Variant report

Variant	rs17560386
Chromosome Location	chr3:88675405-88675406
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 70 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs10511138	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11128053	0.89[ASN][1000 genomes]
rs12486895	0.88[ASN][1000 genomes]
rs12487385	0.88[ASN][1000 genomes]
rs12487560	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12487623	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12488032	0.88[ASN][1000 genomes]
rs12488286	0.89[ASN][1000 genomes]
rs12488396	0.89[ASN][1000 genomes]
rs12489078	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12490357	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12491633	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12491766	0.89[ASN][1000 genomes]
rs12494001	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12495478	0.82[ASN][1000 genomes]
rs12495558	0.88[ASN][1000 genomes]
rs12629360	0.89[ASN][1000 genomes]
rs12630722	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12633026	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12635866	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12637931	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12639499	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13073581	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13321865	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17559821	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1979751	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2132362	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28447483	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28784899	0.85[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4429640	1.00[YRI][hapmap]
rs55694746	0.88[ASN][1000 genomes]
rs56076642	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs56076980	0.88[ASN][1000 genomes]
rs56302725	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs56359806	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs58379062	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs59752267	0.89[ASN][1000 genomes]
rs59757044	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs60418303	0.89[ASN][1000 genomes]
rs60574566	0.89[ASN][1000 genomes]
rs61176217	0.89[ASN][1000 genomes]
rs6551350	0.89[ASN][1000 genomes]
rs67260046	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs67616120	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6776183	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6777020	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6778723	0.88[ASN][1000 genomes]
rs6794212	0.89[ASN][1000 genomes]
rs6799848	0.89[ASN][1000 genomes]
rs6802531	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73134314	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73134400	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73136414	0.90[AFR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73136419	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73146499	0.88[ASN][1000 genomes]
rs73150566	0.91[EUR][1000 genomes]
rs73150570	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs73150583	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs73152336	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7430981	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7431312	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7431370	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7432988	0.89[ASN][1000 genomes]
rs7433029	0.89[ASN][1000 genomes]
rs7637716	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7652836	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9824652	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9856843	0.88[EUR][1000 genomes];0.89[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	nsv916330	chr3:88083580-88884125	Genic enhancers Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	nsv1014703	chr3:88623532-88733631	Enhancers Weak transcription ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA	1 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	chr3:88675400-88676200	Enhancers	Cortex derived primary cultured neurospheres	brain

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