Variant report

Variant	rs73009121
Chromosome Location	chr3:155569897-155569898
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:155521670..155525457-chr3:155569550..155572694,3	MCF-7	breast:
2	chr3:155568718..155574348-chr3:155586235..155593210,15	K562	blood:
3	chr3:155569630..155574596-chr3:155585012..155589734,13	MCF-7	breast:
4	chr3:155522731..155527439-chr3:155568712..155573851,7	MCF-7	breast:
5	chr3:155531751..155534716-chr3:155568140..155570659,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000174928	Chromatin interaction
ENSG00000163655	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs11914419	1.00[AMR][1000 genomes]
rs11922468	1.00[AMR][1000 genomes]
rs11922696	1.00[AMR][1000 genomes]
rs11924623	1.00[AMR][1000 genomes]
rs11924959	1.00[AMR][1000 genomes]
rs11928132	1.00[AMR][1000 genomes]
rs16825644	1.00[AMR][1000 genomes]
rs58069104	1.00[AMR][1000 genomes]
rs58421205	1.00[AMR][1000 genomes]
rs58793189	1.00[AMR][1000 genomes]
rs59555928	1.00[AMR][1000 genomes]
rs59649523	1.00[AMR][1000 genomes]
rs59743478	1.00[AMR][1000 genomes]
rs60579449	1.00[AMR][1000 genomes]
rs6775538	1.00[AMR][1000 genomes]
rs6806201	1.00[AMR][1000 genomes]
rs73003533	1.00[AMR][1000 genomes]
rs73003544	1.00[AMR][1000 genomes]
rs73003546	1.00[AMR][1000 genomes]
rs73005098	1.00[AMR][1000 genomes]
rs73005138	1.00[AMR][1000 genomes]
rs73007013	1.00[AMR][1000 genomes]
rs73007026	1.00[AMR][1000 genomes]
rs73007035	1.00[AMR][1000 genomes]
rs73011111	1.00[AMR][1000 genomes]
rs73011129	1.00[AMR][1000 genomes]
rs73011200	1.00[AMR][1000 genomes]
rs73012911	1.00[AMR][1000 genomes]
rs73012929	1.00[AMR][1000 genomes]
rs73012940	1.00[AMR][1000 genomes]
rs73012954	1.00[AMR][1000 genomes]
rs73014850	1.00[AMR][1000 genomes]
rs73018956	1.00[AMR][1000 genomes]
rs73018983	1.00[AMR][1000 genomes]
rs73018986	1.00[AMR][1000 genomes]
rs73018995	1.00[AMR][1000 genomes]
rs73021536	1.00[AMR][1000 genomes]
rs73021549	1.00[AMR][1000 genomes]
rs7641442	1.00[AMR][1000 genomes]
rs7645121	1.00[AMR][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	nsv877680	chr3:155438022-155723064	Active TSS Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	esv2753744	chr3:155487298-155707298	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
3	nsv877681	chr3:155535670-155654017	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:155543000-155570200	Weak transcription	Esophagus	oesophagus
2	chr3:155562200-155570400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr3:155563000-155570400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
4	chr3:155566000-155570200	Enhancers	Small Intestine	intestine
5	chr3:155566400-155570200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr3:155567400-155570200	Enhancers	Primary monocytes fromperipheralblood	blood
7	chr3:155567400-155570200	Enhancers	Sigmoid Colon	Sigmoid Colon
8	chr3:155568000-155570000	Active TSS	Pancreatic Islets	Pancreatic Islet
9	chr3:155568000-155570200	Enhancers	Primary hematopoietic stem cells	blood
10	chr3:155568200-155573200	Active TSS	Pancreas	Pancrea
11	chr3:155568400-155570200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
12	chr3:155568400-155571000	Enhancers	Primary B cells from peripheral blood	blood
13	chr3:155568600-155573200	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr3:155569000-155570000	Transcr. at gene 5' and 3'	Primary hematopoietic stem cells short term culture	blood
15	chr3:155569000-155570200	Enhancers	Fetal Muscle Trunk	muscle
16	chr3:155569000-155570800	Flanking Active TSS	Fetal Brain Female	brain
17	chr3:155569000-155571000	Enhancers	Primary neutrophils fromperipheralblood	blood
18	chr3:155569000-155571000	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr3:155569000-155571200	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr3:155569000-155571800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr3:155569200-155570000	Enhancers	Fetal Stomach	stomach
22	chr3:155569200-155570200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr3:155569200-155570200	Enhancers	Placenta	Placenta
24	chr3:155569200-155570400	Active TSS	Breast Myoepithelial Primary Cells	Breast
25	chr3:155569400-155570000	Transcr. at gene 5' and 3'	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr3:155569400-155570000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr3:155569400-155570000	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr3:155569400-155570000	Flanking Active TSS	HepG2	liver
29	chr3:155569400-155570200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
30	chr3:155569400-155570200	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
31	chr3:155569400-155570200	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr3:155569400-155570200	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr3:155569400-155570400	Enhancers	Brain Substantia Nigra	brain
34	chr3:155569400-155570400	Flanking Active TSS	Ovary	ovary
35	chr3:155569400-155570600	Flanking Active TSS	HMEC	breast
36	chr3:155569400-155570800	Flanking Active TSS	Muscle Satellite Cultured Cells	--
37	chr3:155569400-155570800	Flanking Active TSS	Psoas Muscle	Psoas
38	chr3:155569400-155570800	Flanking Active TSS	HUVEC	blood vessel
39	chr3:155569400-155571000	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
40	chr3:155569400-155571000	Flanking Active TSS	Brain Germinal Matrix	brain
41	chr3:155569400-155571000	Flanking Active TSS	Hela-S3	cervix
42	chr3:155569400-155571200	Flanking Active TSS	Liver	Liver
43	chr3:155569400-155571400	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
44	chr3:155569400-155571400	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
45	chr3:155569400-155571400	Flanking Active TSS	Duodenum Mucosa	Duodenum
46	chr3:155569400-155571400	Flanking Active TSS	Duodenum Smooth Muscle	Duodenum
47	chr3:155569400-155571400	Flanking Active TSS	Stomach Smooth Muscle	stomach
48	chr3:155569400-155571600	Flanking Active TSS	Primary T cells from cord blood	blood
49	chr3:155569400-155571600	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
50	chr3:155569400-155571600	Flanking Active TSS	Rectal Mucosa Donor 31	rectum

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