Variant report

Variant	rs2617398
Chromosome Location	chr2:168214907-168214908
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 110 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:108)

rs_ID	r²[population]
rs10177399	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10189334	0.80[EUR][1000 genomes]
rs10192896	0.81[EUR][1000 genomes]
rs10803822	0.80[EUR][1000 genomes]
rs10803824	0.89[EUR][1000 genomes]
rs10930268	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10930270	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12104569	0.83[EUR][1000 genomes]
rs12620530	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12692859	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12995201	0.90[EUR][1000 genomes]
rs1357605	0.81[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1357606	0.90[EUR][1000 genomes]
rs1382318	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1403893	0.81[ASN][1000 genomes]
rs1403895	0.90[EUR][1000 genomes]
rs1403897	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1403898	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1403899	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1403900	0.85[EUR][1000 genomes]
rs1403901	0.85[EUR][1000 genomes]
rs1478384	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1478385	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1523882	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1523883	0.98[AFR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1523885	0.85[ASN][1000 genomes]
rs1523888	0.90[EUR][1000 genomes]
rs1540820	0.80[EUR][1000 genomes]
rs1540821	0.82[EUR][1000 genomes]
rs1568747	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1581484	0.85[EUR][1000 genomes]
rs1581485	0.85[EUR][1000 genomes]
rs1589728	0.83[EUR][1000 genomes]
rs1608519	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1608520	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16853282	0.81[CEU][hapmap]
rs16853285	0.81[CEU][hapmap]
rs16853305	0.81[CEU][hapmap]
rs16853309	0.81[CEU][hapmap]
rs16853331	0.81[CEU][hapmap]
rs1851758	0.88[EUR][1000 genomes]
rs1851759	0.85[EUR][1000 genomes]
rs1851760	0.85[EUR][1000 genomes]
rs1916746	0.85[EUR][1000 genomes]
rs1916748	1.00[EUR][1000 genomes]
rs1916749	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1916750	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1916751	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1996949	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2030657	0.90[EUR][1000 genomes]
rs2103098	0.85[EUR][1000 genomes]
rs2140501	0.83[EUR][1000 genomes]
rs2177441	0.83[EUR][1000 genomes]
rs2177442	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2204280	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2222504	0.90[EUR][1000 genomes]
rs2250619	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2617365	0.90[EUR][1000 genomes]
rs2617368	0.85[EUR][1000 genomes]
rs2617383	0.90[EUR][1000 genomes]
rs2617386	1.00[EUR][1000 genomes]
rs2617388	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2617391	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2617393	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2617394	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2617399	1.00[EUR][1000 genomes]
rs2617400	0.90[EUR][1000 genomes]
rs2689819	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2689820	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2689823	0.85[EUR][1000 genomes]
rs2689825	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2689826	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2689827	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2689828	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2689829	1.00[AFR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2689832	1.00[EUR][1000 genomes]
rs2689833	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2689840	0.81[EUR][1000 genomes]
rs2689842	0.85[EUR][1000 genomes]
rs2927600	0.83[EUR][1000 genomes]
rs2949009	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2949010	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3749004	0.81[CEU][hapmap]
rs4130760	0.81[ASN][1000 genomes]
rs4667532	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4667949	0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56875650	0.83[EUR][1000 genomes]
rs57979918	0.83[EUR][1000 genomes]
rs59534092	0.81[ASN][1000 genomes]
rs6722016	0.83[EUR][1000 genomes]
rs6726067	0.85[EUR][1000 genomes]
rs6731777	0.83[EUR][1000 genomes]
rs6754396	0.83[EUR][1000 genomes]
rs6756322	0.90[EUR][1000 genomes]
rs73972270	0.81[ASN][1000 genomes]
rs73972274	0.81[ASN][1000 genomes]
rs7576187	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7581190	0.81[CEU][hapmap]
rs7593641	0.85[EUR][1000 genomes]
rs7594125	0.86[EUR][1000 genomes]
rs7607246	0.81[CEU][hapmap]
rs899185	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs922537	0.81[CEU][hapmap]
rs9287881	0.80[EUR][1000 genomes]
rs940314	0.90[EUR][1000 genomes]
rs940315	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9751663	0.83[EUR][1000 genomes]
rs9751666	0.85[EUR][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	nsv875378	chr2:168107491-168297961	Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
2	esv3364733	chr2:168109919-168302141	Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:168199600-168221400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr2:168204600-168231600	Weak transcription	iPS-20b Cell Line	embryonic stem cell

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