Variant report

Variant	rs12025473
Chromosome Location	chr1:73448345-73448346
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FPGT-11	chr1:73448295-73448360	NONHSAT003922

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

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs10493513	0.85[EUR][1000 genomes]
rs10493514	0.85[EUR][1000 genomes]
rs10889999	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11210084	0.82[ASN][1000 genomes]
rs11210085	0.82[ASN][1000 genomes]
rs11210099	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11210100	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11210103	0.88[AFR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11210107	0.86[ASN][1000 genomes]
rs11210114	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11210119	0.87[ASN][1000 genomes]
rs11210127	0.80[ASN][1000 genomes]
rs11577664	0.86[EUR][1000 genomes]
rs11803263	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12033354	0.82[ASN][1000 genomes]
rs12042865	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12044276	0.90[AFR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12122377	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12137361	0.86[EUR][1000 genomes]
rs12567284	0.86[ASN][1000 genomes]
rs12724056	0.85[EUR][1000 genomes]
rs12724536	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12729632	0.85[ASN][1000 genomes]
rs12745861	0.85[EUR][1000 genomes]
rs12748124	0.85[ASN][1000 genomes]
rs1464952	0.82[ASN][1000 genomes]
rs35531383	0.88[EUR][1000 genomes]
rs36093886	0.85[ASN][1000 genomes]
rs4233093	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4269731	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4328030	0.87[EUR][1000 genomes]
rs4344272	0.88[EUR][1000 genomes]
rs4409593	0.88[EUR][1000 genomes]
rs4456055	0.88[EUR][1000 genomes]
rs4559446	0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4579707	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4589057	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4649972	0.85[EUR][1000 genomes]
rs4649975	0.87[ASN][1000 genomes]
rs61772284	0.86[EUR][1000 genomes]
rs61772326	0.87[EUR][1000 genomes]
rs6424507	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6424508	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6657069	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6667006	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6667756	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs66820357	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6682845	0.85[EUR][1000 genomes]
rs6689491	0.80[ASN][1000 genomes]
rs6693460	0.88[ASN][1000 genomes]
rs6694433	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6696689	0.82[ASN][1000 genomes]
rs7516446	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7516673	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7519995	0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7525662	0.87[ASN][1000 genomes]
rs7526372	0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7528312	0.87[ASN][1000 genomes]
rs7528791	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7536364	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7540296	0.86[EUR][1000 genomes]
rs7540420	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7552256	0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7554291	0.82[ASN][1000 genomes]
rs9919151	0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9970090	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1012319	chr1:73337418-73547086	Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv945881	chr1:73446047-73452705	Active TSS Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS	lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:73443000-73451200	Active TSS	iPS-15b Cell Line	embryonic stem cell
2	chr1:73443000-73451800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr1:73446000-73451200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr1:73446200-73448600	Weak transcription	HUES48 Cell Line	embryonic stem cell
5	chr1:73446200-73448600	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr1:73446600-73450400	Transcr. at gene 5' and 3'	HUES6 Cell Line	embryonic stem cell
7	chr1:73447800-73448800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chr1:73448000-73448600	Active TSS	ES-I3 Cell Line	embryonic stem cell

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