Variant report

Variant	rs73854771
Chromosome Location	chr3:119778714-119778715
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:119774518..119780956-chr3:119811182..119816004,10	MCF-7	breast:
2	chr3:119776030..119778321-chr3:119778657..119781863,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000082701	Chromatin interaction
ENSG00000242622	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs55739402	0.83[AFR][1000 genomes]
rs55849075	1.00[AFR][1000 genomes]
rs56181436	1.00[AFR][1000 genomes]
rs56897578	1.00[AFR][1000 genomes]
rs57028282	0.92[AFR][1000 genomes]
rs59890455	0.83[AFR][1000 genomes]
rs61091679	0.92[AFR][1000 genomes]
rs73854727	0.85[AFR][1000 genomes]
rs73854732	0.83[AFR][1000 genomes]
rs73854734	0.92[AFR][1000 genomes]
rs73854742	0.92[AFR][1000 genomes]
rs73854743	0.92[AFR][1000 genomes]
rs73854748	0.92[AFR][1000 genomes]
rs73854754	1.00[AFR][1000 genomes]
rs73854756	0.92[AFR][1000 genomes]
rs73854758	0.92[AFR][1000 genomes]
rs73854759	1.00[AFR][1000 genomes]
rs73854760	1.00[AFR][1000 genomes]
rs73854763	0.88[AFR][1000 genomes]
rs73854768	1.00[AFR][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	nsv949589	chr3:119560606-120175917	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
2	nsv1001476	chr3:119575386-120075417	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	74 gene(s)	inside rSNPs	diseases
3	nsv536704	chr3:119575386-120075417	Enhancers Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	74 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:77 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:119759400-119786200	Weak transcription	Hela-S3	cervix
2	chr3:119760200-119779400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr3:119760200-119805400	Weak transcription	HMEC	breast
4	chr3:119764600-119812000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr3:119768800-119792800	Weak transcription	Fetal Stomach	stomach
6	chr3:119769200-119780600	Weak transcription	Aorta	Aorta
7	chr3:119769200-119804400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr3:119769800-119784800	Weak transcription	Dnd41	blood
9	chr3:119771400-119779200	Weak transcription	Right Atrium	heart
10	chr3:119771400-119809400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr3:119771600-119778800	Weak transcription	Fetal Heart	heart
12	chr3:119771800-119778800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr3:119771800-119781800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
14	chr3:119771800-119783600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
15	chr3:119771800-119805400	Weak transcription	NHEK	skin
16	chr3:119772000-119779200	Weak transcription	Ovary	ovary
17	chr3:119772400-119778800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
18	chr3:119773200-119807600	Weak transcription	Right Ventricle	heart
19	chr3:119773800-119787800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
20	chr3:119774000-119789600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
21	chr3:119775400-119782600	Weak transcription	Esophagus	oesophagus
22	chr3:119775800-119779200	Weak transcription	Left Ventricle	heart
23	chr3:119775800-119784200	Weak transcription	Fetal Intestine Small	intestine
24	chr3:119775800-119790400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr3:119775800-119796000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr3:119775800-119797600	Weak transcription	Fetal Thymus	thymus
27	chr3:119776000-119779000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
28	chr3:119776400-119779400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
29	chr3:119776600-119779200	Enhancers	Primary B cells from peripheral blood	blood
30	chr3:119777200-119779600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
31	chr3:119777200-119780000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
32	chr3:119777400-119779200	Weak transcription	Small Intestine	intestine
33	chr3:119777400-119779400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
34	chr3:119777400-119780000	Enhancers	Primary T helper cells PMA-I stimulated	--
35	chr3:119777600-119778800	Enhancers	Primary B cells from cord blood	blood
36	chr3:119777800-119778800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
37	chr3:119777800-119779000	Enhancers	Brain Angular Gyrus	brain
38	chr3:119777800-119779600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr3:119777800-119779600	Enhancers	Brain Cingulate Gyrus	brain
40	chr3:119777800-119779800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr3:119777800-119779800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
42	chr3:119778000-119779000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr3:119778000-119779000	Flanking Active TSS	GM12878-XiMat	blood
44	chr3:119778000-119779200	Enhancers	Adipose Nuclei	Adipose
45	chr3:119778000-119779200	Weak transcription	Lung	lung
46	chr3:119778000-119779400	Enhancers	Brain Anterior Caudate	brain
47	chr3:119778000-119779400	Enhancers	Brain Inferior Temporal Lobe	brain
48	chr3:119778000-119779400	Enhancers	Skeletal Muscle Female	skeletal muscle
49	chr3:119778000-119779600	Enhancers	Cortex derived primary cultured neurospheres	brain
50	chr3:119778000-119780000	Enhancers	Primary T cells from cord blood	blood

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