Variant report

Variant	rs66546764
Chromosome Location	chr3:112342951-112342952
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:112342080..112344634-chr3:112358848..112360765,3	MCF-7	breast:
2	chr3:112338141..112343361-chr3:112351475..112354709,4	MCF-7	breast:
3	chr3:112340519..112345126-chr3:112357206..112361448,6	MCF-7	breast:

Variant related genes	Relation type
ENSG00000091986	Chromatin interaction

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs10511317	1.00[AFR][1000 genomes]
rs1072896	1.00[AFR][1000 genomes]
rs12630906	1.00[AFR][1000 genomes]
rs12634199	1.00[AFR][1000 genomes]
rs12637057	1.00[AFR][1000 genomes]
rs12637953	1.00[AFR][1000 genomes]
rs13059364	1.00[AFR][1000 genomes]
rs13063173	1.00[AFR][1000 genomes]
rs13078401	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13079599	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13081265	1.00[AFR][1000 genomes]
rs13086960	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13096943	1.00[AFR][1000 genomes]
rs16845068	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16845073	1.00[AFR][1000 genomes]
rs16859758	1.00[AFR][1000 genomes]
rs16859849	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16859890	1.00[AFR][1000 genomes]
rs16859897	1.00[AFR][1000 genomes]
rs16859930	1.00[AFR][1000 genomes]
rs16859961	1.00[AFR][1000 genomes]
rs28364588	1.00[AFR][1000 genomes]
rs28364589	1.00[AFR][1000 genomes]
rs34080815	1.00[AFR][1000 genomes]
rs34541731	1.00[AFR][1000 genomes]
rs34694961	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34829517	1.00[AFR][1000 genomes]
rs34889961	1.00[AFR][1000 genomes]
rs34949685	1.00[AFR][1000 genomes]
rs34962178	1.00[AFR][1000 genomes]
rs35263368	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35526995	1.00[AFR][1000 genomes]
rs35931975	1.00[AFR][1000 genomes]
rs36045008	1.00[AFR][1000 genomes]
rs36153507	1.00[AFR][1000 genomes]
rs3736269	1.00[AFR][1000 genomes]
rs3773701	1.00[AFR][1000 genomes]
rs3773704	1.00[AFR][1000 genomes]
rs56952692	1.00[AFR][1000 genomes]
rs57224143	1.00[AFR][1000 genomes]
rs59191788	1.00[AFR][1000 genomes]
rs59650289	1.00[AFR][1000 genomes]
rs60340975	1.00[AFR][1000 genomes]
rs60646325	1.00[AFR][1000 genomes]
rs60733172	1.00[AFR][1000 genomes]
rs66791711	1.00[AFR][1000 genomes]
rs67021100	1.00[AFR][1000 genomes]
rs71317506	1.00[AFR][1000 genomes]
rs71317507	1.00[AFR][1000 genomes]
rs71317508	1.00[AFR][1000 genomes]
rs73229350	1.00[AFR][1000 genomes]
rs73229353	1.00[AFR][1000 genomes]
rs963541	1.00[AFR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3329419	chr3:112236688-112620544	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers ZNF genes & repeats 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	39 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:112312600-112346200	Weak transcription	Rectal Smooth Muscle	rectum
2	chr3:112312600-112347200	Weak transcription	Fetal Intestine Large	intestine
3	chr3:112330400-112346800	Strong transcription	NHLF	lung
4	chr3:112331200-112351600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr3:112331400-112354800	Weak transcription	Psoas Muscle	Psoas
6	chr3:112335200-112345400	Weak transcription	Fetal Muscle Leg	muscle
7	chr3:112336200-112347400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr3:112336200-112351600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr3:112336400-112346800	Weak transcription	Fetal Stomach	stomach
10	chr3:112336600-112351400	Weak transcription	Fetal Lung	lung
11	chr3:112336600-112355800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr3:112337000-112346800	Weak transcription	Skeletal Muscle Female	skeletal muscle
13	chr3:112338000-112349400	Weak transcription	Duodenum Smooth Muscle	Duodenum
14	chr3:112338400-112346200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr3:112338800-112343600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr3:112340000-112343400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr3:112340800-112348200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr3:112341000-112346200	Weak transcription	Aorta	Aorta
19	chr3:112341000-112348400	Weak transcription	Fetal Kidney	kidney
20	chr3:112341200-112343400	Enhancers	Hela-S3	cervix
21	chr3:112341200-112344000	Weak transcription	Cortex derived primary cultured neurospheres	brain
22	chr3:112341400-112344200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr3:112341400-112351400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr3:112341800-112343200	Enhancers	HMEC	breast
25	chr3:112341800-112343400	Enhancers	ES-I3 Cell Line	embryonic stem cell
26	chr3:112341800-112343600	Genic enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr3:112341800-112344200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr3:112341800-112345200	Genic enhancers	Osteobl	bone
29	chr3:112341800-112347800	Strong transcription	Placenta Amnion	Placenta Amnion
30	chr3:112341800-112348000	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr3:112341800-112348200	Genic enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr3:112342000-112343000	Enhancers	HUES64 Cell Line	embryonic stem cell
33	chr3:112342000-112343000	Enhancers	iPS-15b Cell Line	embryonic stem cell
34	chr3:112342000-112343000	Genic enhancers	Muscle Satellite Cultured Cells	--
35	chr3:112342000-112343000	Genic enhancers	NHDF-Ad	bronchial
36	chr3:112342200-112343000	Enhancers	iPS-20b Cell Line	embryonic stem cell
37	chr3:112342200-112343000	Genic enhancers	Adipose Nuclei	Adipose
38	chr3:112342200-112343200	Enhancers	HUES48 Cell Line	embryonic stem cell
39	chr3:112342200-112343400	Enhancers	HUVEC	blood vessel
40	chr3:112342200-112344800	Weak transcription	Ovary	ovary
41	chr3:112342200-112348200	Genic enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr3:112342400-112346000	Weak transcription	Colon Smooth Muscle	Colon
43	chr3:112342400-112346600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
44	chr3:112342400-112348200	Strong transcription	HSMM	muscle
45	chr3:112342600-112343000	Transcr. at gene 5' and 3'	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr3:112342600-112343000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
47	chr3:112342600-112350000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
48	chr3:112342600-112359600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
49	chr3:112342800-112343000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
50	chr3:112342800-112343800	Weak transcription	NH-A	brain

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