Variant report

Variant	rs13086960
Chromosome Location	chr3:112335277-112335278
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:112333133..112335338-chr3:112353119..112355694,2	MCF-7	breast:
2	chr3:112334145..112336575-chr3:112358541..112360757,2	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];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13079599	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13081265	1.00[AFR][1000 genomes]
rs13096943	1.00[AFR][1000 genomes]
rs16845068	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs16845073	1.00[AFR][1000 genomes]
rs16859758	1.00[AFR][1000 genomes]
rs16859849	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][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	1.00[EUR][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];0.92[AMR][1000 genomes];0.95[EUR][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]
rs66546764	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][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:59 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:112282400-112340000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr3:112312600-112346200	Weak transcription	Rectal Smooth Muscle	rectum
3	chr3:112312600-112347200	Weak transcription	Fetal Intestine Large	intestine
4	chr3:112316200-112342800	Weak transcription	Fetal Muscle Trunk	muscle
5	chr3:112316600-112337600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr3:112318000-112341800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr3:112322200-112337200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr3:112327800-112340600	Weak transcription	Fetal Kidney	kidney
9	chr3:112329600-112341800	Strong transcription	HSMM	muscle
10	chr3:112330000-112336600	Strong transcription	NHDF-Ad	bronchial
11	chr3:112330200-112338400	Strong transcription	HSMMtube	muscle
12	chr3:112330400-112346800	Strong transcription	NHLF	lung
13	chr3:112331200-112335400	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr3:112331200-112351600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr3:112331400-112354800	Weak transcription	Psoas Muscle	Psoas
16	chr3:112331600-112335800	Weak transcription	Skeletal Muscle Female	skeletal muscle
17	chr3:112331600-112337400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr3:112331600-112337800	Weak transcription	HUVEC	blood vessel
19	chr3:112331600-112338200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr3:112331600-112338400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr3:112331800-112336200	Genic enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr3:112332200-112337800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr3:112332600-112337600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr3:112332800-112337800	Strong transcription	Adipose Nuclei	Adipose
25	chr3:112332800-112339000	Strong transcription	Placenta Amnion	Placenta Amnion
26	chr3:112333000-112336600	Strong transcription	Fetal Lung	lung
27	chr3:112333400-112336200	Enhancers	HUES64 Cell Line	embryonic stem cell
28	chr3:112333400-112336400	Genic enhancers	Cortex derived primary cultured neurospheres	brain
29	chr3:112333400-112337000	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr3:112333400-112337600	Strong transcription	Ovary	ovary
31	chr3:112333400-112338000	Strong transcription	Duodenum Smooth Muscle	Duodenum
32	chr3:112333400-112338000	Strong transcription	Stomach Smooth Muscle	stomach
33	chr3:112333600-112337800	Strong transcription	Colon Smooth Muscle	Colon
34	chr3:112333800-112336800	Weak transcription	Sigmoid Colon	Sigmoid Colon
35	chr3:112334000-112336400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
36	chr3:112334000-112336400	Enhancers	HUES48 Cell Line	embryonic stem cell
37	chr3:112334000-112336400	Strong transcription	Fetal Stomach	stomach
38	chr3:112334000-112338400	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
39	chr3:112334200-112335400	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
40	chr3:112334200-112336000	Enhancers	iPS-15b Cell Line	embryonic stem cell
41	chr3:112334400-112336400	Enhancers	iPS-18 Cell Line	embryonic stem cell
42	chr3:112334400-112337600	Weak transcription	A549	lung
43	chr3:112334600-112335800	Enhancers	HUES6 Cell Line	embryonic stem cell
44	chr3:112334800-112335600	Enhancers	iPS-20b Cell Line	embryonic stem cell
45	chr3:112335000-112335600	Genic enhancers	Muscle Satellite Cultured Cells	--
46	chr3:112335000-112335600	Weak transcription	Brain Hippocampus Middle	brain
47	chr3:112335000-112335600	Genic enhancers	NH-A	brain
48	chr3:112335000-112336200	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr3:112335000-112336400	Genic enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
50	chr3:112335000-112336400	Genic enhancers	Osteobl	bone

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