Variant report

Variant	rs4974230
Chromosome Location	chr3:60780913-60780914
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs11130782	0.83[CHB][hapmap]
rs11710207	0.82[CHB][hapmap]
rs12185984	0.84[CHB][hapmap]
rs13065371	0.83[CHB][hapmap]
rs13099811	0.83[CHB][hapmap]
rs1569346	0.83[CHB][hapmap]
rs2064012	0.92[CEU][hapmap];0.83[CHB][hapmap];1.00[JPT][hapmap]
rs2142294	0.84[CHB][hapmap]
rs2142296	0.88[CEU][hapmap];0.83[CHB][hapmap];0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2205348	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2205352	0.92[CEU][hapmap];0.89[CHB][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs2205353	0.96[CEU][hapmap];0.82[CHB][hapmap];0.84[JPT][hapmap];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2251704	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2251707	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2364293	0.81[ASN][1000 genomes]
rs2594159	0.85[CEU][hapmap];0.84[CHB][hapmap];0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2594160	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2594162	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2594163	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2594164	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2594165	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2594167	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2594168	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2594169	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2594170	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2594171	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2736731	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2736734	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2736736	0.88[CEU][hapmap];0.83[CHB][hapmap];0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2736737	0.84[JPT][hapmap]
rs4974227	0.83[CHB][hapmap]
rs60858106	0.80[ASN][1000 genomes]
rs6762120	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6762122	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6764320	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6771383	0.83[CHB][hapmap]
rs6786213	0.80[CEU][hapmap];0.88[CHB][hapmap]
rs6787897	0.89[CEU][hapmap];0.83[CHB][hapmap]
rs6797903	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs926139	0.96[CEU][hapmap];0.81[ASN][1000 genomes]
rs9754707	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9823013	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9842407	0.83[CHB][hapmap]
rs9878766	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9878801	0.83[CHB][hapmap];0.83[ASN][1000 genomes]
rs9882068	0.89[CEU][hapmap];0.83[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529602	chr3:60088353-60830769	Enhancers Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv998815	chr3:60495872-60830769	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv999828	chr3:60537384-60785274	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 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	chr3:60767000-60782800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr3:60778800-60787800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain

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