Variant report

Variant	rs1042780
Chromosome Location	chr11:86161388-86161389
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:86160606..86163263-chr11:86167146..86168885,2	K562	blood:
2	chr11:86160987..86162784-chr11:86164808..86167702,2	MCF-7	breast:
3	chr11:86160742..86163401-chr11:86170185..86172480,2	MCF-7	breast:
4	chr11:86158745..86161697-chr11:86162111..86164358,2	MCF-7	breast:

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10501617	0.84[ASW][hapmap];0.80[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];0.89[YRI][hapmap];1.00[ASN][1000 genomes]
rs10501618	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];1.00[ASN][1000 genomes]
rs11234642	0.84[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs11234649	0.92[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs11234656	0.97[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs11607319	0.92[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs12271571	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12272337	0.90[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs12272824	0.99[ASN][1000 genomes]
rs12274297	0.92[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs12289721	0.88[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs1452133	0.93[ASN][1000 genomes]
rs1452135	0.94[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs1452138	0.93[ASN][1000 genomes]
rs1597792	0.80[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs1839940	0.90[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs2034622	0.93[ASN][1000 genomes]
rs2051434	0.83[CEU][hapmap]
rs28436284	0.90[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs3741006	1.00[ASW][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.80[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs3741007	0.93[CHB][hapmap];0.95[CHD][hapmap]
rs3819227	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3824954	1.00[CHB][hapmap];0.95[CHD][hapmap];0.93[ASN][1000 genomes]
rs4586193	0.99[ASN][1000 genomes]
rs4943940	0.91[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs4944572	0.93[CHB][hapmap]
rs4944573	0.99[ASN][1000 genomes]
rs4944574	1.00[ASW][hapmap];0.80[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.82[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];0.95[MEX][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs4944578	0.92[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs59419027	0.90[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs6592293	0.92[ASN][1000 genomes]
rs7120275	0.88[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs7926796	0.97[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs7930223	0.99[ASN][1000 genomes]
rs7932498	0.94[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs7932514	0.94[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs7937668	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7947323	1.00[CHB][hapmap];0.97[CHD][hapmap];0.82[MEX][hapmap];0.93[ASN][1000 genomes]
rs7947537	0.99[ASN][1000 genomes]
rs7949910	0.97[AFR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1044081	chr11:86133641-86868560	Bivalent/Poised TSS Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv541118	chr11:86133641-86868560	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	nsv898056	chr11:86156848-86304402	Weak transcription Genic enhancers Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:65 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:86136800-86170200	Weak transcription	Fetal Heart	heart
2	chr11:86138600-86167400	Weak transcription	Fetal Lung	lung
3	chr11:86142000-86167400	Weak transcription	Rectal Mucosa Donor 29	rectum
4	chr11:86145400-86167400	Weak transcription	Pancreas	Pancrea
5	chr11:86150200-86167400	Weak transcription	Stomach Mucosa	stomach
6	chr11:86151800-86167400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr11:86151800-86167400	Weak transcription	Muscle Satellite Cultured Cells	--
8	chr11:86152400-86164000	Weak transcription	Brain Substantia Nigra	brain
9	chr11:86152400-86172200	Weak transcription	Fetal Brain Male	brain
10	chr11:86153200-86187000	Weak transcription	Fetal Kidney	kidney
11	chr11:86154000-86166800	Weak transcription	A549	lung
12	chr11:86154000-86167400	Weak transcription	NH-A	brain
13	chr11:86154000-86169600	Weak transcription	HSMM	muscle
14	chr11:86154000-86170800	Weak transcription	Esophagus	oesophagus
15	chr11:86154200-86167000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr11:86154600-86167400	Weak transcription	Hela-S3	cervix
17	chr11:86154600-86170600	Weak transcription	Brain Cingulate Gyrus	brain
18	chr11:86154800-86171000	Weak transcription	Placenta Amnion	Placenta Amnion
19	chr11:86155000-86167400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr11:86156400-86167400	Weak transcription	Rectal Mucosa Donor 31	rectum
21	chr11:86156600-86167400	Weak transcription	Colon Smooth Muscle	Colon
22	chr11:86156800-86169400	Weak transcription	Osteobl	bone
23	chr11:86157000-86167400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr11:86157000-86179800	Weak transcription	Fetal Intestine Large	intestine
25	chr11:86157400-86170800	Weak transcription	Psoas Muscle	Psoas
26	chr11:86157800-86166400	Weak transcription	Brain Hippocampus Middle	brain
27	chr11:86158000-86170800	Weak transcription	Fetal Muscle Trunk	muscle
28	chr11:86158200-86167600	Weak transcription	Spleen	Spleen
29	chr11:86158400-86161600	Enhancers	Primary hematopoietic stem cells short term culture	blood
30	chr11:86158600-86161400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
31	chr11:86158600-86167400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr11:86158600-86167400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
33	chr11:86158600-86167400	Weak transcription	Fetal Muscle Leg	muscle
34	chr11:86158600-86167400	Weak transcription	Left Ventricle	heart
35	chr11:86158600-86167400	Weak transcription	Ovary	ovary
36	chr11:86158600-86167400	Weak transcription	Skeletal Muscle Male	skeletal muscle
37	chr11:86158600-86169000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
38	chr11:86158600-86169600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
39	chr11:86158600-86170400	Weak transcription	Brain Anterior Caudate	brain
40	chr11:86158600-86170800	Weak transcription	Brain Inferior Temporal Lobe	brain
41	chr11:86158600-86170800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
42	chr11:86158600-86171000	Weak transcription	Duodenum Smooth Muscle	Duodenum
43	chr11:86158600-86171000	Weak transcription	Gastric	stomach
44	chr11:86158600-86187200	Weak transcription	Duodenum Mucosa	Duodenum
45	chr11:86158800-86167400	Weak transcription	Skeletal Muscle Female	skeletal muscle
46	chr11:86158800-86168200	Weak transcription	Aorta	Aorta
47	chr11:86159200-86170800	Weak transcription	Fetal Intestine Small	intestine
48	chr11:86159400-86161400	Weak transcription	Adipose Nuclei	Adipose
49	chr11:86159400-86167400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr11:86159400-86167400	Weak transcription	Right Ventricle	heart

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