Variant report

Variant	rs12079027
Chromosome Location	chr1:173624724-173624725
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 72 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs10127525	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10158034	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10912652	1.00[EUR][1000 genomes]
rs10912653	1.00[EUR][1000 genomes]
rs10912654	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10912655	1.00[EUR][1000 genomes]
rs10912657	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10912658	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10912659	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11484566	1.00[EUR][1000 genomes]
rs12058218	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs12059066	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12059068	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12059157	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12065033	0.80[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs12066066	1.00[EUR][1000 genomes]
rs12066494	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12067795	1.00[EUR][1000 genomes]
rs12068135	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12074044	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs12074150	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs12075335	0.95[AMR][1000 genomes]
rs12075679	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12076223	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12079161	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12081220	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12083635	0.95[AMR][1000 genomes]
rs12084685	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12087885	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12087918	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12089398	1.00[EUR][1000 genomes]
rs12091486	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12093198	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12094752	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12096136	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12164490	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12164630	0.84[AMR][1000 genomes]
rs13375322	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1461016	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1461017	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1461018	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16846278	1.00[EUR][1000 genomes]
rs16846288	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1903410	0.95[AMR][1000 genomes]
rs1903411	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2013387	1.00[EUR][1000 genomes]
rs28767926	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4652225	1.00[EUR][1000 genomes]
rs56036053	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56157228	0.89[AMR][1000 genomes]
rs57609710	1.00[EUR][1000 genomes]
rs58045923	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59054917	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61554547	1.00[EUR][1000 genomes]
rs6425250	1.00[EUR][1000 genomes]
rs6666475	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6668650	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6670574	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs6675955	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6677292	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6678784	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6682615	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6686370	1.00[EUR][1000 genomes]
rs6690869	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6700712	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73033123	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73033131	0.95[AMR][1000 genomes]
rs7518601	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7537369	1.00[EUR][1000 genomes]
rs9803675	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9803677	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][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	nsv1012384	chr1:173614816-173974426	Strong transcription Weak transcription Active TSS Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	294 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:173607800-173624800	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr1:173609000-173625000	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr1:173613600-173629800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr1:173623600-173637400	Weak transcription	Brain Anterior Caudate	brain
5	chr1:173624000-173625000	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr1:173624400-173625600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr1:173624600-173626400	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain

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