Variant report

Variant	rs1028886
Chromosome Location	chr6:25434470-25434471
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs7761140	0.87[AFR][1000 genomes]
rs9461170	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9467516	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9467517	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][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	nsv883485	chr6:25259137-25437986	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv883487	chr6:25280119-25508868	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv830612	chr6:25342408-25509758	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	esv1850810	chr6:25405576-25462543	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	esv2040449	chr6:25434470-25434471	Weak transcription	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25411000-25451800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr6:25415000-25446200	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr6:25416200-25441000	Weak transcription	Fetal Thymus	thymus
4	chr6:25416200-25447800	Weak transcription	Pancreas	Pancrea
5	chr6:25416600-25447800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr6:25418800-25462600	Weak transcription	Ovary	ovary
7	chr6:25420800-25436600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr6:25420800-25441800	Weak transcription	H1 Cell Line	embryonic stem cell
9	chr6:25420800-25445400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr6:25421000-25438600	Weak transcription	Primary B cells from cord blood	blood
11	chr6:25421000-25440400	Weak transcription	Primary T cells from cord blood	blood
12	chr6:25421400-25436400	Weak transcription	Fetal Intestine Large	intestine
13	chr6:25421400-25442200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr6:25421400-25446200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr6:25421600-25446200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr6:25423200-25439800	Weak transcription	NHEK	skin
17	chr6:25427000-25444400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr6:25429600-25436800	Weak transcription	Aorta	Aorta
19	chr6:25429800-25435400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
20	chr6:25432200-25435400	Weak transcription	Primary hematopoietic stem cells	blood
21	chr6:25432400-25445800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr6:25432400-25447800	Weak transcription	Gastric	stomach
23	chr6:25432600-25435200	Weak transcription	Monocytes-CD14+_RO01746	blood
24	chr6:25432600-25445400	Weak transcription	Cortex derived primary cultured neurospheres	brain
25	chr6:25432800-25435000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr6:25432800-25435400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
27	chr6:25432800-25436600	Weak transcription	Duodenum Mucosa	Duodenum
28	chr6:25433000-25442400	Weak transcription	Fetal Lung	lung
29	chr6:25433200-25435600	Weak transcription	Fetal Intestine Small	intestine
30	chr6:25433400-25438800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
31	chr6:25433400-25439400	Weak transcription	Thymus	Thymus
32	chr6:25433400-25472600	Weak transcription	Rectal Mucosa Donor 29	rectum
33	chr6:25433600-25442600	Weak transcription	Sigmoid Colon	Sigmoid Colon
34	chr6:25433800-25435200	Weak transcription	Primary monocytes fromperipheralblood	blood
35	chr6:25433800-25437000	Weak transcription	Rectal Mucosa Donor 31	rectum
36	chr6:25434000-25446200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr6:25434200-25450200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr6:25434400-25434800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
39	chr6:25434400-25440400	Weak transcription	Primary T helper cells PMA-I stimulated	--

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