Variant report

Variant	rs72939605
Chromosome Location	chr3:101551077-101551078
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	chr3:101543921..101548093-chr3:101548561..101552657,6	MCF-7	breast:
2	chr3:101543661..101554550-chr3:101566310..101574179,30	MCF-7	breast:

Variant related genes	Relation type
ENSG00000144802	Chromatin interaction

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs16844264	1.00[AMR][1000 genomes]
rs56871732	1.00[AMR][1000 genomes]
rs57768297	1.00[AMR][1000 genomes]
rs59212280	1.00[AMR][1000 genomes]
rs59610252	1.00[AMR][1000 genomes]
rs59761426	1.00[AMR][1000 genomes]
rs60491518	1.00[AMR][1000 genomes]
rs61302621	1.00[AMR][1000 genomes]
rs61468230	1.00[AMR][1000 genomes]
rs72931711	1.00[AMR][1000 genomes]
rs72931715	1.00[AMR][1000 genomes]
rs72931719	1.00[AMR][1000 genomes]
rs72931774	1.00[AMR][1000 genomes]
rs72931789	1.00[AMR][1000 genomes]
rs72933808	1.00[AMR][1000 genomes]
rs72933810	1.00[AMR][1000 genomes]
rs72933821	1.00[AMR][1000 genomes]
rs72933838	1.00[AMR][1000 genomes]
rs72935816	1.00[AMR][1000 genomes]
rs72935835	1.00[AMR][1000 genomes]
rs72935839	1.00[AMR][1000 genomes]
rs72935846	1.00[AMR][1000 genomes]
rs72935852	1.00[AMR][1000 genomes]
rs72935865	1.00[AMR][1000 genomes]
rs72935871	1.00[AMR][1000 genomes]
rs72935875	1.00[AMR][1000 genomes]
rs72935894	1.00[AMR][1000 genomes]
rs72937635	1.00[AMR][1000 genomes]
rs72937638	1.00[AMR][1000 genomes]
rs72937639	1.00[AMR][1000 genomes]
rs72937642	1.00[AMR][1000 genomes]
rs72937646	1.00[AMR][1000 genomes]
rs72937653	1.00[AMR][1000 genomes]
rs72937664	1.00[AMR][1000 genomes]
rs72937667	1.00[AMR][1000 genomes]
rs72937684	1.00[AMR][1000 genomes]
rs72937701	1.00[AMR][1000 genomes]
rs72937810	1.00[AMR][1000 genomes]
rs72937817	1.00[AMR][1000 genomes]
rs72939606	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72947370	1.00[AMR][1000 genomes]
rs72947385	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	nsv497784	chr3:101315009-102092989	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
2	nsv997407	chr3:101384031-101611391	Strong transcription Enhancers Active TSS Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
3	nsv536675	chr3:101384031-101611391	Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
4	esv3351469	chr3:101511702-101866448	Weak transcription Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:101546800-101553000	Weak transcription	Spleen	Spleen
2	chr3:101547000-101552400	Weak transcription	Fetal Brain Female	brain
3	chr3:101547000-101561000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr3:101548200-101551800	Weak transcription	Psoas Muscle	Psoas
5	chr3:101548200-101552000	Weak transcription	Pancreas	Pancrea
6	chr3:101548200-101552400	Weak transcription	Right Atrium	heart
7	chr3:101548200-101552400	Weak transcription	K562	blood
8	chr3:101548200-101552600	Weak transcription	Colonic Mucosa	Colon
9	chr3:101548200-101560800	Weak transcription	HUES6 Cell Line	embryonic stem cell
10	chr3:101548200-101560800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr3:101548200-101565600	Weak transcription	Lung	lung
12	chr3:101548400-101552400	Weak transcription	Right Ventricle	heart
13	chr3:101548400-101552800	Weak transcription	Gastric	stomach
14	chr3:101548400-101553000	Weak transcription	Esophagus	oesophagus
15	chr3:101548400-101555000	Weak transcription	Skeletal Muscle Female	skeletal muscle
16	chr3:101548400-101556600	Weak transcription	Fetal Stomach	stomach
17	chr3:101548400-101560800	Weak transcription	H9 Cell Line	embryonic stem cell
18	chr3:101548400-101560800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr3:101548400-101562000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
20	chr3:101548600-101552000	Weak transcription	Rectal Mucosa Donor 29	rectum
21	chr3:101548600-101552400	Weak transcription	Duodenum Mucosa	Duodenum
22	chr3:101548600-101552400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
23	chr3:101548600-101552400	Weak transcription	Left Ventricle	heart
24	chr3:101548600-101552400	Weak transcription	Rectal Mucosa Donor 31	rectum
25	chr3:101548600-101552400	Weak transcription	Stomach Mucosa	stomach
26	chr3:101548600-101552600	Weak transcription	Fetal Thymus	thymus
27	chr3:101548600-101554200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr3:101548600-101554200	Weak transcription	Aorta	Aorta
29	chr3:101548600-101555200	Weak transcription	Brain Inferior Temporal Lobe	brain
30	chr3:101548600-101555600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr3:101548600-101555800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr3:101548600-101555800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
33	chr3:101548600-101555800	Weak transcription	Osteobl	bone
34	chr3:101548600-101556200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
35	chr3:101548600-101559000	Weak transcription	HSMM	muscle
36	chr3:101548600-101560800	Weak transcription	HSMMtube	muscle
37	chr3:101548600-101561000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr3:101548600-101567000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
39	chr3:101548800-101552400	Weak transcription	Primary hematopoietic stem cells	blood
40	chr3:101548800-101552600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
41	chr3:101548800-101553800	Weak transcription	Cortex derived primary cultured neurospheres	brain
42	chr3:101548800-101555800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr3:101548800-101555800	Weak transcription	Brain Angular Gyrus	brain
44	chr3:101548800-101555800	Weak transcription	Fetal Intestine Small	intestine
45	chr3:101549000-101552000	Weak transcription	Liver	Liver
46	chr3:101549000-101552200	Weak transcription	Primary T helper cells fromperipheralblood	blood
47	chr3:101549000-101552200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
48	chr3:101549000-101552200	Weak transcription	Brain Hippocampus Middle	brain
49	chr3:101549000-101552600	Weak transcription	Primary neutrophils fromperipheralblood	blood
50	chr3:101549000-101553000	Weak transcription	Primary T cells fromperipheralblood	blood

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