Variant report

Variant	rs745979
Chromosome Location	chr20:24476416-24476417
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C20orf3-3	chr20:24476057-24476435	ENSG00000228539

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs11908507	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs1326304	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6036815	0.83[EUR][1000 genomes]
rs6049719	0.83[EUR][1000 genomes]
rs6049723	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs6049724	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs6049726	1.00[CEU][hapmap];1.00[GIH][hapmap];0.81[MEX][hapmap];0.83[EUR][1000 genomes]
rs6049728	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[EUR][1000 genomes]
rs6049739	1.00[CHB][hapmap];1.00[CHD][hapmap];0.81[MEX][hapmap];1.00[ASN][1000 genomes]
rs6106889	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs6114736	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs7267072	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73901847	0.83[EUR][1000 genomes];0.91[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	nsv9793	chr20:23939613-24734850	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv1058146	chr20:24210196-24531087	Bivalent Enhancer Weak transcription Flanking Active TSS Bivalent/Poised TSS Enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv833946	chr20:24320375-24490702	Enhancers Bivalent Enhancer Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:24460800-24483800	Weak transcription	Aorta	Aorta
2	chr20:24471200-24493600	Weak transcription	Fetal Brain Female	brain
3	chr20:24472800-24478400	Weak transcription	Fetal Lung	lung
4	chr20:24473000-24478600	Weak transcription	Brain Substantia Nigra	brain
5	chr20:24473000-24482600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr20:24473200-24478200	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr20:24473200-24480200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr20:24473200-24482000	Weak transcription	Brain Anterior Caudate	brain
9	chr20:24473200-24482400	Weak transcription	Right Atrium	heart
10	chr20:24473400-24480000	Weak transcription	Brain Hippocampus Middle	brain
11	chr20:24473600-24478000	Weak transcription	Left Ventricle	heart
12	chr20:24473600-24482400	Weak transcription	Right Ventricle	heart
13	chr20:24473600-24483000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr20:24474200-24480200	Weak transcription	Brain Inferior Temporal Lobe	brain
15	chr20:24474200-24480800	Weak transcription	H9 Cell Line	embryonic stem cell
16	chr20:24474200-24481200	Weak transcription	Fetal Brain Male	brain
17	chr20:24474400-24478400	Weak transcription	Brain Angular Gyrus	brain
18	chr20:24474600-24484800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
19	chr20:24474800-24477200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
20	chr20:24475600-24478600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
21	chr20:24475600-24495600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
22	chr20:24475800-24477800	Weak transcription	Fetal Heart	heart
23	chr20:24476200-24480000	Weak transcription	Brain Cingulate Gyrus	brain
24	chr20:24476200-24482600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr20:24476400-24478400	Weak transcription	NH-A	brain
26	chr20:24476400-24482800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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