Variant report

Variant	rs13090504
Chromosome Location	chr3:134036303-134036304
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:134024378..134037377-chr3:134063304..134080412,83	MCF-7	breast:
2	chr3:134024307..134037207-chr3:134080573..134100993,88	MCF-7	breast:
3	chr3:134034717..134037202-chr3:134054056..134056170,2	MCF-7	breast:
4	chr3:134036155..134038646-chr3:134200458..134202450,2	K562	blood:

Variant related genes	Relation type
ENSG00000114019	Chromatin interaction
ENSG00000260633	Chromatin interaction
ENSG00000129055	Chromatin interaction
ENSG00000214289	Chromatin interaction

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs11707704	1.00[ASN][1000 genomes]
rs11917363	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11919447	1.00[ASN][1000 genomes]
rs11923513	1.00[ASN][1000 genomes]
rs11928672	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11928907	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13069766	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13071132	1.00[ASN][1000 genomes]
rs13084853	1.00[ASN][1000 genomes]
rs13085145	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13097926	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1498730	1.00[ASN][1000 genomes]
rs17312996	1.00[ASN][1000 genomes]
rs17313003	1.00[ASN][1000 genomes]
rs34006849	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34524468	1.00[ASN][1000 genomes]
rs34549392	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35098409	1.00[ASN][1000 genomes]
rs35471660	1.00[ASN][1000 genomes]
rs35527623	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35558600	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35878592	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3846052	1.00[ASN][1000 genomes]
rs3913262	1.00[ASN][1000 genomes]
rs4234421	0.85[EUR][1000 genomes]
rs4339087	1.00[ASN][1000 genomes]
rs5002434	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs5002435	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs5002436	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs5002437	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55682444	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56019901	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59458665	1.00[ASN][1000 genomes]
rs61145443	1.00[ASN][1000 genomes]
rs62271221	1.00[ASN][1000 genomes]
rs6439474	1.00[ASN][1000 genomes]
rs6439476	1.00[ASN][1000 genomes]
rs6768709	1.00[ASN][1000 genomes]
rs6772791	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6776727	1.00[ASN][1000 genomes]
rs6804439	1.00[ASN][1000 genomes]
rs6809909	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71331753	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71331755	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72986454	1.00[ASN][1000 genomes]
rs73215399	1.00[ASN][1000 genomes]
rs7609766	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7613323	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7613440	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7613450	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7614069	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7636249	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7637889	0.85[EUR][1000 genomes]
rs7638751	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7642519	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7647682	0.81[EUR][1000 genomes]
rs7647778	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7651578	1.00[ASN][1000 genomes]
rs9826364	0.84[EUR][1000 genomes]
rs9827007	0.82[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	esv3522171	chr3:133889405-134156571	Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
2	esv3522172	chr3:133889405-134156571	Weak transcription Flanking Active TSS Strong transcription Enhancers Bivalent/Poised TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	32 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:134030000-134037200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:134033000-134037200	Enhancers	HSMM	muscle
3	chr3:134033200-134037400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr3:134033400-134037200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr3:134033400-134037200	Enhancers	Muscle Satellite Cultured Cells	--
6	chr3:134033400-134037200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr3:134033400-134037600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr3:134033400-134037600	Enhancers	NHEK	skin
9	chr3:134033600-134036800	Enhancers	NHLF	lung
10	chr3:134033600-134037200	Enhancers	NHDF-Ad	bronchial
11	chr3:134034000-134037000	Enhancers	Adipose Nuclei	Adipose
12	chr3:134034000-134039400	Weak transcription	Gastric	stomach
13	chr3:134034200-134037200	Enhancers	A549	lung
14	chr3:134034200-134037600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr3:134034600-134046200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr3:134034800-134036400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr3:134034800-134036800	Enhancers	HUVEC	blood vessel
18	chr3:134034800-134037000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr3:134034800-134037200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr3:134034800-134037600	Enhancers	Osteobl	bone
21	chr3:134034800-134041600	Weak transcription	Pancreas	Pancrea
22	chr3:134034800-134043200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
23	chr3:134034800-134044200	Weak transcription	Right Ventricle	heart
24	chr3:134035000-134037000	Enhancers	NH-A	brain
25	chr3:134035000-134039400	Weak transcription	HUES64 Cell Line	embryonic stem cell
26	chr3:134035000-134041200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
27	chr3:134035000-134044000	Weak transcription	Fetal Heart	heart
28	chr3:134035000-134044200	Weak transcription	HUES6 Cell Line	embryonic stem cell
29	chr3:134035000-134045000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
30	chr3:134035000-134058800	Weak transcription	Liver	Liver
31	chr3:134035200-134039400	Weak transcription	Stomach Mucosa	stomach
32	chr3:134035800-134037200	Enhancers	Placenta	Placenta
33	chr3:134035800-134037200	Enhancers	HSMMtube	muscle
34	chr3:134035800-134037400	Enhancers	HMEC	breast
35	chr3:134036000-134036600	Enhancers	Esophagus	oesophagus
36	chr3:134036000-134036600	Enhancers	Fetal Muscle Trunk	muscle
37	chr3:134036000-134036600	Enhancers	Lung	lung
38	chr3:134036000-134036600	Enhancers	Placenta Amnion	Placenta Amnion
39	chr3:134036000-134036600	Enhancers	Right Atrium	heart
40	chr3:134036000-134036800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
41	chr3:134036000-134036800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
42	chr3:134036000-134036800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr3:134036000-134036800	Enhancers	Aorta	Aorta
44	chr3:134036000-134037000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
45	chr3:134036200-134036400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr3:134036200-134036400	Enhancers	Skeletal Muscle Female	skeletal muscle
47	chr3:134036200-134036400	Enhancers	Stomach Smooth Muscle	stomach
48	chr3:134036200-134036600	Enhancers	Fetal Brain Female	brain
49	chr3:134036200-134036600	Enhancers	Fetal Muscle Leg	muscle

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