Variant report

Variant	rs17238489
Chromosome Location	chr15:56165523-56165524
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:56155984..56158012-chr15:56165346..56166978,2	K562	blood:

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs11550869	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.94[EUR][1000 genomes]
rs12898553	0.87[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs12902644	0.85[JPT][hapmap]
rs17238461	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.94[EUR][1000 genomes]
rs17238482	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17819282	0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17819300	1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[TSI][hapmap];0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34555597	0.81[ASN][1000 genomes]
rs4774833	0.85[JPT][hapmap]
rs55782406	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs55858643	0.80[EUR][1000 genomes]
rs55999037	0.80[EUR][1000 genomes]
rs62043760	0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62043761	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62043763	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62043764	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62043792	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62043793	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62043796	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62043801	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62043802	0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62043810	0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62043815	0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62043816	0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62043847	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62043854	0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62043858	0.80[EUR][1000 genomes]
rs62046605	0.94[EUR][1000 genomes]
rs62046606	0.94[EUR][1000 genomes]
rs62046641	0.93[EUR][1000 genomes]
rs62046642	0.93[EUR][1000 genomes]
rs62046643	0.93[EUR][1000 genomes]
rs62046644	0.93[EUR][1000 genomes]
rs62046645	0.93[EUR][1000 genomes]
rs62046648	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62046649	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62046650	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7174459	0.85[JPT][hapmap]

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	nsv457157	chr15:55722213-56255774	Flanking Active TSS Enhancers Active TSS Strong transcription Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	nsv569539	chr15:55722213-56255774	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:56148200-56174400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr15:56149000-56177600	Weak transcription	Spleen	Spleen
3	chr15:56152800-56174600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr15:56153000-56167400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr15:56153000-56174000	Weak transcription	Primary hematopoietic stem cells	blood
6	chr15:56153000-56174400	Weak transcription	HSMMtube	muscle
7	chr15:56153000-56174800	Weak transcription	Fetal Intestine Small	intestine
8	chr15:56153000-56176400	Weak transcription	Esophagus	oesophagus
9	chr15:56153600-56178600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
10	chr15:56153800-56165600	Weak transcription	HMEC	breast
11	chr15:56155400-56174800	Weak transcription	Primary neutrophils fromperipheralblood	blood
12	chr15:56155400-56175600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
13	chr15:56156200-56165600	Strong transcription	HSMM	muscle
14	chr15:56158200-56176400	Weak transcription	Left Ventricle	heart
15	chr15:56161200-56174400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr15:56161200-56179800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr15:56161400-56174400	Weak transcription	NHEK	skin
18	chr15:56161400-56174600	Weak transcription	Primary T cells from cord blood	blood
19	chr15:56161400-56177400	Weak transcription	Duodenum Mucosa	Duodenum
20	chr15:56161800-56174200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr15:56163400-56174600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr15:56163600-56174400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr15:56164600-56165800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr15:56164600-56165800	Flanking Active TSS	HUVEC	blood vessel
25	chr15:56164800-56165600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr15:56164800-56165600	Active TSS	Right Atrium	heart
27	chr15:56164800-56165800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr15:56164800-56165800	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr15:56164800-56165800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr15:56164800-56165800	Flanking Active TSS	Hela-S3	cervix
31	chr15:56164800-56165800	Flanking Active TSS	Osteobl	bone
32	chr15:56164800-56166000	Enhancers	NH-A	brain
33	chr15:56165000-56165800	Active TSS	Ovary	ovary
34	chr15:56165000-56166400	Active TSS	A549	lung
35	chr15:56165000-56171200	Weak transcription	Sigmoid Colon	Sigmoid Colon
36	chr15:56165200-56165600	Flanking Active TSS	Fetal Adrenal Gland	Adrenal Gland
37	chr15:56165200-56165800	Flanking Active TSS	Muscle Satellite Cultured Cells	--
38	chr15:56165200-56174200	Weak transcription	Liver	Liver
39	chr15:56165200-56174200	Weak transcription	Skeletal Muscle Female	skeletal muscle
40	chr15:56165400-56165600	Flanking Active TSS	Aorta	Aorta
41	chr15:56165400-56165600	Enhancers	Psoas Muscle	Psoas
42	chr15:56165400-56165800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
43	chr15:56165400-56166000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
44	chr15:56165400-56166800	Weak transcription	Skeletal Muscle Male	skeletal muscle

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