Variant report

Variant	rs62150228
Chromosome Location	chr20:23575699-23575700
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:23575532..23578369-chr20:23585910..23588143,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000173335	Chromatin interaction

Extended variants
information (count: 143 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:141)

rs_ID	r²[population]
rs1013954	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10181331	0.81[ASN][1000 genomes]
rs10191782	0.84[ASN][1000 genomes]
rs10194236	0.80[ASN][1000 genomes]
rs10200630	0.83[ASN][1000 genomes]
rs1023583	0.89[EUR][1000 genomes]
rs10490338	0.83[ASN][1000 genomes]
rs10779927	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10779928	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10865160	0.82[ASN][1000 genomes]
rs10865162	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11124713	0.88[ASN][1000 genomes]
rs11124723	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11124724	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11124726	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11124727	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11683512	0.89[EUR][1000 genomes]
rs11685420	0.88[ASN][1000 genomes]
rs11888334	0.82[ASN][1000 genomes]
rs11889689	0.82[ASN][1000 genomes]
rs11893312	0.82[ASN][1000 genomes]
rs11902593	0.82[ASN][1000 genomes]
rs12463415	0.92[ASN][1000 genomes]
rs12474732	0.92[ASN][1000 genomes]
rs12622032	0.92[ASN][1000 genomes]
rs12712668	0.82[ASN][1000 genomes]
rs12712669	0.82[ASN][1000 genomes]
rs12988439	0.89[ASN][1000 genomes]
rs13015010	0.92[ASN][1000 genomes]
rs13015269	0.92[ASN][1000 genomes]
rs13390026	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13430953	0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1476989	0.84[ASN][1000 genomes]
rs1541561	0.82[ASN][1000 genomes]
rs1541565	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1541566	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1541567	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1548876	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17024711	0.88[ASN][1000 genomes]
rs17024746	0.93[ASN][1000 genomes]
rs17024767	0.84[ASN][1000 genomes]
rs17024775	0.83[ASN][1000 genomes]
rs17024784	0.83[ASN][1000 genomes]
rs17024801	0.88[ASN][1000 genomes]
rs17024804	0.88[ASN][1000 genomes]
rs17024807	0.88[ASN][1000 genomes]
rs17024825	0.88[ASN][1000 genomes]
rs17024827	0.88[ASN][1000 genomes]
rs17024830	0.88[ASN][1000 genomes]
rs17024833	0.87[ASN][1000 genomes]
rs1861250	0.93[ASN][1000 genomes]
rs1861251	0.93[ASN][1000 genomes]
rs2058636	0.82[ASN][1000 genomes]
rs2058637	0.83[ASN][1000 genomes]
rs2058638	0.83[ASN][1000 genomes]
rs2058639	0.82[ASN][1000 genomes]
rs2080298	0.82[ASN][1000 genomes]
rs2215967	0.96[ASN][1000 genomes]
rs2215974	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2373705	0.82[ASN][1000 genomes]
rs2373708	0.82[ASN][1000 genomes]
rs2373709	0.82[ASN][1000 genomes]
rs2373710	0.91[ASN][1000 genomes]
rs2373780	0.87[EUR][1000 genomes]
rs2373781	0.89[EUR][1000 genomes]
rs2373784	0.89[EUR][1000 genomes]
rs28491259	0.80[ASN][1000 genomes]
rs28649544	0.86[ASN][1000 genomes]
rs2888639	0.82[ASN][1000 genomes]
rs36149895	0.84[ASN][1000 genomes]
rs4321345	0.93[ASN][1000 genomes]
rs4335994	0.87[EUR][1000 genomes]
rs4519500	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4538248	0.88[ASN][1000 genomes]
rs4952411	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs56118530	0.82[ASN][1000 genomes]
rs57677588	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs58224754	0.88[ASN][1000 genomes]
rs58570175	0.81[ASN][1000 genomes]
rs58969983	0.82[ASN][1000 genomes]
rs59034193	0.82[ASN][1000 genomes]
rs59073176	0.88[ASN][1000 genomes]
rs59110768	0.91[ASN][1000 genomes]
rs59957738	0.81[ASN][1000 genomes]
rs59992409	0.82[ASN][1000 genomes]
rs60613668	0.81[ASN][1000 genomes]
rs61023112	0.83[ASN][1000 genomes]
rs61481161	0.95[ASN][1000 genomes]
rs61604673	0.93[ASN][1000 genomes]
rs62136383	0.88[ASN][1000 genomes]
rs62137255	0.84[ASN][1000 genomes]
rs62148691	0.89[EUR][1000 genomes]
rs62148694	0.81[ASN][1000 genomes]
rs62150227	0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62150229	0.80[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs62150232	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62150235	0.93[ASN][1000 genomes]
rs62151491	0.82[ASN][1000 genomes]
rs62151493	0.87[ASN][1000 genomes]
rs62151494	0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62151495	0.88[ASN][1000 genomes]
rs62151497	0.86[ASN][1000 genomes]
rs6544273	0.81[ASN][1000 genomes]
rs6544274	0.82[ASN][1000 genomes]
rs6544275	0.81[ASN][1000 genomes]
rs6544277	0.81[ASN][1000 genomes]
rs6544280	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6544282	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6544296	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6759636	0.89[EUR][1000 genomes]
rs6760978	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs72940717	0.88[ASN][1000 genomes]
rs741270	0.91[ASN][1000 genomes]
rs7557819	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7558203	0.85[ASN][1000 genomes]
rs7564200	0.88[ASN][1000 genomes]
rs7564447	0.90[ASN][1000 genomes]
rs7572755	0.90[ASN][1000 genomes]
rs7584288	0.84[ASN][1000 genomes]
rs7590992	0.88[ASN][1000 genomes]
rs7591069	0.88[ASN][1000 genomes]
rs7591263	0.88[ASN][1000 genomes]
rs759353	0.91[ASN][1000 genomes]
rs759356	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs759357	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs759358	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7597173	0.81[ASN][1000 genomes]
rs7599493	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7600580	0.98[ASN][1000 genomes]
rs7607156	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7607499	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs768271	0.88[ASN][1000 genomes]
rs8179517	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs917970	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs917971	0.97[ASN][1000 genomes]
rs917974	0.88[ASN][1000 genomes]
rs957117	0.91[ASN][1000 genomes]
rs9679662	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9749783	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs985455	0.91[ASN][1000 genomes]
rs9973551	0.89[EUR][1000 genomes];0.86[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	nsv912820	chr20:23406519-23578148	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv491876	chr20:23436633-24031374	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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