Variant report

Variant	rs61066315
Chromosome Location	chr3:46157052-46157053
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:46148560..46157677-chr3:46203034..46208483,12	MCF-7	breast:
2	chr3:46154708..46157691-chr3:46229895..46231641,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000183625	Chromatin interaction

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10433607	0.80[ASN][1000 genomes]
rs10510747	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1118021	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12054287	0.81[EUR][1000 genomes]
rs12486449	0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13320534	0.80[ASN][1000 genomes]
rs13434141	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1491960	0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1546079	0.91[ASN][1000 genomes]
rs1602580	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1604068	0.85[ASN][1000 genomes]
rs17078567	0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17078589	0.95[ASN][1000 genomes]
rs2036295	0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2173639	0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2888512	0.97[ASN][1000 genomes]
rs4339141	0.80[EUR][1000 genomes]
rs4447807	0.81[EUR][1000 genomes]
rs4490402	0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4586860	0.97[ASN][1000 genomes]
rs4682804	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4682805	0.94[ASN][1000 genomes]
rs4682807	0.96[ASN][1000 genomes]
rs4683169	0.90[EUR][1000 genomes]
rs4683174	0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs56800498	0.88[EUR][1000 genomes]
rs58035200	0.84[EUR][1000 genomes]
rs58260031	0.84[EUR][1000 genomes]
rs59865404	0.88[EUR][1000 genomes]
rs60539039	0.83[EUR][1000 genomes]
rs60991632	0.90[EUR][1000 genomes]
rs61254379	0.91[EUR][1000 genomes]
rs61387489	0.96[ASN][1000 genomes]
rs62242832	0.81[EUR][1000 genomes]
rs62242846	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62243869	0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs62243873	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62243875	0.88[EUR][1000 genomes]
rs62243876	0.88[EUR][1000 genomes]
rs62243906	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6778958	0.97[ASN][1000 genomes]
rs6807854	0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs751625	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7623476	0.84[EUR][1000 genomes]
rs7641151	0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7641164	0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs880160	0.97[ASN][1000 genomes]
rs9818635	0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9849715	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9856805	0.96[ASN][1000 genomes]
rs9990060	0.95[ASN][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	nsv876734	chr3:45725031-46468467	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv498008	chr3:45733423-46319401	Strong transcription Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46146800-46164400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:46148400-46160200	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr3:46149200-46158800	Enhancers	NHLF	lung
4	chr3:46149200-46159800	Enhancers	Placenta	Placenta
5	chr3:46150000-46157600	Enhancers	HMEC	breast
6	chr3:46150400-46158800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr3:46150600-46158600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr3:46151000-46158800	Weak transcription	Stomach Mucosa	stomach
9	chr3:46151800-46158200	Enhancers	NHDF-Ad	bronchial
10	chr3:46152000-46157400	Enhancers	NHEK	skin
11	chr3:46152600-46165200	Weak transcription	Spleen	Spleen
12	chr3:46152800-46158800	Enhancers	Hela-S3	cervix
13	chr3:46152800-46159400	Weak transcription	Lung	lung
14	chr3:46152800-46162400	Weak transcription	Skeletal Muscle Female	skeletal muscle
15	chr3:46153000-46157800	Weak transcription	Fetal Lung	lung
16	chr3:46155200-46157200	Enhancers	Osteobl	bone
17	chr3:46156000-46157200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr3:46156000-46157200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr3:46156000-46159000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr3:46156200-46157200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr3:46156200-46157200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr3:46156200-46157800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr3:46156400-46157200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr3:46156400-46158400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr3:46156400-46159600	Enhancers	Breast Myoepithelial Primary Cells	Breast
26	chr3:46156800-46157200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
27	chr3:46156800-46157200	Enhancers	Monocytes-CD14+_RO01746	blood
28	chr3:46156800-46158200	Weak transcription	Adipose Nuclei	Adipose
29	chr3:46156800-46158400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
30	chr3:46156800-46168000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr3:46157000-46157200	Enhancers	Esophagus	oesophagus
32	chr3:46157000-46157200	Enhancers	Psoas Muscle	Psoas
33	chr3:46157000-46158000	Enhancers	Fetal Stomach	stomach
34	chr3:46157000-46158000	Weak transcription	Placenta Amnion	Placenta Amnion
35	chr3:46157000-46159400	Enhancers	Primary neutrophils fromperipheralblood	blood

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