Variant report

Variant	rs1869143
Chromosome Location	chr15:58792483-58792484
allele	G/T
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	JUND	chr15:58792385-58792579	HepG2	liver:	n/a	chr15:58792426-58792435
2	USF1	chr15:58792389-58792661	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:58791633..58793802-chr15:58794935..58797234,3	K562	blood:

Variant related genes	Relation type
ALDH1A2	TF binding region
ENSG00000259293	TF binding region

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs12900622	1.00[ASW][hapmap]
rs12904012	1.00[CHB][hapmap]
rs12909642	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs12912415	1.00[ASW][hapmap]
rs12914035	1.00[ASW][hapmap]
rs16940372	1.00[CHB][hapmap];0.86[MEX][hapmap]
rs17301781	1.00[ASW][hapmap];0.86[MEX][hapmap];1.00[AFR][1000 genomes]
rs1869142	0.86[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs34838631	0.85[AMR][1000 genomes]
rs34959352	0.88[AMR][1000 genomes]
rs7163555	1.00[CHB][hapmap];0.86[MEX][hapmap]
rs8192701	1.00[ASW][hapmap]

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	nsv1051058	chr15:58519922-59092530	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv542401	chr15:58519922-59092530	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
3	nsv569598	chr15:58552606-58852463	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	esv3362898	chr15:58705732-58850860	ZNF genes & repeats Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent Enhancer Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv1043041	chr15:58744505-58876327	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
6	nsv904268	chr15:58763678-58803225	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:58784000-58794800	Weak transcription	Stomach Mucosa	stomach
2	chr15:58784000-58797800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr15:58784400-58795600	Weak transcription	Liver	Liver
4	chr15:58785000-58797200	Weak transcription	Right Ventricle	heart
5	chr15:58787600-58792600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr15:58789200-58792600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr15:58789400-58794600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr15:58789600-58795400	Weak transcription	Thymus	Thymus
9	chr15:58789600-58795600	Enhancers	Placenta Amnion	Placenta Amnion
10	chr15:58790200-58792600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr15:58790400-58792800	Enhancers	NHDF-Ad	bronchial
12	chr15:58790400-58793200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr15:58791400-58794400	Weak transcription	Brain Anterior Caudate	brain
14	chr15:58791400-58797400	Weak transcription	Esophagus	oesophagus
15	chr15:58791400-58809400	Weak transcription	Spleen	Spleen
16	chr15:58791600-58793000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
17	chr15:58791600-58794000	Weak transcription	Fetal Kidney	kidney
18	chr15:58791600-58794200	Weak transcription	Placenta	Placenta
19	chr15:58791600-58797000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr15:58791600-58797600	Weak transcription	HMEC	breast
21	chr15:58792000-58795000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr15:58792000-58797200	Weak transcription	Right Atrium	heart
23	chr15:58792000-58797400	Weak transcription	NHEK	skin
24	chr15:58792200-58795800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr15:58792200-58797200	Weak transcription	HSMM	muscle
26	chr15:58792400-58792800	Genic enhancers	HSMMtube	muscle
27	chr15:58792400-58793400	Enhancers	Fetal Thymus	thymus
28	chr15:58792400-58797400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr15:58792400-58797600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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