Variant report

Variant	rs9844477
Chromosome Location	chr3:111411034-111411035
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:111410859..111413288-chr3:111426130..111428349,2	MCF-7	breast:

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs13317514	0.96[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13318497	0.81[EUR][1000 genomes]
rs13323806	0.96[AFR][1000 genomes];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6796920	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7611571	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7628128	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7630578	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7646687	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9809793	0.85[EUR][1000 genomes]
rs9822709	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9838059	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9875538	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv460821	chr3:110637471-111501097	Enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv591275	chr3:110637471-111501097	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:111395800-111413400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr3:111400800-111411800	Weak transcription	Primary B cells from cord blood	blood
3	chr3:111401000-111412000	Weak transcription	Stomach Mucosa	stomach
4	chr3:111401200-111411600	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr3:111402600-111411600	Weak transcription	Primary B cells from peripheral blood	blood
6	chr3:111406200-111426800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
7	chr3:111407600-111411600	Weak transcription	Duodenum Mucosa	Duodenum
8	chr3:111407600-111411600	Weak transcription	Fetal Intestine Small	intestine
9	chr3:111407600-111412800	Weak transcription	Small Intestine	intestine
10	chr3:111408200-111411600	Weak transcription	Fetal Intestine Large	intestine
11	chr3:111409400-111412400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr3:111409400-111412600	Weak transcription	Primary T cells fromperipheralblood	blood
13	chr3:111409400-111413400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr3:111409400-111414000	Weak transcription	Primary T helper cells PMA-I stimulated	--
15	chr3:111409400-111415600	Enhancers	Hela-S3	cervix
16	chr3:111409600-111412600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
17	chr3:111409600-111412600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr3:111409600-111413400	Weak transcription	Fetal Thymus	thymus
19	chr3:111409600-111415000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr3:111410000-111413000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
21	chr3:111410000-111413000	Weak transcription	NHDF-Ad	bronchial
22	chr3:111410200-111411600	Weak transcription	GM12878-XiMat	blood
23	chr3:111410200-111412200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr3:111410200-111412400	Weak transcription	HSMMtube	muscle
25	chr3:111410200-111413000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr3:111410200-111413600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr3:111410200-111414200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr3:111410200-111417200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
29	chr3:111410200-111426800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
30	chr3:111410200-111428400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
31	chr3:111410200-111433200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
32	chr3:111410400-111411600	Weak transcription	Primary T cells from cord blood	blood
33	chr3:111410400-111411800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr3:111410400-111412600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr3:111410400-111413000	Weak transcription	NHEK	skin
36	chr3:111410400-111413200	Weak transcription	HMEC	breast
37	chr3:111410400-111413200	Weak transcription	Osteobl	bone
38	chr3:111410400-111413400	Weak transcription	HSMM	muscle
39	chr3:111410400-111413400	Weak transcription	NH-A	brain
40	chr3:111410400-111414200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
41	chr3:111410600-111413000	Weak transcription	Muscle Satellite Cultured Cells	--
42	chr3:111410600-111443400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
43	chr3:111410800-111411600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
44	chr3:111410800-111418200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
45	chr3:111410800-111419000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
46	chr3:111411000-111411400	Weak transcription	A549	lung

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