Variant report

Variant	rs736262
Chromosome Location	chr3:17947362-17947363
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:17946551..17949256-chr3:17951273..17952887,2	MCF-7	breast:

Extended variants
information (count: 29 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs1019848	0.89[GIH][hapmap];0.83[MEX][hapmap];0.84[MKK][hapmap]
rs1025392	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1346885	0.81[AMR][1000 genomes]
rs1346886	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs1367521	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1430884	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1430887	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1430891	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1529599	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1864591	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2116097	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2337385	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2337386	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4128378	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4908944	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4908989	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6577601	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6784611	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6793262	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.99[MKK][hapmap];0.93[TSI][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6804191	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6807199	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7374020	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7431124	1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap]
rs7616329	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7644630	1.00[JPT][hapmap]
rs9814726	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9878816	1.00[JPT][hapmap]
rs9880185	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][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	nsv999594	chr3:17690416-17982318	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs736262	C3orf20	cis	parietal	SCAN

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:17936800-17950200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr3:17942800-17953800	Enhancers	Dnd41	blood
3	chr3:17943200-17947400	Weak transcription	Primary monocytes fromperipheralblood	blood
4	chr3:17943800-17947600	Weak transcription	Monocytes-CD14+_RO01746	blood
5	chr3:17944800-17953600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr3:17946400-17948400	Enhancers	Primary hematopoietic stem cells short term culture	blood
7	chr3:17946400-17953800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr3:17946600-17948600	Enhancers	Primary hematopoietic stem cells	blood
9	chr3:17947000-17948200	Enhancers	Thymus	Thymus
10	chr3:17947000-17948400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
11	chr3:17947000-17948400	Enhancers	Fetal Thymus	thymus

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