Variant report

Variant	rs2237140
Chromosome Location	chr6:15446447-15446448
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:15245540..15247199-chr6:15445254..15446807,2	MCF-7	breast:
2	chr6:15265185..15267250-chr6:15444212..15446754,2	K562	blood:
3	chr6:15244896..15247781-chr6:15446382..15448441,2	MCF-7	breast:
4	chr6:15445585..15449236-chr6:15452197..15455366,5	MCF-7	breast:
5	chr6:15444974..15446606-chr6:15481523..15484287,2	K562	blood:
6	chr6:15445515..15448315-chr6:15457495..15459550,2	MCF-7	breast:
7	chr6:15443726..15445264-chr6:15445305..15447149,2	MCF-7	breast:
8	chr6:15443507..15446694-chr6:15446706..15448980,3	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000008083	Chromatin interaction
ENSG00000271888	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs2072820	0.81[CEU][hapmap]
rs2237135	0.81[YRI][hapmap]
rs2237136	0.81[YRI][hapmap]
rs2237141	0.85[CHB][hapmap]
rs2237154	0.82[CHB][hapmap];0.81[JPT][hapmap]
rs2237155	0.82[CHB][hapmap];0.81[JPT][hapmap]
rs2237158	0.83[CEU][hapmap];0.83[CHB][hapmap];0.81[JPT][hapmap]
rs2237160	0.81[CEU][hapmap]
rs2282825	0.96[CEU][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2282826	0.96[CEU][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2282827	0.96[CEU][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2299056	0.83[CHB][hapmap];0.86[JPT][hapmap]
rs4109434	0.82[CEU][hapmap];0.82[CHB][hapmap];0.81[JPT][hapmap]
rs4715976	0.81[YRI][hapmap];0.83[AFR][1000 genomes]
rs6905698	0.81[CEU][hapmap]
rs6924733	0.81[CEU][hapmap]
rs9370814	0.81[YRI][hapmap]
rs9383058	0.81[YRI][hapmap];0.80[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv538140	chr6:15217899-15547127	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv1030558	chr6:15234675-15449137	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	nsv538141	chr6:15234675-15509163	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
4	nsv949448	chr6:15279490-15449441	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv1025512	chr6:15291551-15452395	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv538143	chr6:15291551-15452395	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	esv3430547	chr6:15444773-15448671	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15417000-15452200	Enhancers	iPS-15b Cell Line	embryonic stem cell
2	chr6:15427000-15450800	Enhancers	HUES6 Cell Line	embryonic stem cell
3	chr6:15435000-15448000	Weak transcription	Rectal Smooth Muscle	rectum
4	chr6:15435800-15453600	Weak transcription	Fetal Intestine Small	intestine
5	chr6:15435800-15487600	Weak transcription	Colonic Mucosa	Colon
6	chr6:15436000-15447000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr6:15439000-15458000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
8	chr6:15439200-15450200	Enhancers	Skeletal Muscle Male	skeletal muscle
9	chr6:15439600-15448200	Enhancers	Skeletal Muscle Female	skeletal muscle
10	chr6:15440000-15449400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr6:15440000-15468600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
12	chr6:15440600-15448200	Weak transcription	Thymus	Thymus
13	chr6:15440600-15454800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr6:15441600-15447000	Weak transcription	Primary T helper cells fromperipheralblood	blood
15	chr6:15441600-15451800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
16	chr6:15441600-15452200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr6:15441600-15452200	Weak transcription	Dnd41	blood
18	chr6:15441600-15453600	Weak transcription	HSMM	muscle
19	chr6:15441800-15447000	Weak transcription	Primary T cells from cord blood	blood
20	chr6:15441800-15448000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
21	chr6:15441800-15449400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
22	chr6:15442200-15446600	Enhancers	Brain Substantia Nigra	brain
23	chr6:15442200-15451400	Enhancers	HUES48 Cell Line	embryonic stem cell
24	chr6:15442400-15446600	Enhancers	iPS-18 Cell Line	embryonic stem cell
25	chr6:15442600-15449600	Enhancers	H1 Cell Line	embryonic stem cell
26	chr6:15442800-15448200	Enhancers	H9 Cell Line	embryonic stem cell
27	chr6:15443400-15446600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
28	chr6:15443400-15447800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr6:15443600-15449600	Enhancers	iPS-20b Cell Line	embryonic stem cell
30	chr6:15443600-15451600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
31	chr6:15443600-15452000	Weak transcription	K562	blood
32	chr6:15443800-15449200	Weak transcription	HUVEC	blood vessel
33	chr6:15444000-15448800	Weak transcription	NHEK	skin
34	chr6:15444200-15449600	Weak transcription	NHDF-Ad	bronchial
35	chr6:15444400-15446600	Enhancers	Breast Myoepithelial Primary Cells	Breast
36	chr6:15444400-15447000	Enhancers	Psoas Muscle	Psoas
37	chr6:15444400-15447200	Enhancers	Brain Cingulate Gyrus	brain
38	chr6:15444400-15452200	Weak transcription	Primary neutrophils fromperipheralblood	blood
39	chr6:15444400-15453600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
40	chr6:15444600-15447800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr6:15444600-15448200	Enhancers	Pancreas	Pancrea
42	chr6:15444600-15451400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
43	chr6:15444600-15452600	Weak transcription	Duodenum Mucosa	Duodenum
44	chr6:15444600-15477400	Weak transcription	Hela-S3	cervix
45	chr6:15444800-15446600	Enhancers	Brain Anterior Caudate	brain
46	chr6:15444800-15447000	Weak transcription	Primary T cells fromperipheralblood	blood
47	chr6:15444800-15448000	Weak transcription	Fetal Intestine Large	intestine
48	chr6:15444800-15448000	Weak transcription	Monocytes-CD14+_RO01746	blood
49	chr6:15444800-15448200	Weak transcription	Colon Smooth Muscle	Colon
50	chr6:15444800-15449000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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