Variant report

Variant	rs28534923
Chromosome Location	chr15:92395158-92395159
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr15:92395138-92395372	Hela-S3	cervix:	n/a	n/a
2	SMC3	chr15:92395135-92398691	SK-N-SH	brain:	n/a	chr15:92395983-92395993 chr15:92396519-92396533

Variant related genes	Relation type
SLCO3A1	TF binding region

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

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs11852976	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11858120	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11858157	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12907294	0.86[EUR][1000 genomes]
rs28399101	1.00[ASN][1000 genomes]
rs28504271	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28517863	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28592114	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4075845	0.94[EUR][1000 genomes]
rs56359943	1.00[ASN][1000 genomes]
rs7162027	0.94[EUR][1000 genomes]
rs7172169	0.92[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs7173207	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7179294	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1048635	chr15:92073294-92557339	Weak transcription Genic enhancers Flanking Active TSS Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv870094	chr15:92367354-92631647	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:72 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:92391800-92395400	Enhancers	Primary hematopoietic stem cells short term culture	blood
2	chr15:92392400-92395600	Enhancers	Primary T helper cells fromperipheralblood	blood
3	chr15:92392600-92395600	Enhancers	Primary T helper cells PMA-I stimulated	--
4	chr15:92392600-92395800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
5	chr15:92392800-92395200	Enhancers	Primary neutrophils fromperipheralblood	blood
6	chr15:92392800-92395400	Enhancers	Primary monocytes fromperipheralblood	blood
7	chr15:92392800-92395400	Enhancers	Primary T regulatory cells fromperipheralblood	blood
8	chr15:92393000-92395200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr15:92393000-92395400	Enhancers	Primary hematopoietic stem cells	blood
10	chr15:92393000-92395400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr15:92393000-92395400	Enhancers	Brain Hippocampus Middle	brain
12	chr15:92393000-92395600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr15:92393000-92395800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
14	chr15:92393800-92395400	Enhancers	Brain Anterior Caudate	brain
15	chr15:92394000-92395400	Enhancers	Brain Substantia Nigra	brain
16	chr15:92394200-92395200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr15:92394200-92395200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr15:92394200-92395400	Enhancers	Breast Myoepithelial Primary Cells	Breast
19	chr15:92394200-92395400	Weak transcription	Primary T cells from cord blood	blood
20	chr15:92394200-92395400	Weak transcription	NHEK	skin
21	chr15:92394400-92395200	Enhancers	Brain Cingulate Gyrus	brain
22	chr15:92394400-92395400	Weak transcription	H1 Cell Line	embryonic stem cell
23	chr15:92394400-92395600	Enhancers	Left Ventricle	heart
24	chr15:92394600-92395200	Enhancers	Stomach Smooth Muscle	stomach
25	chr15:92394600-92395400	Enhancers	Primary T helper naive cells from peripheral blood	blood
26	chr15:92394600-92395600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
27	chr15:92394600-92395600	Enhancers	Colon Smooth Muscle	Colon
28	chr15:92394600-92395800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
29	chr15:92394800-92395200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr15:92394800-92395200	Enhancers	Hela-S3	cervix
31	chr15:92394800-92395400	Enhancers	Adipose Nuclei	Adipose
32	chr15:92394800-92395400	Enhancers	Brain Angular Gyrus	brain
33	chr15:92394800-92395400	Enhancers	Duodenum Smooth Muscle	Duodenum
34	chr15:92394800-92395400	Enhancers	Fetal Lung	lung
35	chr15:92394800-92395400	Enhancers	Skeletal Muscle Female	skeletal muscle
36	chr15:92394800-92395600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
37	chr15:92394800-92395600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
38	chr15:92394800-92395600	Enhancers	Primary T killer memory cells from peripheral blood	blood
39	chr15:92394800-92395600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
40	chr15:92394800-92395600	Enhancers	Aorta	Aorta
41	chr15:92394800-92395600	Enhancers	Fetal Heart	heart
42	chr15:92394800-92395600	Enhancers	Pancreatic Islets	Pancreatic Islet
43	chr15:92394800-92395600	Enhancers	Ovary	ovary
44	chr15:92394800-92395600	Enhancers	Right Ventricle	heart
45	chr15:92394800-92395800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
46	chr15:92394800-92395800	Enhancers	Fetal Stomach	stomach
47	chr15:92394800-92396000	Enhancers	Sigmoid Colon	Sigmoid Colon
48	chr15:92394800-92396400	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
49	chr15:92395000-92395200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
50	chr15:92395000-92395200	Enhancers	Colonic Mucosa	Colon

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