Variant report

Variant	rs11052042
Chromosome Location	chr12:32675360-32675361
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10506090	0.85[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs10506093	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs10771961	0.85[ASN][1000 genomes]
rs10844224	0.84[ASN][1000 genomes]
rs10844226	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs10844227	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs10844228	0.82[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs10844229	0.91[ASN][1000 genomes]
rs10844230	0.96[ASN][1000 genomes]
rs10844231	0.96[ASN][1000 genomes]
rs10844232	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10844234	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs11052040	0.98[ASN][1000 genomes]
rs11052041	0.96[ASN][1000 genomes]
rs11052046	0.96[ASN][1000 genomes]
rs11052052	0.92[ASN][1000 genomes]
rs11052053	0.96[ASN][1000 genomes]
rs11052055	1.00[CEU][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11052079	1.00[JPT][hapmap]
rs11608343	0.82[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs12322132	0.98[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12366886	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1500875	0.85[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs16920058	1.00[JPT][hapmap]
rs16920125	1.00[JPT][hapmap]
rs17536908	0.93[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1909509	1.00[JPT][hapmap]
rs2036266	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2133944	0.85[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4105685	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4520681	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs61928965	0.91[ASN][1000 genomes]
rs73092002	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73094103	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7953022	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7964715	0.96[ASN][1000 genomes]
rs7967306	0.82[CEU][hapmap];0.87[ASN][1000 genomes]
rs7967702	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs7970857	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7974089	0.82[CEU][hapmap];0.89[ASN][1000 genomes]
rs7977101	1.00[CEU][hapmap];1.00[CHB][hapmap];0.80[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7980571	0.80[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531960	chr12:32257285-32775277	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
2	esv2751096	chr12:32280340-32702784	Strong transcription Enhancers Weak transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	nsv1054191	chr12:32534619-32733066	Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv541455	chr12:32534619-32733066	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
5	esv3342938	chr12:32551041-32716745	Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Weak transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
6	nsv898970	chr12:32622097-32680236	Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:84 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:32655200-32686000	Weak transcription	Lung	lung
2	chr12:32656400-32685800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr12:32658600-32682000	Weak transcription	Fetal Muscle Trunk	muscle
4	chr12:32661200-32675600	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr12:32662000-32675600	Weak transcription	Fetal Brain Male	brain
6	chr12:32665800-32675600	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr12:32666400-32675600	Weak transcription	Rectal Mucosa Donor 31	rectum
8	chr12:32666600-32685200	Weak transcription	Rectal Mucosa Donor 29	rectum
9	chr12:32668200-32675400	Weak transcription	Placenta	Placenta
10	chr12:32668200-32685800	Weak transcription	Gastric	stomach
11	chr12:32668400-32678000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr12:32668400-32702600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr12:32668800-32686600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr12:32669200-32675600	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr12:32669800-32687000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
16	chr12:32671400-32675400	Weak transcription	Psoas Muscle	Psoas
17	chr12:32671600-32686000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr12:32672800-32677200	Enhancers	Primary monocytes fromperipheralblood	blood
19	chr12:32673600-32676000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
20	chr12:32673600-32676000	Enhancers	Cortex derived primary cultured neurospheres	brain
21	chr12:32673800-32676000	Enhancers	HUES48 Cell Line	embryonic stem cell
22	chr12:32673800-32676200	Enhancers	NHDF-Ad	bronchial
23	chr12:32673800-32676600	Enhancers	Primary neutrophils fromperipheralblood	blood
24	chr12:32673800-32676600	Enhancers	Adipose Nuclei	Adipose
25	chr12:32673800-32676600	Enhancers	Skeletal Muscle Female	skeletal muscle
26	chr12:32673800-32676600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
27	chr12:32674000-32675600	Enhancers	Brain Hippocampus Middle	brain
28	chr12:32674000-32676600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr12:32674200-32675400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr12:32674200-32676400	Enhancers	iPS-18 Cell Line	embryonic stem cell
31	chr12:32674200-32676600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr12:32674200-32677200	Enhancers	Primary B cells from peripheral blood	blood
33	chr12:32674400-32675600	Weak transcription	Right Atrium	heart
34	chr12:32674400-32675800	Enhancers	Fetal Brain Female	brain
35	chr12:32674400-32675800	Enhancers	GM12878-XiMat	blood
36	chr12:32674400-32676000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
37	chr12:32674400-32676000	Enhancers	HUES64 Cell Line	embryonic stem cell
38	chr12:32674400-32676000	Enhancers	HUVEC	blood vessel
39	chr12:32674400-32677200	Enhancers	Primary B cells from cord blood	blood
40	chr12:32674400-32677200	Enhancers	Primary hematopoietic stem cells	blood
41	chr12:32674600-32675600	Enhancers	Muscle Satellite Cultured Cells	--
42	chr12:32674600-32675600	Enhancers	Fetal Intestine Small	intestine
43	chr12:32674600-32676000	Enhancers	ES-I3 Cell Line	embryonic stem cell
44	chr12:32674600-32676000	Enhancers	iPS-15b Cell Line	embryonic stem cell
45	chr12:32674600-32676000	Enhancers	iPS-20b Cell Line	embryonic stem cell
46	chr12:32674600-32676000	Enhancers	Primary T cells from cord blood	blood
47	chr12:32674600-32676400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
48	chr12:32674600-32676400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr12:32674600-32676400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
50	chr12:32674600-32676600	Enhancers	Brain Angular Gyrus	brain

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