Variant report

Variant	rs17236578
Chromosome Location	chr15:59620889-59620890
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10851653	0.84[CHB][hapmap]
rs11071428	0.97[ASN][1000 genomes]
rs11071429	0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11071430	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11071431	0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11631146	0.84[CHB][hapmap]
rs11637840	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11854356	0.88[AMR][1000 genomes]
rs11854697	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[YRI][hapmap];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11855765	0.93[AMR][1000 genomes]
rs11858264	0.84[CHB][hapmap]
rs11858313	0.87[CEU][hapmap];0.85[CHB][hapmap];0.95[AMR][1000 genomes]
rs12050546	0.93[AMR][1000 genomes]
rs12441388	0.86[CEU][hapmap];0.84[CHB][hapmap]
rs12593179	0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12593355	0.95[AMR][1000 genomes]
rs12595769	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12902525	0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12905793	0.84[CHB][hapmap]
rs16941337	0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16941369	0.85[CHB][hapmap]
rs17236585	0.86[CEU][hapmap];0.84[CHB][hapmap];0.95[AMR][1000 genomes]
rs17302331	0.80[ASN][1000 genomes]
rs17302351	0.84[CHB][hapmap];0.93[AMR][1000 genomes]
rs28363891	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs28572451	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4774327	0.89[AMR][1000 genomes]
rs4775158	0.88[CEU][hapmap];0.85[CHB][hapmap];0.87[AMR][1000 genomes]
rs59107240	0.95[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6494102	0.86[CEU][hapmap];0.84[CHB][hapmap]
rs6494105	0.84[CHB][hapmap]
rs66595425	0.95[AMR][1000 genomes]
rs66991143	0.93[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs67017396	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs67366717	0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs67498027	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs67552459	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7162228	0.95[AMR][1000 genomes]
rs7163650	0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7164494	0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7168074	0.95[AMR][1000 genomes]
rs7168263	0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7170390	0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7171696	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7177871	0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7177984	0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7178041	0.84[CHB][hapmap]
rs73426976	0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8024396	0.81[AMR][1000 genomes]
rs8024879	0.81[AMR][1000 genomes]
rs8024906	0.81[AMR][1000 genomes]
rs8025242	0.88[AMR][1000 genomes]
rs8025360	0.93[AMR][1000 genomes]
rs8033217	0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8033386	0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8039327	0.81[EUR][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	nsv527307	chr15:59103328-60018487	Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	145 gene(s)	inside rSNPs	diseases
2	nsv934082	chr15:59608605-59733211	Flanking Active TSS Enhancers Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
3	nsv457175	chr15:59609753-59681214	Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
4	nsv569603	chr15:59609753-59681214	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
5	nsv471246	chr15:59610743-59681214	Enhancers Flanking Active TSS Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
6	esv1794268	chr15:59614874-59637355	Enhancers Weak transcription Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:77 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:59600000-59627400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr15:59606600-59621200	Weak transcription	Fetal Kidney	kidney
3	chr15:59606800-59621400	Weak transcription	Gastric	stomach
4	chr15:59606800-59623000	Weak transcription	Lung	lung
5	chr15:59606800-59631600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr15:59608600-59621400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr15:59608600-59621400	Weak transcription	Ovary	ovary
8	chr15:59608600-59622600	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr15:59608600-59623200	Weak transcription	Psoas Muscle	Psoas
10	chr15:59608600-59623400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
11	chr15:59608600-59625800	Weak transcription	HMEC	breast
12	chr15:59608800-59621400	Weak transcription	Duodenum Mucosa	Duodenum
13	chr15:59609800-59621400	Weak transcription	Pancreas	Pancrea
14	chr15:59610200-59623000	Weak transcription	Left Ventricle	heart
15	chr15:59610200-59627200	Weak transcription	Cortex derived primary cultured neurospheres	brain
16	chr15:59610600-59623000	Weak transcription	Aorta	Aorta
17	chr15:59612200-59625800	Weak transcription	HUVEC	blood vessel
18	chr15:59613800-59626000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr15:59614200-59621600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr15:59616000-59621400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr15:59616200-59622600	Enhancers	HUES48 Cell Line	embryonic stem cell
22	chr15:59616400-59622200	Weak transcription	HUES64 Cell Line	embryonic stem cell
23	chr15:59616400-59624600	Weak transcription	H9 Cell Line	embryonic stem cell
24	chr15:59617600-59624400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
25	chr15:59618200-59624200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr15:59618200-59626800	Weak transcription	Brain Angular Gyrus	brain
27	chr15:59619000-59622000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
28	chr15:59619000-59622600	Enhancers	Primary B cells from cord blood	blood
29	chr15:59619000-59626200	Enhancers	Rectal Mucosa Donor 31	rectum
30	chr15:59619000-59626400	Enhancers	Primary B cells from peripheral blood	blood
31	chr15:59619200-59623800	Enhancers	Liver	Liver
32	chr15:59619400-59621200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
33	chr15:59619400-59621400	Strong transcription	NHEK	skin
34	chr15:59619600-59621600	Weak transcription	Colonic Mucosa	Colon
35	chr15:59619600-59622400	Enhancers	Primary monocytes fromperipheralblood	blood
36	chr15:59619600-59624600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
37	chr15:59619800-59621000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
38	chr15:59619800-59621000	Enhancers	Brain Hippocampus Middle	brain
39	chr15:59619800-59622000	Enhancers	Monocytes-CD14+_RO01746	blood
40	chr15:59619800-59624000	Enhancers	HepG2	liver
41	chr15:59620000-59621000	Weak transcription	HSMMtube	muscle
42	chr15:59620000-59621800	Enhancers	Brain Substantia Nigra	brain
43	chr15:59620000-59622000	Enhancers	Primary hematopoietic stem cells short term culture	blood
44	chr15:59620000-59622200	Enhancers	Adipose Nuclei	Adipose
45	chr15:59620000-59623800	Enhancers	Fetal Intestine Large	intestine
46	chr15:59620200-59621000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
47	chr15:59620200-59621200	Enhancers	Brain Cingulate Gyrus	brain
48	chr15:59620200-59621400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr15:59620200-59621600	Weak transcription	Placenta	Placenta
50	chr15:59620200-59622400	Enhancers	NHLF	lung

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