Variant report

Variant	rs11713900
Chromosome Location	chr3:52534494-52534495
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:52534377..52535970-chr3:52568004..52570644,2	MCF-7	breast:
2	chr3:52533602..52535273-chr3:52654408..52656479,2	K562	blood:
3	chr3:52532708..52535027-chr3:52560293..52563018,2	K562	blood:
4	chr3:52534136..52536462-chr3:52536613..52538164,2	MCF-7	breast:
5	chr3:52508928..52511516-chr3:52533684..52535443,2	MCF-7	breast:
6	chr3:52532062..52534916-chr3:52535199..52537993,2	K562	blood:

Variant related genes	Relation type
ENSG00000168273	Chromatin interaction
ENSG00000168268	Chromatin interaction
ENSG00000010322	Chromatin interaction

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:1)

rs_ID	r²[population]
rs34058757	1.00[MEX][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv876789	chr3:52247110-52575831	Flanking Active TSS Bivalent Enhancer Strong transcription Weak transcription Enhancers Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	117 gene(s)	inside rSNPs	diseases
2	nsv834697	chr3:52400578-52579417	Weak transcription Active TSS Genic enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
3	nsv876792	chr3:52430526-52575831	Flanking Active TSS Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
4	nsv876793	chr3:52450043-52584787	Flanking Active TSS Strong transcription Active TSS Genic enhancers Weak transcription Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
5	esv1818902	chr3:52481406-52572056	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
6	nsv984563	chr3:52516115-52867075	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:52513400-52541400	Weak transcription	A549	lung
2	chr3:52527000-52538000	Weak transcription	H1 Cell Line	embryonic stem cell
3	chr3:52527000-52540200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr3:52528000-52534800	Enhancers	Primary hematopoietic stem cells	blood
5	chr3:52529200-52537400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr3:52530000-52537600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
7	chr3:52530000-52538800	Weak transcription	Gastric	stomach
8	chr3:52530200-52537600	Weak transcription	Pancreas	Pancrea
9	chr3:52530200-52551800	Weak transcription	Esophagus	oesophagus
10	chr3:52530400-52552400	Weak transcription	Brain Substantia Nigra	brain
11	chr3:52530600-52535400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr3:52530600-52558000	Weak transcription	Colon Smooth Muscle	Colon
13	chr3:52530800-52537600	Weak transcription	Duodenum Smooth Muscle	Duodenum
14	chr3:52530800-52548200	Weak transcription	Right Ventricle	heart
15	chr3:52530800-52551600	Weak transcription	Fetal Intestine Small	intestine
16	chr3:52531000-52535600	Weak transcription	Lung	lung
17	chr3:52531000-52547600	Weak transcription	Duodenum Mucosa	Duodenum
18	chr3:52532400-52536800	Genic enhancers	Spleen	Spleen
19	chr3:52532600-52534600	Genic enhancers	Fetal Adrenal Gland	Adrenal Gland
20	chr3:52533000-52535200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr3:52533200-52535000	Enhancers	Primary monocytes fromperipheralblood	blood
22	chr3:52533400-52535400	Enhancers	Adipose Nuclei	Adipose
23	chr3:52533400-52535600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr3:52533400-52540800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr3:52533400-52549200	Weak transcription	Fetal Muscle Leg	muscle
26	chr3:52533400-52549200	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr3:52533400-52558200	Weak transcription	Skeletal Muscle Female	skeletal muscle
28	chr3:52533400-52559800	Weak transcription	Liver	Liver
29	chr3:52533600-52534600	Weak transcription	Placenta	Placenta
30	chr3:52533600-52534600	Weak transcription	Sigmoid Colon	Sigmoid Colon
31	chr3:52533600-52535400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr3:52533600-52537800	Weak transcription	Colonic Mucosa	Colon
33	chr3:52533600-52566000	Weak transcription	Rectal Mucosa Donor 29	rectum
34	chr3:52534200-52534600	Transcr. at gene 5' and 3'	Primary hematopoietic stem cells short term culture	blood
35	chr3:52534200-52534600	Enhancers	HUVEC	blood vessel
36	chr3:52534200-52535000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
37	chr3:52534400-52534600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood

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