Variant report

Variant	rs11858458
Chromosome Location	chr15:74033033-74033034
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	HNF4G	chr15:74032788-74033044	HepG2	liver:	n/a	chr15:74032934-74032949
2	HNF4A	chr15:74032744-74033086	HepG2	liver:	n/a	chr15:74032935-74032950
3	USF1	chr15:74032844-74033091	HepG2	liver:	n/a	chr15:74032978-74032989
4	ZEB1	chr15:74032775-74033236	HepG2	liver:	n/a	n/a

Variant related genes	Relation type
C15orf59	TF binding region

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs1038094	0.86[EUR][1000 genomes]
rs11638072	0.86[EUR][1000 genomes]
rs12910404	0.89[EUR][1000 genomes]
rs12917099	0.89[EUR][1000 genomes]
rs1351159	0.86[EUR][1000 genomes]
rs1351161	0.85[EUR][1000 genomes]
rs1542544	0.86[EUR][1000 genomes]
rs1871228	0.86[EUR][1000 genomes]
rs2127019	0.86[EUR][1000 genomes]
rs2279154	0.86[EUR][1000 genomes]
rs2279155	0.86[EUR][1000 genomes]
rs28627084	0.86[EUR][1000 genomes]
rs28649098	0.86[EUR][1000 genomes]
rs4886518	0.82[EUR][1000 genomes]
rs4886892	0.86[EUR][1000 genomes]
rs4886896	0.86[EUR][1000 genomes]
rs4887036	0.87[EUR][1000 genomes]
rs4887039	0.87[EUR][1000 genomes]
rs4887114	0.89[EUR][1000 genomes]
rs58316634	0.87[ASN][1000 genomes]
rs59067146	0.83[ASN][1000 genomes]
rs60243887	0.81[ASN][1000 genomes]
rs7163553	0.82[EUR][1000 genomes]
rs7174764	0.87[ASN][1000 genomes]
rs7180214	0.85[EUR][1000 genomes]
rs74023531	0.83[ASN][1000 genomes]
rs7497362	0.87[ASN][1000 genomes]
rs8042653	0.86[EUR][1000 genomes]
rs922457	0.86[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	nsv471252	chr15:74006691-74089793	Bivalent/Poised TSS Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv569970	chr15:74016622-74059081	Weak transcription Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:74015800-74033400	Weak transcription	Ovary	ovary
2	chr15:74021800-74033400	Weak transcription	Right Atrium	heart
3	chr15:74023600-74036400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr15:74025600-74035200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr15:74027000-74033400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr15:74029800-74033200	Weak transcription	Brain Cingulate Gyrus	brain
7	chr15:74030000-74039200	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr15:74030200-74034800	Weak transcription	Brain Germinal Matrix	brain
9	chr15:74031200-74033600	Strong transcription	Fetal Stomach	stomach
10	chr15:74031200-74038600	Weak transcription	Fetal Lung	lung
11	chr15:74031400-74035000	Strong transcription	Cortex derived primary cultured neurospheres	brain
12	chr15:74031600-74033200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr15:74031600-74035000	Weak transcription	Esophagus	oesophagus
14	chr15:74031600-74035000	Strong transcription	Fetal Brain Female	brain
15	chr15:74031800-74035600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
16	chr15:74031800-74036400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
17	chr15:74032000-74034400	Weak transcription	Pancreas	Pancrea
18	chr15:74032400-74033400	Genic enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
19	chr15:74032600-74033200	Enhancers	Liver	Liver
20	chr15:74032600-74034200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr15:74032800-74033400	Enhancers	HepG2	liver
22	chr15:74033000-74033200	Weak transcription	Right Ventricle	heart
23	chr15:74033000-74033200	Bivalent Enhancer	HSMMtube	muscle
24	chr15:74033000-74034400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
25	chr15:74033000-74034600	Enhancers	Brain Angular Gyrus	brain
26	chr15:74033000-74034600	Genic enhancers	Brain Anterior Caudate	brain
27	chr15:74033000-74035600	Enhancers	Brain Hippocampus Middle	brain
28	chr15:74033000-74035800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr15:74033000-74035800	Enhancers	Brain Substantia Nigra	brain
30	chr15:74033000-74037400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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