Variant report

Variant	rs7266935
Chromosome Location	chr20:53142656-53142657
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr20:53127125..53128837-chr20:53140416..53143219,2	MCF-7	breast:
2	chr20:53134328..53136096-chr20:53140905..53143136,2	MCF-7	breast:
3	chr20:53140576..53144414-chr20:53148249..53150515,4	MCF-7	breast:
4	chr20:53139463..53141004-chr20:53141568..53144031,2	MCF-7	breast:

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs28506968	1.00[AMR][1000 genomes]
rs28523944	1.00[AMR][1000 genomes]
rs28646056	1.00[AMR][1000 genomes]
rs28667935	1.00[AMR][1000 genomes]
rs55916284	1.00[AMR][1000 genomes]
rs56003098	0.83[AMR][1000 genomes]
rs56150515	0.83[AMR][1000 genomes]
rs56158072	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57628263	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57722500	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59393556	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6091910	1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6091911	1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6091915	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6091916	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6091917	1.00[AMR][1000 genomes]
rs6091918	1.00[AMR][1000 genomes]
rs6091920	1.00[AMR][1000 genomes]
rs6098037	1.00[AMR][1000 genomes]
rs6098038	1.00[AMR][1000 genomes]
rs6098040	0.83[AMR][1000 genomes]
rs6098048	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6098049	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6098050	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6098051	0.89[YRI][hapmap];0.83[AMR][1000 genomes]
rs6098052	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6098053	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6098054	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6098055	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6098056	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6098057	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6098058	1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6098059	1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6098060	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6098069	1.00[AMR][1000 genomes]
rs6098070	1.00[AMR][1000 genomes]
rs6098071	1.00[AMR][1000 genomes]
rs6098072	1.00[AMR][1000 genomes]
rs6098073	1.00[AMR][1000 genomes]
rs6098075	1.00[AMR][1000 genomes]
rs6098076	0.82[YRI][hapmap];1.00[AMR][1000 genomes]
rs6098077	1.00[AMR][1000 genomes]
rs6098078	0.82[YRI][hapmap];1.00[AMR][1000 genomes]
rs6098079	0.82[YRI][hapmap];1.00[AMR][1000 genomes]
rs6098080	1.00[AMR][1000 genomes]
rs6098081	0.82[YRI][hapmap];1.00[AMR][1000 genomes]
rs6098083	1.00[AMR][1000 genomes]
rs7262672	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7265441	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7265504	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7267758	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs7270950	0.83[AMR][1000 genomes]
rs7360669	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7362510	1.00[AMR][1000 genomes]
rs73911920	1.00[AMR][1000 genomes]
rs73911922	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73911933	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73911934	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73911936	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73911939	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73911941	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73911943	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73911954	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73911956	1.00[AMR][1000 genomes]
rs73911957	1.00[AMR][1000 genomes]
rs8116290	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8116343	0.89[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][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	nsv586224	chr20:52474850-53279490	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	338 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:53120800-53148800	Weak transcription	Left Ventricle	heart
2	chr20:53128600-53142800	Weak transcription	Psoas Muscle	Psoas
3	chr20:53129600-53149200	Weak transcription	Aorta	Aorta
4	chr20:53140400-53143000	Enhancers	Skeletal Muscle Male	skeletal muscle
5	chr20:53140400-53143200	Enhancers	Fetal Brain Female	brain
6	chr20:53140400-53144000	Enhancers	Cortex derived primary cultured neurospheres	brain
7	chr20:53140600-53143200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr20:53140600-53143600	Enhancers	iPS-20b Cell Line	embryonic stem cell
9	chr20:53140600-53143800	Enhancers	Fetal Brain Male	brain
10	chr20:53140800-53142800	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr20:53140800-53143000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
12	chr20:53140800-53144200	Enhancers	Breast Myoepithelial Primary Cells	Breast
13	chr20:53141000-53142800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
14	chr20:53141400-53143000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr20:53141400-53143200	Enhancers	Fetal Lung	lung
16	chr20:53141400-53144200	Enhancers	Skeletal Muscle Female	skeletal muscle
17	chr20:53141600-53142800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr20:53141600-53143000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr20:53141800-53142800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr20:53142000-53143600	Enhancers	HUES48 Cell Line	embryonic stem cell
21	chr20:53142000-53143600	Enhancers	HUES64 Cell Line	embryonic stem cell
22	chr20:53142000-53144200	Enhancers	iPS-18 Cell Line	embryonic stem cell
23	chr20:53142200-53143000	Enhancers	NHLF	lung
24	chr20:53142200-53143400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr20:53142200-53143800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr20:53142400-53142800	Weak transcription	Brain Germinal Matrix	brain
27	chr20:53142400-53143000	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr20:53142400-53143000	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr20:53142400-53143000	Enhancers	Adipose Nuclei	Adipose
30	chr20:53142400-53143200	Enhancers	H1 Cell Line	embryonic stem cell
31	chr20:53142400-53143200	Enhancers	HUES6 Cell Line	embryonic stem cell
32	chr20:53142400-53143200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr20:53142400-53143200	Enhancers	HUVEC	blood vessel
34	chr20:53142400-53143200	Enhancers	NH-A	brain
35	chr20:53142400-53143400	Enhancers	Osteobl	bone
36	chr20:53142400-53143800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
37	chr20:53142400-53144000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr20:53142600-53143000	Enhancers	Ovary	ovary

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