Variant report

Variant	rs2282827
Chromosome Location	chr6:15437390-15437391
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:15426491..15428000-chr6:15435400..15438225,2	MCF-7	breast:
2	chr6:15432414..15437643-chr6:15439715..15443191,6	K562	blood:
3	chr6:15436867..15438736-chr6:15439422..15441651,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs2237112	0.82[GIH][hapmap]
rs2237130	0.86[GIH][hapmap]
rs2237135	0.91[GIH][hapmap]
rs2237136	0.91[GIH][hapmap]
rs2237137	0.85[GIH][hapmap]
rs2237140	0.96[CEU][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2237145	0.87[CHB][hapmap]
rs2237147	0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2237150	0.82[CHB][hapmap]
rs2237154	0.82[JPT][hapmap]
rs2237155	0.85[CEU][hapmap];0.81[JPT][hapmap]
rs2237158	0.81[CEU][hapmap];0.82[JPT][hapmap]
rs2282825	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2282826	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2299040	0.87[GIH][hapmap]
rs2299045	0.86[CHB][hapmap]
rs4085876	0.91[CHB][hapmap]
rs4109434	0.85[CEU][hapmap];0.86[MEX][hapmap];0.83[TSI][hapmap]
rs4715976	0.91[GIH][hapmap]
rs760660	0.87[GIH][hapmap]
rs7754701	0.87[CHB][hapmap]
rs7763809	0.84[GIH][hapmap]
rs9370814	0.86[GIH][hapmap]
rs9383058	0.87[GIH][hapmap]
rs9464786	0.81[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 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

No data

Chromatin state (count:107 , 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	chr6:15424600-15442000	Enhancers	iPS-18 Cell Line	embryonic stem cell
3	chr6:15425600-15445400	Enhancers	Primary monocytes fromperipheralblood	blood
4	chr6:15425800-15437800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr6:15426000-15441000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
6	chr6:15426400-15440400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr6:15426400-15442000	Enhancers	Primary B cells from peripheral blood	blood
8	chr6:15427000-15450800	Enhancers	HUES6 Cell Line	embryonic stem cell
9	chr6:15428000-15441800	Enhancers	HUES48 Cell Line	embryonic stem cell
10	chr6:15428400-15437400	Weak transcription	Dnd41	blood
11	chr6:15428800-15441600	Enhancers	iPS-20b Cell Line	embryonic stem cell
12	chr6:15429200-15446000	Enhancers	HUES64 Cell Line	embryonic stem cell
13	chr6:15430200-15439600	Enhancers	Primary hematopoietic stem cells short term culture	blood
14	chr6:15430200-15439600	Weak transcription	NHLF	lung
15	chr6:15430800-15440800	Enhancers	H1 Cell Line	embryonic stem cell
16	chr6:15430800-15441000	Enhancers	H9 Cell Line	embryonic stem cell
17	chr6:15430800-15441600	Enhancers	Primary T helper cells fromperipheralblood	blood
18	chr6:15431000-15441600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
19	chr6:15431800-15441600	Enhancers	ES-I3 Cell Line	embryonic stem cell
20	chr6:15432400-15439000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
21	chr6:15432400-15441600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
22	chr6:15432800-15439600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr6:15433000-15443200	Weak transcription	Hela-S3	cervix
24	chr6:15433400-15439800	Weak transcription	Rectal Mucosa Donor 31	rectum
25	chr6:15433600-15439600	Weak transcription	NHDF-Ad	bronchial
26	chr6:15433800-15439400	Weak transcription	Fetal Stomach	stomach
27	chr6:15434000-15439400	Weak transcription	Osteobl	bone
28	chr6:15434000-15441800	Enhancers	Primary T cells from cord blood	blood
29	chr6:15434000-15441800	Enhancers	Primary T helper cells PMA-I stimulated	--
30	chr6:15434200-15438400	Weak transcription	Fetal Brain Male	brain
31	chr6:15434200-15439200	Weak transcription	Stomach Smooth Muscle	stomach
32	chr6:15434200-15439400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr6:15434200-15439400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
34	chr6:15434400-15441600	Weak transcription	Ovary	ovary
35	chr6:15434400-15444400	Weak transcription	HSMMtube	muscle
36	chr6:15435000-15438200	Weak transcription	Thymus	Thymus
37	chr6:15435000-15439600	Weak transcription	Fetal Lung	lung
38	chr6:15435000-15439600	Weak transcription	HMEC	breast
39	chr6:15435000-15448000	Weak transcription	Rectal Smooth Muscle	rectum
40	chr6:15435200-15438800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
41	chr6:15435200-15439000	Weak transcription	Brain Hippocampus Middle	brain
42	chr6:15435400-15437400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
43	chr6:15435400-15438600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
44	chr6:15435600-15437400	Enhancers	Left Ventricle	heart
45	chr6:15435600-15437800	Enhancers	Primary T cells fromperipheralblood	blood
46	chr6:15435600-15437800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
47	chr6:15435600-15439600	Weak transcription	Brain Anterior Caudate	brain
48	chr6:15435800-15443400	Weak transcription	HepG2	liver
49	chr6:15435800-15445400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
50	chr6:15435800-15446000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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