Variant report

Variant	rs28393473
Chromosome Location	chr15:57287108-57287109
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:57286718..57288374-chr15:57289394..57292211,2	K562	blood:
2	chr15:57285454..57287142-chr15:57328507..57331190,2	K562	blood:
3	chr15:57281787..57284402-chr15:57285432..57287690,2	K562	blood:
4	chr15:57286745..57288660-chr15:57302090..57304157,2	MCF-7	breast:

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs12102211	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12903733	0.83[AFR][1000 genomes]
rs16977156	0.83[AFR][1000 genomes]
rs16977168	0.83[AFR][1000 genomes]
rs16977178	0.94[AFR][1000 genomes]
rs16977180	0.94[AFR][1000 genomes]
rs16977183	0.94[AFR][1000 genomes]
rs16977191	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16977192	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16977196	0.83[AFR][1000 genomes]
rs28464293	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28493156	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28637784	0.83[AFR][1000 genomes]
rs28669321	0.83[AFR][1000 genomes]
rs28682280	0.83[AFR][1000 genomes]
rs28710916	0.83[AFR][1000 genomes]
rs28760390	0.83[AFR][1000 genomes]
rs28790102	0.83[AFR][1000 genomes]
rs57637767	0.83[AFR][1000 genomes]
rs59225036	0.94[AFR][1000 genomes]
rs59587271	0.94[AFR][1000 genomes];1.00[AMR][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	nsv1042486	chr15:57094598-57505992	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	nsv542393	chr15:57115116-57341363	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
3	nsv904250	chr15:57225766-57294085	ZNF genes & repeats Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv1052052	chr15:57232111-57344561	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
5	nsv542394	chr15:57232111-57344561	Enhancers Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
6	nsv904251	chr15:57241970-57575916	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:84 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57269800-57304800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr15:57273000-57307200	Weak transcription	Fetal Intestine Small	intestine
3	chr15:57274000-57287600	Weak transcription	Rectal Mucosa Donor 29	rectum
4	chr15:57274200-57289200	Weak transcription	Fetal Muscle Leg	muscle
5	chr15:57274200-57295600	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr15:57275400-57306200	Weak transcription	Duodenum Mucosa	Duodenum
7	chr15:57276200-57289200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr15:57276200-57313400	Weak transcription	Primary T cells fromperipheralblood	blood
9	chr15:57276600-57288000	Weak transcription	Aorta	Aorta
10	chr15:57276800-57288600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr15:57277000-57313400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr15:57277600-57287600	Weak transcription	Brain Germinal Matrix	brain
13	chr15:57278600-57295400	Weak transcription	NH-A	brain
14	chr15:57279400-57300000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr15:57279600-57301800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
16	chr15:57279800-57300200	Weak transcription	Psoas Muscle	Psoas
17	chr15:57280600-57294000	Weak transcription	HSMMtube	muscle
18	chr15:57281200-57287600	Weak transcription	HUES6 Cell Line	embryonic stem cell
19	chr15:57282000-57289200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
20	chr15:57282000-57289800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
21	chr15:57282000-57295400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
22	chr15:57282000-57295400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr15:57282000-57295600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
24	chr15:57282000-57307400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr15:57282000-57315000	Weak transcription	Primary T helper cells fromperipheralblood	blood
26	chr15:57282200-57287400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
27	chr15:57282200-57287800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
28	chr15:57282200-57288000	Weak transcription	Liver	Liver
29	chr15:57282200-57288400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr15:57282200-57288400	Weak transcription	HMEC	breast
31	chr15:57282200-57288400	Weak transcription	NHDF-Ad	bronchial
32	chr15:57282200-57288400	Weak transcription	Osteobl	bone
33	chr15:57282200-57291800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
34	chr15:57282200-57295000	Weak transcription	HUES48 Cell Line	embryonic stem cell
35	chr15:57282200-57295200	Weak transcription	Hela-S3	cervix
36	chr15:57282200-57295200	Weak transcription	NHLF	lung
37	chr15:57282200-57295600	Weak transcription	Duodenum Smooth Muscle	Duodenum
38	chr15:57282200-57295800	Weak transcription	Fetal Kidney	kidney
39	chr15:57282200-57298600	Weak transcription	Ovary	ovary
40	chr15:57282200-57299400	Weak transcription	Primary T helper cells PMA-I stimulated	--
41	chr15:57282200-57308400	Weak transcription	Thymus	Thymus
42	chr15:57282200-57311000	Weak transcription	K562	blood
43	chr15:57282200-57315200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
44	chr15:57282400-57288600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
45	chr15:57282600-57287600	Weak transcription	Brain Cingulate Gyrus	brain
46	chr15:57282600-57287800	Weak transcription	Brain Inferior Temporal Lobe	brain
47	chr15:57282600-57288400	Weak transcription	Brain Anterior Caudate	brain
48	chr15:57282600-57289800	Strong transcription	Fetal Thymus	thymus
49	chr15:57282600-57293800	Weak transcription	Fetal Heart	heart
50	chr15:57282600-57306200	Weak transcription	HepG2	liver

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