Variant report

Variant	rs13060077
Chromosome Location	chr3:155494709-155494710
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs11715584	0.80[ASN][1000 genomes]
rs13061403	0.85[ASN][1000 genomes]
rs13066198	0.85[ASN][1000 genomes]
rs13099457	0.88[ASN][1000 genomes]
rs1695518	0.81[JPT][hapmap]
rs17349784	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2201932	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34112296	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34317674	0.88[ASN][1000 genomes]
rs34661232	0.80[ASN][1000 genomes]
rs34729483	0.85[ASN][1000 genomes]
rs35316639	0.81[ASN][1000 genomes]
rs35387126	0.89[ASN][1000 genomes]
rs35404700	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35582521	0.85[ASN][1000 genomes]
rs35769564	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs358736	0.81[ASN][1000 genomes]
rs358738	0.83[ASN][1000 genomes]
rs358740	0.80[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs358741	0.86[CHB][hapmap];0.80[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs35963081	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs369155	0.83[ASN][1000 genomes]
rs396797	0.92[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs400999	0.95[CHB][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs426236	0.86[CHB][hapmap];0.85[ASN][1000 genomes]
rs4680215	0.88[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs4680216	0.91[CHB][hapmap];0.84[ASN][1000 genomes]
rs57183957	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62284707	0.94[ASN][1000 genomes]
rs6441012	0.87[ASN][1000 genomes]
rs6774542	0.91[CEU][hapmap];0.82[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6794117	0.82[CHB][hapmap];0.91[YRI][hapmap]
rs73159012	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7617528	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7642920	0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs7650406	0.87[EUR][1000 genomes]
rs9866823	0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 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	nsv1009635	chr3:155475438-155515484	Strong transcription Weak transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1007915	chr3:155476547-155513397	ZNF genes & repeats Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv592080	chr3:155479222-155511844	Weak transcription ZNF genes & repeats Enhancers Strong transcription Genic enhancers Active TSS Flanking Active TSS	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
5	esv14416	chr3:155479247-155512774	ZNF genes & repeats Weak transcription Strong transcription Genic enhancers Enhancers Active TSS Flanking Active TSS	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
6	nsv592082	chr3:155481097-155500859	Strong transcription Weak transcription ZNF genes & repeats Enhancers Genic enhancers Active TSS Flanking Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
7	nsv1006439	chr3:155481097-155515484	ZNF genes & repeats Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Active TSS	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
8	nsv1014031	chr3:155481097-155524777	Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Enhancers Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
9	nsv999641	chr3:155481097-155534616	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
10	esv33346	chr3:155481220-155498441	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Active TSS Flanking Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
11	nsv592083	chr3:155484125-155498311	Weak transcription ZNF genes & repeats Strong transcription Active TSS Enhancers Flanking Active TSS Genic enhancers	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
12	nsv963538	chr3:155484316-155497006	ZNF genes & repeats Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
13	nsv1001756	chr3:155487190-155515484	Weak transcription Strong transcription ZNF genes & repeats Active TSS Enhancers Genic enhancers Flanking Active TSS	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
14	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

No data

Chromatin state (count:73 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:155463800-155501200	Weak transcription	Aorta	Aorta
2	chr3:155467200-155500200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr3:155467200-155508000	Weak transcription	K562	blood
4	chr3:155467200-155508800	Weak transcription	Hela-S3	cervix
5	chr3:155467400-155508400	Weak transcription	HepG2	liver
6	chr3:155471400-155509000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
7	chr3:155472800-155500000	Weak transcription	Brain Cingulate Gyrus	brain
8	chr3:155474200-155497600	Weak transcription	Fetal Muscle Trunk	muscle
9	chr3:155476600-155500000	Weak transcription	Duodenum Smooth Muscle	Duodenum
10	chr3:155478600-155509000	Weak transcription	Gastric	stomach
11	chr3:155480200-155509200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
12	chr3:155480400-155500200	Weak transcription	Primary T helper cells PMA-I stimulated	--
13	chr3:155480600-155503800	Weak transcription	HUVEC	blood vessel
14	chr3:155481800-155499800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
15	chr3:155482000-155495800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr3:155487000-155510600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
17	chr3:155487000-155511400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
18	chr3:155487600-155524200	Weak transcription	Fetal Heart	heart
19	chr3:155488200-155496000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr3:155488200-155496200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
21	chr3:155488200-155497800	Weak transcription	Pancreatic Islets	Pancreatic Islet
22	chr3:155488200-155499800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr3:155488200-155499800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr3:155488200-155499800	Weak transcription	Brain Substantia Nigra	brain
25	chr3:155488200-155499800	Weak transcription	Duodenum Mucosa	Duodenum
26	chr3:155488200-155500200	Weak transcription	Brain Angular Gyrus	brain
27	chr3:155488200-155500400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
28	chr3:155488200-155508600	Weak transcription	Lung	lung
29	chr3:155488200-155508600	Weak transcription	A549	lung
30	chr3:155488200-155508800	Weak transcription	Esophagus	oesophagus
31	chr3:155488200-155509400	Weak transcription	Left Ventricle	heart
32	chr3:155488200-155523200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chr3:155488400-155498200	Weak transcription	Brain Hippocampus Middle	brain
34	chr3:155488800-155508600	Weak transcription	Cortex derived primary cultured neurospheres	brain
35	chr3:155489000-155498400	Weak transcription	Ovary	ovary
36	chr3:155489000-155523200	Weak transcription	Thymus	Thymus
37	chr3:155489200-155498400	Weak transcription	Fetal Brain Female	brain
38	chr3:155489200-155499600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
39	chr3:155489400-155499800	Weak transcription	Right Ventricle	heart
40	chr3:155489400-155500200	Weak transcription	Brain Inferior Temporal Lobe	brain
41	chr3:155489600-155497400	Weak transcription	Primary hematopoietic stem cells	blood
42	chr3:155489800-155509600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
43	chr3:155490000-155499200	Weak transcription	Fetal Intestine Small	intestine
44	chr3:155490000-155499200	Weak transcription	Fetal Stomach	stomach
45	chr3:155490000-155509000	Weak transcription	Pancreas	Pancrea
46	chr3:155490200-155497800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
47	chr3:155490400-155500000	Weak transcription	Brain Anterior Caudate	brain
48	chr3:155490800-155495200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
49	chr3:155490800-155497600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
50	chr3:155490800-155497800	Weak transcription	Skeletal Muscle Female	skeletal muscle

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