Variant report

Variant	rs1872742
Chromosome Location	chr15:59473316-59473317
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs11632378	0.83[AMR][1000 genomes]
rs11637519	0.83[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs11852281	0.88[ASN][1000 genomes]
rs11854052	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs11854099	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs11857218	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs11858347	0.88[ASN][1000 genomes]
rs12591296	0.85[ASN][1000 genomes]
rs12916831	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17190785	0.88[ASN][1000 genomes]
rs17269517	0.88[ASN][1000 genomes]
rs1967063	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2087123	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2101394	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2306786	0.85[ASN][1000 genomes]
rs2306790	0.88[ASN][1000 genomes]
rs58124311	0.88[ASN][1000 genomes]
rs7182408	0.82[ASN][1000 genomes]
rs8036783	0.83[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs8040100	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs923242	1.00[ASN][1000 genomes]
rs931346	0.83[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 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	nsv833025	chr15:59336148-59522176	Strong transcription Weak transcription Genic enhancers Flanking Active TSS Active TSS Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
3	nsv1035868	chr15:59402426-59530594	Flanking Active TSS Strong transcription Weak transcription Genic enhancers Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	13 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	chr15:59437800-59484400	Weak transcription	Fetal Brain Male	brain
2	chr15:59445600-59479600	Weak transcription	Fetal Kidney	kidney
3	chr15:59451200-59473600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr15:59451600-59474600	Weak transcription	Psoas Muscle	Psoas
5	chr15:59454000-59482000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr15:59458600-59473800	Strong transcription	Primary B cells from peripheral blood	blood
7	chr15:59461000-59474800	Strong transcription	Liver	Liver
8	chr15:59464200-59474000	Weak transcription	HepG2	liver
9	chr15:59464400-59496800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr15:59466800-59474200	Enhancers	Primary monocytes fromperipheralblood	blood
11	chr15:59467200-59474000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
12	chr15:59467600-59473600	Weak transcription	Colon Smooth Muscle	Colon
13	chr15:59467800-59473400	Strong transcription	Fetal Intestine Small	intestine
14	chr15:59467800-59473600	Weak transcription	Brain Inferior Temporal Lobe	brain
15	chr15:59467800-59473800	Weak transcription	Brain Cingulate Gyrus	brain
16	chr15:59467800-59479600	Weak transcription	Brain Angular Gyrus	brain
17	chr15:59467800-59523200	Weak transcription	Fetal Brain Female	brain
18	chr15:59468000-59474000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr15:59468000-59479800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr15:59468000-59480000	Weak transcription	Pancreatic Islets	Pancreatic Islet
21	chr15:59468200-59528600	Weak transcription	Stomach Mucosa	stomach
22	chr15:59468600-59521400	Strong transcription	Rectal Mucosa Donor 29	rectum
23	chr15:59468800-59473400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr15:59468800-59490800	Strong transcription	Duodenum Mucosa	Duodenum
25	chr15:59468800-59492600	Strong transcription	Fetal Intestine Large	intestine
26	chr15:59469000-59473400	Enhancers	HSMMtube	muscle
27	chr15:59469000-59482800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr15:59469400-59473800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr15:59469400-59473800	Strong transcription	A549	lung
30	chr15:59469400-59474200	Strong transcription	NHEK	skin
31	chr15:59469600-59473400	Strong transcription	Fetal Stomach	stomach
32	chr15:59469600-59473600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr15:59469600-59475000	Strong transcription	HMEC	breast
34	chr15:59469800-59474800	Strong transcription	Hela-S3	cervix
35	chr15:59470000-59475800	Strong transcription	Duodenum Smooth Muscle	Duodenum
36	chr15:59470000-59482200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
37	chr15:59470200-59473400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr15:59470400-59473800	Weak transcription	HUES6 Cell Line	embryonic stem cell
39	chr15:59470400-59473800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
40	chr15:59470400-59473800	Strong transcription	GM12878-XiMat	blood
41	chr15:59470600-59473800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr15:59470800-59475000	Weak transcription	Lung	lung
43	chr15:59470800-59485200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
44	chr15:59471000-59473800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
45	chr15:59471000-59474200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
46	chr15:59471000-59480400	Weak transcription	Colonic Mucosa	Colon
47	chr15:59471000-59484000	Weak transcription	Esophagus	oesophagus
48	chr15:59471400-59474800	Weak transcription	H1 Cell Line	embryonic stem cell
49	chr15:59471400-59480000	Weak transcription	Left Ventricle	heart
50	chr15:59471400-59482200	Weak transcription	iPS-15b Cell Line	embryonic stem cell

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