Variant report

Variant	rs28524122
Chromosome Location	chr15:58847076-58847077
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:58843959..58845583-chr15:58846564..58848827,2	K562	blood:
2	chr15:58843977..58845847-chr15:58846386..58849270,2	MCF-7	breast:
3	chr15:58836656..58842196-chr15:58843431..58849915,8	K562	blood:
4	chr15:58846252..58850551-chr15:58852253..58854849,4	MCF-7	breast:

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs12908645	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12913969	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17301857	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17301864	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2242063	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2242066	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs28427123	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs28458188	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28515698	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28569241	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs28602186	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs36017602	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6074	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62005260	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs871804	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][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	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	nsv569601	chr15:58800766-58866156	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:58829000-58847600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr15:58837000-58848400	Enhancers	Fetal Thymus	thymus
3	chr15:58840600-58849200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr15:58840800-58849600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr15:58844400-58847200	Weak transcription	GM12878-XiMat	blood
6	chr15:58844600-58847200	Weak transcription	Fetal Kidney	kidney
7	chr15:58844600-58848000	Weak transcription	A549	lung
8	chr15:58844600-58860400	Weak transcription	Primary T cells from cord blood	blood
9	chr15:58844800-58847200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
10	chr15:58844800-58847200	Weak transcription	Brain Hippocampus Middle	brain
11	chr15:58844800-58850800	Weak transcription	Liver	Liver
12	chr15:58845000-58847400	Weak transcription	HUES6 Cell Line	embryonic stem cell
13	chr15:58845000-58847400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
14	chr15:58845000-58847400	Weak transcription	Brain Anterior Caudate	brain
15	chr15:58845000-58847400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr15:58845000-58847600	Weak transcription	Fetal Heart	heart
17	chr15:58845000-58847800	Weak transcription	HUES64 Cell Line	embryonic stem cell
18	chr15:58845000-58848000	Weak transcription	Right Atrium	heart
19	chr15:58845200-58847400	Weak transcription	Rectal Mucosa Donor 31	rectum
20	chr15:58845200-58847600	Weak transcription	Fetal Intestine Large	intestine
21	chr15:58845200-58847600	Weak transcription	Fetal Intestine Small	intestine
22	chr15:58845200-58847800	Weak transcription	Placenta Amnion	Placenta Amnion
23	chr15:58845200-58847800	Weak transcription	Small Intestine	intestine
24	chr15:58845200-58848000	Weak transcription	Colonic Mucosa	Colon
25	chr15:58845400-58847400	Weak transcription	Duodenum Mucosa	Duodenum
26	chr15:58845400-58847400	Weak transcription	Rectal Mucosa Donor 29	rectum
27	chr15:58845400-58847800	Weak transcription	Ovary	ovary
28	chr15:58845400-58857200	Weak transcription	Adipose Nuclei	Adipose
29	chr15:58845600-58847400	Weak transcription	K562	blood
30	chr15:58845600-58847800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr15:58845600-58847800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
32	chr15:58845800-58847200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
33	chr15:58846600-58849000	Enhancers	Primary hematopoietic stem cells short term culture	blood
34	chr15:58846800-58847400	Enhancers	Breast Myoepithelial Primary Cells	Breast
35	chr15:58847000-58847200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
36	chr15:58847000-58847200	Enhancers	Thymus	Thymus
37	chr15:58847000-58847400	Enhancers	Monocytes-CD14+_RO01746	blood
38	chr15:58847000-58848600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
39	chr15:58847000-58848800	Enhancers	Primary monocytes fromperipheralblood	blood

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