Variant report

Variant	rs11127636
Chromosome Location	chr3:78922852-78922853
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:78917237..78919813-chr3:78920275..78923386,3	MCF-7	breast:
2	chr3:78920993..78923314-chr3:79066698..79068465,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000169855	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs1031932	1.00[CHB][hapmap];0.98[CHD][hapmap];0.88[GIH][hapmap];0.91[JPT][hapmap];0.88[MEX][hapmap];0.86[TSI][hapmap];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11924366	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1383407	0.85[CEU][hapmap];0.91[CHB][hapmap];0.90[GIH][hapmap];0.91[JPT][hapmap];0.84[MEX][hapmap];0.88[TSI][hapmap];0.86[EUR][1000 genomes]
rs1487139	0.84[CEU][hapmap]
rs1840969	0.84[CEU][hapmap]
rs189022	0.95[CHB][hapmap];0.86[CHD][hapmap];0.81[JPT][hapmap]
rs333495	0.84[CEU][hapmap]
rs416551	0.84[CEU][hapmap]
rs4680943	1.00[CEU][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs73114798	0.81[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1010804	chr3:78739648-79087470	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv533681	chr3:78750924-79017336	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv834744	chr3:78911545-79076470	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv877020	chr3:78913203-78975982	Weak transcription Enhancers Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv470672	chr3:78913203-78985805	Weak transcription Enhancers Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv590734	chr3:78915205-78985805	Enhancers Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv590735	chr3:78922852-78977507	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:78916200-78923000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:78917400-78927000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr3:78917600-78924400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr3:78918000-78924800	Weak transcription	NHDF-Ad	bronchial
5	chr3:78918000-78928800	Weak transcription	Rectal Smooth Muscle	rectum
6	chr3:78918000-78929800	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr3:78918800-78927400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr3:78919200-78923400	Enhancers	HUES48 Cell Line	embryonic stem cell
9	chr3:78919400-78923000	Enhancers	HUES64 Cell Line	embryonic stem cell
10	chr3:78919800-78923000	Enhancers	iPS-15b Cell Line	embryonic stem cell
11	chr3:78920000-78924800	Weak transcription	Brain Hippocampus Middle	brain
12	chr3:78920200-78923000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr3:78920400-78923200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr3:78920400-78927000	Weak transcription	Aorta	Aorta
15	chr3:78920800-78924600	Weak transcription	Osteobl	bone
16	chr3:78920800-78927000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr3:78921200-78923200	Enhancers	iPS-20b Cell Line	embryonic stem cell
18	chr3:78921400-78923000	Active TSS	A549	lung
19	chr3:78921400-78923200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr3:78921400-78924400	Weak transcription	Muscle Satellite Cultured Cells	--
21	chr3:78921600-78924400	Weak transcription	Brain Cingulate Gyrus	brain
22	chr3:78921600-78924800	Weak transcription	Brain Substantia Nigra	brain
23	chr3:78921600-78927000	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr3:78921600-78936000	Weak transcription	HSMM	muscle
25	chr3:78921600-78936600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr3:78921800-78923200	Enhancers	iPS-18 Cell Line	embryonic stem cell
27	chr3:78921800-78927000	Weak transcription	H1 Cell Line	embryonic stem cell
28	chr3:78921800-78928400	Weak transcription	Brain Germinal Matrix	brain
29	chr3:78921800-78928600	Weak transcription	Fetal Lung	lung
30	chr3:78922000-78923400	Enhancers	HepG2	liver
31	chr3:78922000-78924600	Weak transcription	Brain Anterior Caudate	brain
32	chr3:78922000-78927000	Weak transcription	NH-A	brain
33	chr3:78922000-78929800	Weak transcription	Colon Smooth Muscle	Colon
34	chr3:78922200-78923000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr3:78922200-78926800	Weak transcription	HUES6 Cell Line	embryonic stem cell
36	chr3:78922600-78923000	Enhancers	GM12878-XiMat	blood
37	chr3:78922600-78924200	Weak transcription	HUVEC	blood vessel
38	chr3:78922600-78926000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
39	chr3:78922600-78928600	Weak transcription	Brain Angular Gyrus	brain
40	chr3:78922600-78944000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
41	chr3:78922800-78923400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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