Variant report

Variant	rs34149860
Chromosome Location	chr3:136062724-136062725
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:135967729..135968689-chr3:136062451..136063319,2	MCF-7	breast:
2	chr3:136061498..136064773-chr3:136469426..136473116,3	MCF-7	breast:
3	chr3:135914307..135917128-chr3:136060550..136064409,7	MCF-7	breast:

Variant related genes	Relation type
ENSG00000118007	Chromatin interaction
ENSG00000174579	Chromatin interaction
ENSG00000261758	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs55655018	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55674785	1.00[EUR][1000 genomes]
rs56043110	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56381882	1.00[EUR][1000 genomes]
rs58336248	1.00[EUR][1000 genomes]
rs58493992	1.00[EUR][1000 genomes]
rs58544452	1.00[EUR][1000 genomes]
rs59778182	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs60414862	1.00[EUR][1000 genomes]
rs60778309	1.00[EUR][1000 genomes]
rs61160497	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61400878	1.00[EUR][1000 genomes]
rs6790219	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73863333	1.00[EUR][1000 genomes]
rs73863336	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73863337	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73863608	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73863611	1.00[EUR][1000 genomes]
rs73863618	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73863622	1.00[EUR][1000 genomes]
rs73863623	1.00[EUR][1000 genomes]
rs73863625	1.00[EUR][1000 genomes]
rs73863630	1.00[EUR][1000 genomes]
rs73865203	1.00[EUR][1000 genomes]
rs7613584	1.00[EUR][1000 genomes]
rs7626261	1.00[EUR][1000 genomes]
rs9917813	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869409	chr3:135649101-136164174	Strong transcription Genic enhancers Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv948461	chr3:135969755-136349636	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv4025	chr3:136017458-136065622	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS	Chromatin interactive region miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv877519	chr3:136035737-136279390	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases
5	nsv877520	chr3:136056861-136310985	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:136039000-136072400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr3:136040400-136062800	Weak transcription	Stomach Mucosa	stomach
3	chr3:136042400-136078800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
4	chr3:136042600-136072600	Strong transcription	Dnd41	blood
5	chr3:136043400-136098600	Weak transcription	Fetal Brain Male	brain
6	chr3:136043600-136082000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
7	chr3:136043800-136070400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr3:136045600-136079200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
9	chr3:136047600-136098000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
10	chr3:136047800-136068200	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr3:136047800-136074800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
12	chr3:136048400-136062800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr3:136049000-136062800	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr3:136050800-136062800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr3:136051000-136062800	Strong transcription	Adipose Nuclei	Adipose
16	chr3:136051000-136063600	Strong transcription	Fetal Thymus	thymus
17	chr3:136051000-136069800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
18	chr3:136051200-136063600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr3:136051600-136063600	Strong transcription	Primary monocytes fromperipheralblood	blood
20	chr3:136051600-136063600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
21	chr3:136051600-136064800	Strong transcription	Primary T cells from cord blood	blood
22	chr3:136051600-136069200	Strong transcription	Primary T cells fromperipheralblood	blood
23	chr3:136051600-136070800	Strong transcription	Fetal Muscle Trunk	muscle
24	chr3:136052000-136063200	Strong transcription	Primary B cells from cord blood	blood
25	chr3:136052000-136063400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr3:136052000-136063600	Strong transcription	Primary T helper cells PMA-I stimulated	--
27	chr3:136052200-136063400	Strong transcription	Primary T helper cells fromperipheralblood	blood
28	chr3:136052200-136063400	Strong transcription	Monocytes-CD14+_RO01746	blood
29	chr3:136052200-136069200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
30	chr3:136052800-136070800	Strong transcription	Primary B cells from peripheral blood	blood
31	chr3:136053000-136066400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
32	chr3:136053000-136072400	Weak transcription	H1 Cell Line	embryonic stem cell
33	chr3:136053200-136063400	Strong transcription	Primary neutrophils fromperipheralblood	blood
34	chr3:136053200-136063800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
35	chr3:136053400-136062800	Weak transcription	HepG2	liver
36	chr3:136053600-136063000	Weak transcription	Colon Smooth Muscle	Colon
37	chr3:136053800-136069000	Weak transcription	Brain Cingulate Gyrus	brain
38	chr3:136054200-136085400	Weak transcription	Brain Hippocampus Middle	brain
39	chr3:136054600-136063000	Weak transcription	HUES6 Cell Line	embryonic stem cell
40	chr3:136054600-136074200	Weak transcription	Brain Angular Gyrus	brain
41	chr3:136054600-136172000	Weak transcription	Brain Inferior Temporal Lobe	brain
42	chr3:136054800-136064000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
43	chr3:136054800-136076600	Weak transcription	Brain Substantia Nigra	brain
44	chr3:136055400-136063000	Weak transcription	Colonic Mucosa	Colon
45	chr3:136055400-136065200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
46	chr3:136055400-136069000	Weak transcription	Aorta	Aorta
47	chr3:136055600-136062800	Weak transcription	Esophagus	oesophagus
48	chr3:136055600-136062800	Weak transcription	Lung	lung
49	chr3:136055600-136063200	Weak transcription	Gastric	stomach
50	chr3:136055600-136073400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain

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