Variant report

Variant	rs9505828
Chromosome Location	chr6:149993594-149993595
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs17087775	1.00[AMR][1000 genomes]
rs28692896	1.00[AMR][1000 genomes]
rs73781228	1.00[AMR][1000 genomes]
rs9478410	1.00[AMR][1000 genomes]
rs9479096	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9479409	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9479583	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9479588	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9479882	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9480114	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9485398	1.00[AMR][1000 genomes]
rs9498377	1.00[AMR][1000 genomes]
rs9498386	1.00[AMR][1000 genomes]
rs9498388	1.00[AMR][1000 genomes]
rs9498389	1.00[AMR][1000 genomes]
rs9505976	1.00[AMR][1000 genomes]
rs9505988	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9505990	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv289	chr6:149864898-149998818	Flanking Active TSS Weak transcription Strong transcription Active TSS ZNF genes & repeats Enhancers Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv5534	chr6:149864898-149998818	Active TSS Flanking Active TSS Enhancers Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
3	nsv886762	chr6:149866452-150174507	Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
4	esv1792620	chr6:149909491-150083621	Enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:149970400-149996400	Weak transcription	Fetal Brain Male	brain
2	chr6:149977200-150022600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr6:149977400-150001600	Strong transcription	Placenta	Placenta
4	chr6:149977800-150001800	Strong transcription	HUES64 Cell Line	embryonic stem cell
5	chr6:149977800-150005800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr6:149977800-150020600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr6:149978000-150029200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr6:149979400-149995800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
9	chr6:149980000-150003400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr6:149980000-150008000	Strong transcription	Monocytes-CD14+_RO01746	blood
11	chr6:149980200-149998600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
12	chr6:149980400-149995800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
13	chr6:149980400-149997200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
14	chr6:149980400-149998600	Strong transcription	Duodenum Mucosa	Duodenum
15	chr6:149980400-150001600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
16	chr6:149980600-150024800	Strong transcription	Fetal Thymus	thymus
17	chr6:149980800-149998000	Strong transcription	Primary neutrophils fromperipheralblood	blood
18	chr6:149980800-150005800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr6:149981200-149999000	Strong transcription	Primary T helper cells fromperipheralblood	blood
20	chr6:149981200-150018800	Strong transcription	Primary monocytes fromperipheralblood	blood
21	chr6:149981800-150001600	Strong transcription	HUES48 Cell Line	embryonic stem cell
22	chr6:149982200-150001600	Strong transcription	Fetal Intestine Large	intestine
23	chr6:149982400-150004400	Weak transcription	Right Atrium	heart
24	chr6:149982600-150001600	Strong transcription	Primary T cells fromperipheralblood	blood
25	chr6:149982800-149998400	Strong transcription	Adipose Nuclei	Adipose
26	chr6:149982800-149998800	Strong transcription	HUES6 Cell Line	embryonic stem cell
27	chr6:149982800-150001800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr6:149982800-150003400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr6:149983000-149998800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
30	chr6:149983000-149999200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
31	chr6:149983000-150001600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
32	chr6:149983400-150004200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
33	chr6:149983600-149999200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr6:149983800-149998000	Strong transcription	Lung	lung
35	chr6:149983800-149999400	Strong transcription	Fetal Stomach	stomach
36	chr6:149983800-150004400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
37	chr6:149983800-150005800	Strong transcription	Fetal Muscle Trunk	muscle
38	chr6:149984600-149996400	Weak transcription	Psoas Muscle	Psoas
39	chr6:149984600-149996600	Weak transcription	NHEK	skin
40	chr6:149984600-150004400	Weak transcription	A549	lung
41	chr6:149984800-149998400	Strong transcription	Cortex derived primary cultured neurospheres	brain
42	chr6:149985600-149998800	Strong transcription	Thymus	Thymus
43	chr6:149986800-149995400	Weak transcription	NHLF	lung
44	chr6:149987000-150036800	Weak transcription	Hela-S3	cervix
45	chr6:149987800-149994200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
46	chr6:149988000-149998600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
47	chr6:149988000-150002200	Strong transcription	Liver	Liver
48	chr6:149988200-149998000	Strong transcription	Fetal Brain Female	brain
49	chr6:149988200-150001400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr6:149988200-150008000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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