Variant report

Variant	rs28668026
Chromosome Location	chr15:40455151-40455152
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:40448813..40450482-chr15:40453817..40455568,2	K562	blood:
2	chr15:40330665..40333715-chr15:40453352..40456401,3	K562	blood:
3	chr15:40453925..40456102-chr15:40486988..40489014,2	MCF-7	breast:
4	chr15:40371657..40374195-chr15:40453312..40456256,2	K562	blood:
5	chr15:40452220..40455176-chr15:40475826..40477725,2	K562	blood:
6	chr15:40330254..40332910-chr15:40454901..40456422,2	K562	blood:

Variant related genes	Relation type
ENSG00000248508	Chromatin interaction
ENSG00000156970	Chromatin interaction
ENSG00000140319	Chromatin interaction

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs11070254	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11070255	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12102172	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12385956	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13380113	1.00[EUR][1000 genomes]
rs13380241	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1494534	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1801528	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1869906	1.00[EUR][1000 genomes]
rs28390245	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28417868	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28418337	0.87[AMR][1000 genomes]
rs28485685	0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28501335	1.00[EUR][1000 genomes]
rs28526743	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28561898	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28565228	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28606396	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28637656	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28637697	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28657938	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28673302	0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28744626	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28750294	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28792493	1.00[EUR][1000 genomes]
rs28844897	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28869227	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35611758	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56888636	1.00[EUR][1000 genomes]
rs57029027	1.00[EUR][1000 genomes]
rs58216655	1.00[EUR][1000 genomes]
rs58355728	0.87[AMR][1000 genomes]
rs58584688	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60743501	0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60889301	1.00[EUR][1000 genomes]
rs7164281	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7168394	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7168416	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7173239	1.00[EUR][1000 genomes]
rs7178873	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73377835	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73389487	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73389489	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73389492	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73389507	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73389520	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73389531	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73389536	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73389540	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73390146	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73390155	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73390162	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73390167	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73390168	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73390187	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73391309	0.87[AMR][1000 genomes]
rs73391316	0.87[AMR][1000 genomes]
rs73392641	1.00[EUR][1000 genomes]
rs8023956	1.00[EUR][1000 genomes]
rs8026988	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8364	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9672591	1.00[EUR][1000 genomes]
rs967945	0.87[AMR][1000 genomes]
rs9806126	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9806144	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530816	chr15:40003136-40586792	Bivalent Enhancer Strong transcription Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:83 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:40452600-40455800	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr15:40452800-40455200	Active TSS	H9 Cell Line	embryonic stem cell
3	chr15:40452800-40455400	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr15:40452800-40455400	Active TSS	Fetal Brain Female	brain
5	chr15:40452800-40455400	Active TSS	HSMM	muscle
6	chr15:40453000-40455200	Active TSS	ES-I3 Cell Line	embryonic stem cell
7	chr15:40453000-40455200	Active TSS	iPS-20b Cell Line	embryonic stem cell
8	chr15:40453000-40456400	Active TSS	GM12878-XiMat	blood
9	chr15:40453200-40455200	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
10	chr15:40453200-40455400	Active TSS	HUES48 Cell Line	embryonic stem cell
11	chr15:40453200-40455400	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr15:40453400-40455600	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr15:40453400-40456600	Transcr. at gene 5' and 3'	Dnd41	blood
14	chr15:40453600-40455400	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr15:40453800-40455400	Enhancers	Primary monocytes fromperipheralblood	blood
16	chr15:40453800-40455800	Flanking Active TSS	HUVEC	blood vessel
17	chr15:40453800-40460200	Weak transcription	Right Atrium	heart
18	chr15:40453800-40474600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr15:40453800-40525000	Weak transcription	Sigmoid Colon	Sigmoid Colon
20	chr15:40454000-40455400	Enhancers	Primary neutrophils fromperipheralblood	blood
21	chr15:40454000-40455400	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
22	chr15:40454000-40455400	Flanking Active TSS	NHEK	skin
23	chr15:40454000-40459600	Weak transcription	Primary B cells from peripheral blood	blood
24	chr15:40454000-40460600	Weak transcription	Placenta	Placenta
25	chr15:40454000-40471000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
26	chr15:40454000-40474600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
27	chr15:40454000-40515200	Weak transcription	Placenta Amnion	Placenta Amnion
28	chr15:40454200-40455200	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
29	chr15:40454200-40455200	Flanking Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr15:40454200-40455200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
31	chr15:40454200-40455200	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr15:40454200-40455400	Enhancers	Fetal Lung	lung
33	chr15:40454200-40455400	Flanking Active TSS	NHDF-Ad	bronchial
34	chr15:40454200-40455800	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
35	chr15:40454200-40471400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
36	chr15:40454400-40455200	Enhancers	Primary hematopoietic stem cells	blood
37	chr15:40454400-40455200	Flanking Active TSS	Muscle Satellite Cultured Cells	--
38	chr15:40454400-40455200	Enhancers	Monocytes-CD14+_RO01746	blood
39	chr15:40454400-40455400	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
40	chr15:40454400-40455400	Flanking Active TSS	Thymus	Thymus
41	chr15:40454400-40455600	Flanking Active TSS	Hela-S3	cervix
42	chr15:40454400-40455800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
43	chr15:40454400-40455800	Flanking Active TSS	HepG2	liver
44	chr15:40454600-40455400	Flanking Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
45	chr15:40454600-40455400	Transcr. at gene 5' and 3'	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
46	chr15:40454600-40455400	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
47	chr15:40454600-40455400	Enhancers	Fetal Stomach	stomach
48	chr15:40454600-40455400	Flanking Active TSS	HMEC	breast
49	chr15:40454600-40455400	Active TSS	NHLF	lung
50	chr15:40454600-40456200	Transcr. at gene 5' and 3'	HUES64 Cell Line	embryonic stem cell

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