Variant report

Variant	rs3824089
Chromosome Location	chr8:102586966-102586967
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr8:102584672..102587092-chr8:102594880..102596520,2	MCF-7	breast:
2	chr8:102585772..102587387-chr8:102587401..102588904,2	MCF-7	breast:
3	chr8:102576536..102580094-chr8:102585816..102588883,4	MCF-7	breast:
4	chr8:102586663..102588864-chr8:102589452..102591832,2	MCF-7	breast:
5	chr8:102502163..102508014-chr8:102585350..102588773,6	MCF-7	breast:

Variant related genes	Relation type
ENSG00000083307	Chromatin interaction
ENSG00000254024	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs16867827	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2032118	0.86[JPT][hapmap]
rs58824748	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73279201	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs73281005	0.92[AFR][1000 genomes];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1024652	chr8:101802121-102587124	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	186 gene(s)	inside rSNPs	diseases
2	nsv539699	chr8:101802121-102587124	Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	186 gene(s)	inside rSNPs	diseases
3	nsv891230	chr8:102569309-102604306	Weak transcription Strong transcription Genic enhancers Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:102552200-102620600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr8:102571000-102589600	Weak transcription	Gastric	stomach
3	chr8:102576000-102589600	Weak transcription	HMEC	breast
4	chr8:102582200-102592400	Strong transcription	HUES48 Cell Line	embryonic stem cell
5	chr8:102583400-102588200	Weak transcription	Ovary	ovary
6	chr8:102583800-102596800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr8:102585000-102588800	Enhancers	Fetal Intestine Large	intestine
8	chr8:102585200-102587200	Enhancers	Small Intestine	intestine
9	chr8:102585200-102588000	Enhancers	Fetal Intestine Small	intestine
10	chr8:102585200-102590400	Strong transcription	HUES64 Cell Line	embryonic stem cell
11	chr8:102585600-102587000	Strong transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr8:102585600-102587200	Strong transcription	H1 Cell Line	embryonic stem cell
13	chr8:102585600-102587200	Enhancers	Fetal Lung	lung
14	chr8:102585600-102587400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
15	chr8:102585600-102587400	Enhancers	Fetal Muscle Leg	muscle
16	chr8:102585600-102587400	Enhancers	Pancreas	Pancrea
17	chr8:102585600-102589000	Enhancers	A549	lung
18	chr8:102585600-102595800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
19	chr8:102585800-102587000	Strong transcription	HUES6 Cell Line	embryonic stem cell
20	chr8:102585800-102587000	Enhancers	Fetal Stomach	stomach
21	chr8:102585800-102587000	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
22	chr8:102585800-102587000	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
23	chr8:102585800-102587400	Strong transcription	H9 Cell Line	embryonic stem cell
24	chr8:102585800-102587400	Enhancers	Colon Smooth Muscle	Colon
25	chr8:102585800-102587600	Enhancers	Fetal Brain Male	brain
26	chr8:102585800-102589000	Enhancers	Fetal Heart	heart
27	chr8:102585800-102589000	Enhancers	Stomach Mucosa	stomach
28	chr8:102585800-102589000	Genic enhancers	NHEK	skin
29	chr8:102585800-102592200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
30	chr8:102586000-102587000	Enhancers	Liver	Liver
31	chr8:102586000-102587200	Enhancers	Cortex derived primary cultured neurospheres	brain
32	chr8:102586000-102587200	Enhancers	Fetal Kidney	kidney
33	chr8:102586000-102587600	Enhancers	Sigmoid Colon	Sigmoid Colon
34	chr8:102586000-102589000	Enhancers	Fetal Brain Female	brain
35	chr8:102586200-102587000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr8:102586200-102587000	Enhancers	Brain Cingulate Gyrus	brain
37	chr8:102586200-102587000	Enhancers	Brain Hippocampus Middle	brain
38	chr8:102586200-102587000	Genic enhancers	Placenta Amnion	Placenta Amnion
39	chr8:102586200-102587000	Enhancers	Right Ventricle	heart
40	chr8:102586200-102587200	Enhancers	Adipose Nuclei	Adipose
41	chr8:102586200-102587200	Enhancers	Brain Substantia Nigra	brain
42	chr8:102586200-102587200	Flanking Active TSS	Hela-S3	cervix
43	chr8:102586200-102588400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
44	chr8:102586200-102588800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
45	chr8:102586400-102587000	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
46	chr8:102586400-102587000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
47	chr8:102586400-102587000	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
48	chr8:102586400-102587000	Enhancers	Brain Angular Gyrus	brain
49	chr8:102586400-102587000	Enhancers	Fetal Muscle Trunk	muscle
50	chr8:102586400-102587000	Genic enhancers	Placenta	Placenta

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