Variant report

Variant	rs11046061
Chromosome Location	chr12:21600952-21600953
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10841812	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10841813	1.00[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10841814	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10841818	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10841820	0.94[CHB][hapmap];0.94[JPT][hapmap];0.86[ASN][1000 genomes]
rs10841823	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10841830	0.94[CHB][hapmap];0.94[JPT][hapmap];0.84[ASN][1000 genomes]
rs11046043	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11046046	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11046048	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11046051	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11046066	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11046068	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11046072	0.86[ASN][1000 genomes]
rs11046075	1.00[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12371829	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13266	0.88[CHB][hapmap];0.94[JPT][hapmap];0.85[ASN][1000 genomes]
rs17849408	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2192175	0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs28886017	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3809207	0.94[CHB][hapmap];0.87[JPT][hapmap];0.85[ASN][1000 genomes]
rs6500	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7309377	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7964152	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv898895	chr12:21561645-21621891	Weak transcription Flanking Active TSS Active TSS Genic enhancers Enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	14 gene(s)	inside rSNPs	diseases
2	nsv898896	chr12:21561645-21695584	Strong transcription Bivalent Enhancer Weak transcription Active TSS Enhancers Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	nsv1043936	chr12:21562673-21979030	ZNF genes & repeats Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
4	nsv557741	chr12:21578559-22169854	Strong transcription Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
5	nsv976585	chr12:21599522-21601583	Weak transcription Strong transcription	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:116 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:21591400-21602800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr12:21591600-21609000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr12:21591600-21609000	Weak transcription	Brain Angular Gyrus	brain
4	chr12:21591600-21609200	Weak transcription	Cortex derived primary cultured neurospheres	brain
5	chr12:21591800-21601000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr12:21591800-21609000	Weak transcription	Fetal Heart	heart
7	chr12:21591800-21611000	Weak transcription	Muscle Satellite Cultured Cells	--
8	chr12:21591800-21614600	Weak transcription	HUES6 Cell Line	embryonic stem cell
9	chr12:21591800-21614800	Weak transcription	HUES64 Cell Line	embryonic stem cell
10	chr12:21591800-21621000	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr12:21591800-21624200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
12	chr12:21592000-21614200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
13	chr12:21592000-21620600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr12:21592000-21631000	Weak transcription	Psoas Muscle	Psoas
15	chr12:21592200-21609000	Weak transcription	NH-A	brain
16	chr12:21592200-21609000	Weak transcription	NHDF-Ad	bronchial
17	chr12:21592200-21609200	Weak transcription	Brain Substantia Nigra	brain
18	chr12:21592400-21610400	Weak transcription	NHEK	skin
19	chr12:21592600-21609200	Weak transcription	Small Intestine	intestine
20	chr12:21592800-21631400	Weak transcription	K562	blood
21	chr12:21593400-21604400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr12:21593400-21606600	Strong transcription	Liver	Liver
23	chr12:21593400-21609000	Strong transcription	Primary monocytes fromperipheralblood	blood
24	chr12:21593400-21609000	Strong transcription	Monocytes-CD14+_RO01746	blood
25	chr12:21593400-21617800	Strong transcription	Rectal Mucosa Donor 29	rectum
26	chr12:21594000-21617600	Strong transcription	Primary neutrophils fromperipheralblood	blood
27	chr12:21594200-21601600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
28	chr12:21594800-21605800	Strong transcription	Fetal Thymus	thymus
29	chr12:21594800-21613200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr12:21595200-21608800	Weak transcription	HMEC	breast
31	chr12:21595600-21602200	Weak transcription	Osteobl	bone
32	chr12:21595600-21609200	Weak transcription	Colonic Mucosa	Colon
33	chr12:21595600-21626200	Weak transcription	Right Ventricle	heart
34	chr12:21595800-21606400	Weak transcription	Brain Inferior Temporal Lobe	brain
35	chr12:21595800-21609000	Weak transcription	Brain Germinal Matrix	brain
36	chr12:21595800-21609000	Weak transcription	HSMMtube	muscle
37	chr12:21595800-21609200	Weak transcription	Brain Cingulate Gyrus	brain
38	chr12:21595800-21609200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
39	chr12:21595800-21610400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
40	chr12:21595800-21611000	Weak transcription	HepG2	liver
41	chr12:21595800-21624400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
42	chr12:21595800-21631400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
43	chr12:21595800-21632600	Weak transcription	Placenta Amnion	Placenta Amnion
44	chr12:21595800-21633200	Weak transcription	Gastric	stomach
45	chr12:21595800-21650000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
46	chr12:21596000-21605000	Strong transcription	Primary T cells fromperipheralblood	blood
47	chr12:21596000-21611800	Weak transcription	Aorta	Aorta
48	chr12:21596000-21631600	Weak transcription	Pancreas	Pancrea
49	chr12:21596200-21625000	Weak transcription	NHLF	lung
50	chr12:21596400-21603400	Strong transcription	Primary T helper cells PMA-I stimulated	--

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