Variant report

Variant	rs11232304
Chromosome Location	chr11:70864423-70864424
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	chr11:70862325..70865050-chr11:70958475..70960987,2	MCF-7	breast:

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

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

rs_ID	r²[population]
rs10897725	0.93[EUR][1000 genomes]
rs10897726	0.93[EUR][1000 genomes]
rs11232300	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11232301	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11232305	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12271307	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12272223	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12273513	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12273863	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12274896	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12282822	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12289383	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12295667	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs28811899	0.80[EUR][1000 genomes]
rs28876818	0.81[EUR][1000 genomes]
rs34402475	0.85[EUR][1000 genomes]
rs4245462	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4304805	0.93[EUR][1000 genomes]
rs4334036	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4340077	0.82[JPT][hapmap]
rs4348928	0.81[EUR][1000 genomes]
rs4424695	0.87[EUR][1000 genomes]
rs4944245	0.93[EUR][1000 genomes]
rs55664123	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs55988920	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56144630	0.87[EUR][1000 genomes]
rs56181437	0.85[EUR][1000 genomes]
rs56291131	0.84[EUR][1000 genomes]
rs56393668	0.82[EUR][1000 genomes]
rs59052115	0.82[EUR][1000 genomes]
rs60079515	0.82[EUR][1000 genomes]
rs61582992	0.84[EUR][1000 genomes]
rs7107858	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7116150	0.81[EUR][1000 genomes]
rs7123898	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7125114	0.85[EUR][1000 genomes]
rs72957115	0.80[EUR][1000 genomes]
rs72959507	0.83[EUR][1000 genomes]
rs72959509	0.88[EUR][1000 genomes]
rs72959517	0.85[EUR][1000 genomes]
rs72959521	0.85[EUR][1000 genomes]
rs72959524	0.84[EUR][1000 genomes]
rs7932968	0.91[EUR][1000 genomes]
rs7933736	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7933912	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7945968	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7949824	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7950101	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9888167	0.87[EUR][1000 genomes]
rs9888173	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9888203	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9888294	0.82[EUR][1000 genomes]
rs9888299	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][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	nsv1048123	chr11:70795222-71231382	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:70858200-70891000	Weak transcription	Gastric	stomach
2	chr11:70858600-70865400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr11:70863600-70864600	Enhancers	iPS-15b Cell Line	embryonic stem cell
4	chr11:70863600-70864600	Enhancers	iPS-18 Cell Line	embryonic stem cell
5	chr11:70863600-70864600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
6	chr11:70863600-70864600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr11:70863600-70864600	Flanking Active TSS	Fetal Intestine Small	intestine
8	chr11:70863600-70864600	Bivalent Enhancer	Fetal Stomach	stomach
9	chr11:70863600-70864600	Flanking Active TSS	A549	lung
10	chr11:70863600-70864600	Enhancers	HMEC	breast
11	chr11:70863600-70864800	Enhancers	Rectal Mucosa Donor 29	rectum
12	chr11:70863600-70864800	Flanking Active TSS	Hela-S3	cervix
13	chr11:70863600-70865600	Enhancers	H1 Cell Line	embryonic stem cell
14	chr11:70863600-70865600	Enhancers	Placenta	Placenta
15	chr11:70863800-70864600	Enhancers	iPS-20b Cell Line	embryonic stem cell
16	chr11:70863800-70864600	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr11:70863800-70864600	Bivalent Enhancer	Cortex derived primary cultured neurospheres	brain
18	chr11:70863800-70864600	Active TSS	Ovary	ovary
19	chr11:70863800-70865200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr11:70864000-70864600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
21	chr11:70864000-70864600	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr11:70864000-70864600	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr11:70864000-70864600	Active TSS	Brain Substantia Nigra	brain
24	chr11:70864000-70864600	Active TSS	HSMMtube	muscle
25	chr11:70864000-70865200	Weak transcription	Placenta Amnion	Placenta Amnion
26	chr11:70864200-70864600	Flanking Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
27	chr11:70864200-70864600	Active TSS	Muscle Satellite Cultured Cells	--
28	chr11:70864200-70864600	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr11:70864200-70864800	Bivalent Enhancer	ES-I3 Cell Line	embryonic stem cell
30	chr11:70864200-70865400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
31	chr11:70864400-70864600	Enhancers	HUES48 Cell Line	embryonic stem cell
32	chr11:70864400-70864600	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr11:70864400-70864600	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
34	chr11:70864400-70864600	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr11:70864400-70864600	Flanking Active TSS	Brain Hippocampus Middle	brain
36	chr11:70864400-70864600	Flanking Active TSS	Duodenum Mucosa	Duodenum
37	chr11:70864400-70864600	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
38	chr11:70864400-70864600	Flanking Active TSS	Fetal Intestine Large	intestine
39	chr11:70864400-70864600	Enhancers	Rectal Mucosa Donor 31	rectum
40	chr11:70864400-70864600	Flanking Active TSS	HepG2	liver
41	chr11:70864400-70864600	Enhancers	HSMM	muscle
42	chr11:70864400-70864600	Flanking Active TSS	Osteobl	bone
43	chr11:70864400-70865000	Enhancers	Fetal Kidney	kidney
44	chr11:70864400-70865200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
45	chr11:70864400-70865200	Weak transcription	Pancreas	Pancrea
46	chr11:70864400-70865800	Flanking Active TSS	Liver	Liver

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