene(s)	inside rSNPs	diseases
3	nsv427748	chr6:28831888-28999434	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	62 gene(s)	inside rSNPs	diseases
4	nsv601212	chr6:28833225-28893927	Flanking Active TSS Weak transcription Enhancers Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	47 gene(s)	inside rSNPs	diseases
5	nsv462667	chr6:28834646-28893927	Active TSS Transcr. at gene 5' and 3' Weak transcription Enhancers Bivalent/Poised TSS Genic enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	47 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28849400-28863000	Weak transcription	Right Atrium	heart
2	chr6:28851000-28852800	Weak transcription	HepG2	liver
3	chr6:28851800-28852400	Flanking Active TSS	Primary T cells from cord blood	blood
4	chr6:28851800-28852400	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
5	chr6:28851800-28852800	Bivalent/Poised TSS	Primary B cells from cord blood	blood
6	chr6:28851800-28852800	Active TSS	GM12878-XiMat	blood
7	chr6:28851800-28853000	Flanking Active TSS	Dnd41	blood
8	chr6:28851800-28853400	Bivalent Enhancer	Primary B cells from peripheral blood	blood
9	chr6:28852000-28852400	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
10	chr6:28852000-28852400	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
11	chr6:28852000-28852400	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
12	chr6:28852000-28852400	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
13	chr6:28852000-28852400	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
14	chr6:28852000-28852400	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
15	chr6:28852000-28852400	Flanking Active TSS	Primary T killer naive cells fromperipheralblood	blood
16	chr6:28852000-28852400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr6:28852000-28852400	Flanking Active TSS	Fetal Thymus	thymus
18	chr6:28852000-28852400	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
19	chr6:28852000-28852600	ZNF genes & repeats	Fetal Intestine Small	intestine
20	chr6:28852000-28852600	Bivalent/Poised TSS	Rectal Mucosa Donor 29	rectum
21	chr6:28852000-28853000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr6:28852000-28853200	Flanking Active TSS	Primary T cells fromperipheralblood	blood
23	chr6:28852000-28853200	Flanking Bivalent TSS/Enh	Monocytes-CD14+_RO01746	blood
24	chr6:28852200-28852400	Flanking Bivalent TSS/Enh	Primary monocytes fromperipheralblood	blood
25	chr6:28852200-28852400	Flanking Active TSS	Primary hematopoietic stem cells	blood
26	chr6:28852200-28852400	Active TSS	Primary T helper memory cells from peripheral blood 1	blood
27	chr6:28852200-28852400	Active TSS	Thymus	Thymus
28	chr6:28852200-28852800	Active TSS	Primary T killer memory cells from peripheral blood	blood
29	chr6:28852200-28853000	Active TSS	Primary T helper naive cells fromperipheralblood	blood
30	chr6:28852200-28853000	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
31	chr6:28852200-28853200	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
32	chr6:28852200-28853200	Active TSS	Duodenum Mucosa	Duodenum
33	chr6:28852200-28853400	Active TSS	Primary T regulatory cells fromperipheralblood	blood

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