Variant report

Variant	rs28706811
Chromosome Location	chr6:24439526-24439527
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:24438004..24440295-chr6:24440300..24441957,2	MCF-7	breast:
2	chr6:24435312..24436983-chr6:24438407..24440196,2	MCF-7	breast:
3	chr6:24438222..24440221-chr6:24443252..24446225,2	K562	blood:

Variant related genes	Relation type
ENSG00000112293	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs28564434	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28661697	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3181759	0.80[AFR][1000 genomes]
rs56148439	0.85[AFR][1000 genomes]
rs59942835	0.92[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6456613	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6938894	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73727666	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7751846	0.89[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs7752186	0.89[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs7752603	0.90[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs7768124	0.89[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs7772115	0.89[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs7772540	0.90[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs9461006	0.85[AFR][1000 genomes]
rs9461007	0.88[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs9461008	0.84[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs9461009	0.85[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs9467142	0.89[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs9467143	0.90[AFR][1000 genomes]
rs9467144	0.85[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs9467145	0.87[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs9467146	0.85[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs9467147	0.85[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs9467150	0.89[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs9467151	0.89[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs9467152	0.95[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs9467153	0.99[AFR][1000 genomes];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9467154	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9467159	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9467163	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9467164	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1026638	chr6:24347972-24475300	Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:24417400-24451800	Strong transcription	Liver	Liver
2	chr6:24421200-24448800	Weak transcription	Gastric	stomach
3	chr6:24421200-24459600	Weak transcription	Spleen	Spleen
4	chr6:24424000-24456600	Weak transcription	Ovary	ovary
5	chr6:24424400-24445800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr6:24425400-24439600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr6:24426200-24446000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr6:24426400-24441600	Weak transcription	Skeletal Muscle Male	skeletal muscle
9	chr6:24426400-24446000	Weak transcription	H1 Cell Line	embryonic stem cell
10	chr6:24427600-24440000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
11	chr6:24427600-24440000	Weak transcription	Dnd41	blood
12	chr6:24427600-24441800	Weak transcription	Primary B cells from peripheral blood	blood
13	chr6:24427600-24445600	Weak transcription	Fetal Brain Female	brain
14	chr6:24427600-24456800	Weak transcription	Lung	lung
15	chr6:24427800-24467000	Weak transcription	Brain Germinal Matrix	brain
16	chr6:24428200-24449400	Weak transcription	Fetal Muscle Trunk	muscle
17	chr6:24428800-24445000	Weak transcription	Psoas Muscle	Psoas
18	chr6:24429000-24447800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr6:24429000-24494200	Weak transcription	Primary B cells from cord blood	blood
20	chr6:24429200-24455600	Weak transcription	Brain Angular Gyrus	brain
21	chr6:24429400-24445000	Weak transcription	Brain Anterior Caudate	brain
22	chr6:24429400-24483800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr6:24429600-24444800	Weak transcription	HepG2	liver
24	chr6:24429600-24455000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr6:24430800-24448400	Weak transcription	Brain Hippocampus Middle	brain
26	chr6:24432600-24463800	Weak transcription	Fetal Intestine Small	intestine
27	chr6:24433200-24441600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
28	chr6:24433600-24451600	Weak transcription	Adipose Nuclei	Adipose
29	chr6:24437600-24455400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
30	chr6:24437800-24450600	Weak transcription	Brain Inferior Temporal Lobe	brain
31	chr6:24437800-24459600	Weak transcription	Left Ventricle	heart
32	chr6:24438000-24464000	Weak transcription	Pancreas	Pancrea
33	chr6:24438200-24445400	Weak transcription	Aorta	Aorta
34	chr6:24438200-24447800	Weak transcription	Duodenum Smooth Muscle	Duodenum
35	chr6:24438200-24455600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
36	chr6:24438400-24440000	Weak transcription	Primary T cells from cord blood	blood
37	chr6:24438400-24441400	Weak transcription	Skeletal Muscle Female	skeletal muscle
38	chr6:24438400-24445600	Weak transcription	Fetal Muscle Leg	muscle
39	chr6:24438400-24448600	Weak transcription	Right Ventricle	heart
40	chr6:24438400-24483200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
41	chr6:24438600-24440000	Weak transcription	Stomach Smooth Muscle	stomach
42	chr6:24438600-24459800	Weak transcription	Fetal Stomach	stomach
43	chr6:24438800-24469200	Weak transcription	Brain Cingulate Gyrus	brain
44	chr6:24439400-24439600	Enhancers	Thymus	Thymus
45	chr6:24439400-24442000	Enhancers	Fetal Thymus	thymus

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