Variant report

Variant	rs28662287
Chromosome Location	chr15:45361011-45361012
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs199138	0.90[ASW][hapmap]
rs2470661	0.82[ASN][1000 genomes]
rs2576107	0.81[ASN][1000 genomes]
rs269868	0.80[ASW][hapmap]
rs2854438	0.98[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs2854439	0.91[ASW][hapmap];0.84[ASN][1000 genomes]
rs2854440	0.95[AFR][1000 genomes]
rs2854441	0.95[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs2854442	0.91[ASW][hapmap];0.86[ASN][1000 genomes]
rs2854443	0.83[ASN][1000 genomes]

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	esv2758380	chr15:44968868-45422842	Enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	95 gene(s)	inside rSNPs	diseases
2	esv2760029	chr15:44968868-45422842	Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	95 gene(s)	inside rSNPs	diseases
3	nsv916374	chr15:45058112-45769052	Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	104 gene(s)	inside rSNPs	diseases
4	esv2757599	chr15:45100852-45383620	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
5	nsv932147	chr15:45319178-45872076	Bivalent/Poised TSS Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
6	nsv427961	chr15:45338381-45491634	Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Genic enhancers Bivalent Enhancer Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:97 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:45316600-45366600	Weak transcription	Duodenum Smooth Muscle	Duodenum
2	chr15:45319200-45363200	Weak transcription	Fetal Thymus	thymus
3	chr15:45319800-45363600	Weak transcription	Brain Angular Gyrus	brain
4	chr15:45329800-45365800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr15:45331400-45369600	Weak transcription	Pancreas	Pancrea
6	chr15:45333400-45361200	Weak transcription	HUVEC	blood vessel
7	chr15:45337400-45365400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
8	chr15:45338000-45363800	Weak transcription	Stomach Smooth Muscle	stomach
9	chr15:45338400-45365200	Weak transcription	HSMM	muscle
10	chr15:45341200-45361800	Weak transcription	Ovary	ovary
11	chr15:45341200-45363600	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr15:45341400-45362800	Weak transcription	Rectal Mucosa Donor 29	rectum
13	chr15:45341600-45365800	Weak transcription	Fetal Lung	lung
14	chr15:45341800-45363000	Weak transcription	Gastric	stomach
15	chr15:45341800-45363200	Weak transcription	Brain Substantia Nigra	brain
16	chr15:45341800-45366600	Weak transcription	Thymus	Thymus
17	chr15:45342000-45361600	Weak transcription	Primary T helper cells PMA-I stimulated	--
18	chr15:45342000-45362400	Weak transcription	Fetal Brain Male	brain
19	chr15:45342800-45363200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr15:45343200-45363400	Weak transcription	Brain Inferior Temporal Lobe	brain
21	chr15:45345000-45374800	Weak transcription	Aorta	Aorta
22	chr15:45345400-45369400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr15:45345600-45364800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr15:45345800-45361200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr15:45345800-45361600	Weak transcription	K562	blood
26	chr15:45345800-45361800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr15:45345800-45362000	Weak transcription	Fetal Kidney	kidney
28	chr15:45348400-45363200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr15:45350600-45366400	Weak transcription	A549	lung
30	chr15:45351000-45363400	Weak transcription	Brain Anterior Caudate	brain
31	chr15:45351000-45363600	Weak transcription	Primary B cells from cord blood	blood
32	chr15:45351200-45363200	Weak transcription	Brain Hippocampus Middle	brain
33	chr15:45351800-45361200	Weak transcription	Fetal Brain Female	brain
34	chr15:45352000-45361200	Weak transcription	Cortex derived primary cultured neurospheres	brain
35	chr15:45352000-45362200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr15:45352000-45366400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
37	chr15:45352000-45369800	Weak transcription	Lung	lung
38	chr15:45352200-45363200	Weak transcription	Adipose Nuclei	Adipose
39	chr15:45352600-45362200	Weak transcription	Skeletal Muscle Male	skeletal muscle
40	chr15:45352800-45361800	Weak transcription	Stomach Mucosa	stomach
41	chr15:45353400-45361200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
42	chr15:45353400-45362000	Weak transcription	Esophagus	oesophagus
43	chr15:45353600-45361600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr15:45353600-45361800	Weak transcription	Primary hematopoietic stem cells	blood
45	chr15:45353600-45362600	Weak transcription	Spleen	Spleen
46	chr15:45353600-45364400	Weak transcription	GM12878-XiMat	blood
47	chr15:45353600-45365200	Weak transcription	Primary B cells from peripheral blood	blood
48	chr15:45353600-45365600	Weak transcription	Small Intestine	intestine
49	chr15:45354000-45361600	Weak transcription	Fetal Heart	heart
50	chr15:45354200-45361600	Weak transcription	H9 Cell Line	embryonic stem cell

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