Variant report

Variant	rs2601020
Chromosome Location	chr15:49997237-49997238
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 117 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:113)

rs_ID	r²[population]
rs10152754	0.82[CEU][hapmap];0.91[JPT][hapmap];0.84[EUR][1000 genomes]
rs10152787	0.89[EUR][1000 genomes]
rs10162802	0.88[EUR][1000 genomes]
rs10467920	0.88[EUR][1000 genomes]
rs1048348	0.86[CEU][hapmap];0.91[JPT][hapmap];0.84[EUR][1000 genomes]
rs1057636	0.82[EUR][1000 genomes]
rs1057638	0.85[EUR][1000 genomes]
rs11070696	0.86[EUR][1000 genomes]
rs11070713	0.84[EUR][1000 genomes]
rs11630629	0.84[EUR][1000 genomes]
rs11631904	0.88[EUR][1000 genomes]
rs11632003	0.86[EUR][1000 genomes]
rs11632674	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes]
rs11634751	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes]
rs11636378	0.95[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes]
rs11857320	0.86[CEU][hapmap];0.91[JPT][hapmap]
rs12185128	0.88[EUR][1000 genomes]
rs12437460	0.85[EUR][1000 genomes]
rs12437899	0.88[EUR][1000 genomes]
rs12438444	0.85[EUR][1000 genomes]
rs12440028	0.80[EUR][1000 genomes]
rs12440099	0.88[EUR][1000 genomes]
rs12441004	0.84[EUR][1000 genomes]
rs12441304	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes]
rs12443123	0.86[EUR][1000 genomes]
rs12905627	0.85[EUR][1000 genomes]
rs1395902	0.88[EUR][1000 genomes]
rs1532955	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap]
rs1588130	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap]
rs1588131	0.88[EUR][1000 genomes]
rs1588132	0.90[CEU][hapmap];0.88[EUR][1000 genomes]
rs1605477	0.89[EUR][1000 genomes]
rs1605478	0.89[EUR][1000 genomes]
rs1605479	0.89[EUR][1000 genomes]
rs1605481	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap]
rs1605484	0.81[EUR][1000 genomes]
rs17482113	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1848289	0.88[EUR][1000 genomes]
rs1857992	0.90[EUR][1000 genomes]
rs1874612	0.88[EUR][1000 genomes]
rs1874615	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap]
rs1911614	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes]
rs2007474	0.86[EUR][1000 genomes]
rs2413952	0.80[EUR][1000 genomes]
rs2413953	0.88[EUR][1000 genomes]
rs2413954	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap]
rs28460471	0.85[EUR][1000 genomes]
rs28562087	0.84[EUR][1000 genomes]
rs28788326	0.88[EUR][1000 genomes]
rs28815194	0.86[EUR][1000 genomes]
rs28822970	0.89[EUR][1000 genomes]
rs28836194	0.86[EUR][1000 genomes]
rs28841970	0.86[EUR][1000 genomes]
rs28842346	0.88[EUR][1000 genomes]
rs28871940	0.88[EUR][1000 genomes]
rs2899448	0.88[EUR][1000 genomes]
rs4303431	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs4350524	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap]
rs4775814	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap]
rs4775815	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap]
rs4775817	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs553439	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs55993510	0.90[EUR][1000 genomes]
rs56094557	0.88[EUR][1000 genomes]
rs56335122	0.89[EUR][1000 genomes]
rs56692783	0.88[EUR][1000 genomes]
rs57421305	0.90[EUR][1000 genomes]
rs57980364	0.88[EUR][1000 genomes]
rs57997677	0.88[EUR][1000 genomes]
rs58284238	0.85[EUR][1000 genomes]
rs60728602	0.88[EUR][1000 genomes]
rs62009983	0.88[EUR][1000 genomes]
rs62009985	0.86[EUR][1000 genomes]
rs62021583	0.89[EUR][1000 genomes]
rs62021584	0.89[EUR][1000 genomes]
rs62021585	0.89[EUR][1000 genomes]
rs62021586	0.88[EUR][1000 genomes]
rs62021587	0.88[EUR][1000 genomes]
rs6493373	0.84[EUR][1000 genomes]
rs6493376	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs67428220	0.88[EUR][1000 genomes]
rs67916122	0.88[EUR][1000 genomes]
rs68095295	0.86[EUR][1000 genomes]
rs692008	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7162351	0.88[EUR][1000 genomes]
rs7162792	0.88[EUR][1000 genomes]
rs7162800	0.88[EUR][1000 genomes]
rs7166202	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes]
rs7167429	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes]
rs7168031	0.88[EUR][1000 genomes]
rs7176350	0.88[EUR][1000 genomes]
rs7177247	0.86[EUR][1000 genomes]
rs7178143	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap]
rs7178194	0.88[EUR][1000 genomes]
rs7178468	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap]
rs7181916	0.88[EUR][1000 genomes]
rs7182072	0.88[EUR][1000 genomes]
rs7183313	0.88[EUR][1000 genomes]
rs731051	0.86[CEU][hapmap];0.92[JPT][hapmap];0.83[EUR][1000 genomes]
rs733097	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes]
rs8027730	0.91[JPT][hapmap]
rs8029561	0.88[EUR][1000 genomes]
rs8029743	0.86[EUR][1000 genomes]
rs8030761	0.89[EUR][1000 genomes]
rs8034202	0.88[EUR][1000 genomes]
rs8035468	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes]
rs8036139	0.88[EUR][1000 genomes]
rs8041493	0.88[EUR][1000 genomes]
rs906419	0.86[EUR][1000 genomes]
rs925103	0.81[EUR][1000 genomes]
rs962710	0.81[EUR][1000 genomes]
rs9635335	0.84[EUR][1000 genomes]
rs965134	1.00[CEU][hapmap];0.91[CHB][hapmap];0.96[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv431388	chr15:49835663-49997483	Flanking Active TSS Strong transcription ZNF genes & repeats Weak transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
2	nsv1044277	chr15:49921547-50702386	Enhancers Active TSS Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
3	nsv542380	chr15:49921547-50702386	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
4	nsv569393	chr15:49977687-50012256	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:49996200-50001600	Weak transcription	ES-I3 Cell Line	embryonic stem cell

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