Variant report

Variant	rs1357618
Chromosome Location	chr6:69480628-69480629
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:69475601..69477760-chr6:69479099..69481855,2	K562	blood:
2	chr6:69472327..69475305-chr6:69480435..69482452,2	K562	blood:
3	chr6:69479313..69482227-chr6:69485193..69487773,3	K562	blood:
4	chr6:69479313..69481691-chr6:69485193..69486882,2	K562	blood:

Extended variants
information (count: 73 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs1015152	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10945140	0.95[CEU][hapmap];1.00[GIH][hapmap];0.92[JPT][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.84[EUR][1000 genomes]
rs11965496	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1357619	0.92[JPT][hapmap];0.88[ASN][1000 genomes]
rs1403927	0.90[CHD][hapmap];0.92[JPT][hapmap];0.88[ASN][1000 genomes]
rs1523937	1.00[CEU][hapmap];0.86[CHD][hapmap];0.95[GIH][hapmap];0.92[JPT][hapmap];0.94[MEX][hapmap];0.97[TSI][hapmap];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1523941	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1523947	0.89[CHB][hapmap];0.91[CHD][hapmap];0.89[GIH][hapmap];0.92[JPT][hapmap];1.00[MEX][hapmap];0.88[TSI][hapmap];0.97[ASN][1000 genomes]
rs1523948	0.90[CEU][hapmap];0.88[CHB][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1983623	0.84[CEU][hapmap];0.89[GIH][hapmap];0.81[TSI][hapmap]
rs2024562	0.89[GIH][hapmap];0.92[JPT][hapmap];1.00[MEX][hapmap];0.84[TSI][hapmap]
rs2064389	0.84[CEU][hapmap];0.89[GIH][hapmap];0.92[JPT][hapmap];0.94[MEX][hapmap];0.80[TSI][hapmap]
rs2140510	0.90[CEU][hapmap];0.91[JPT][hapmap];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2140511	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2177448	0.81[CHD][hapmap];0.85[GIH][hapmap];0.92[JPT][hapmap];1.00[MEX][hapmap];0.88[TSI][hapmap];0.91[ASN][1000 genomes]
rs2204285	1.00[ASW][hapmap];0.85[CEU][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2206834	0.92[JPT][hapmap];0.89[ASN][1000 genomes]
rs2206836	0.84[CEU][hapmap];0.92[JPT][hapmap]
rs2223724	0.85[CEU][hapmap];0.81[CHD][hapmap];0.95[GIH][hapmap];0.92[JPT][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2585601	0.84[CEU][hapmap]
rs2585603	0.84[CEU][hapmap]
rs2746128	0.84[CEU][hapmap];0.89[GIH][hapmap];0.81[TSI][hapmap]
rs4434435	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs562010	0.95[CEU][hapmap];1.00[GIH][hapmap];0.92[JPT][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.85[EUR][1000 genomes]
rs644877	0.91[EUR][1000 genomes]
rs6455295	0.89[GIH][hapmap];0.92[JPT][hapmap]
rs6455296	0.92[JPT][hapmap]
rs6455298	0.88[CHB][hapmap];0.92[JPT][hapmap];0.88[ASN][1000 genomes]
rs6455299	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6455302	0.92[JPT][hapmap];0.88[ASN][1000 genomes]
rs6455303	0.86[CHB][hapmap];0.90[JPT][hapmap];0.91[ASN][1000 genomes]
rs6907661	0.88[ASN][1000 genomes]
rs6911395	0.86[CHD][hapmap];0.85[GIH][hapmap];0.92[JPT][hapmap];1.00[MEX][hapmap];0.88[TSI][hapmap];0.91[ASN][1000 genomes]
rs6919103	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6920537	0.92[ASW][hapmap];1.00[CEU][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];0.92[JPT][hapmap];0.92[LWK][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.84[YRI][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6924533	1.00[ASN][1000 genomes]
rs6928142	0.95[CEU][hapmap];0.92[JPT][hapmap];0.85[EUR][1000 genomes]
rs6929378	0.92[JPT][hapmap];0.89[ASN][1000 genomes]
rs6932940	0.89[JPT][hapmap]
rs7738131	0.98[EUR][1000 genomes]
rs7738291	1.00[JPT][hapmap]
rs7746943	0.87[GIH][hapmap]
rs7747314	0.87[CEU][hapmap];0.82[CHB][hapmap];0.88[JPT][hapmap]
rs7751539	0.83[ASN][1000 genomes]
rs7754795	0.82[CEU][hapmap];0.92[JPT][hapmap]
rs7755356	0.90[CEU][hapmap];0.92[JPT][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7758017	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7765583	0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7769724	1.00[CEU][hapmap];0.92[JPT][hapmap];0.91[YRI][hapmap];0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7771494	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7775093	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9294806	0.89[GIH][hapmap];0.92[JPT][hapmap];0.94[MEX][hapmap]
rs9294807	1.00[CEU][hapmap];0.92[JPT][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9294810	0.90[CEU][hapmap];0.92[JPT][hapmap];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9294811	0.81[CEU][hapmap];0.92[JPT][hapmap];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9346239	0.89[CHB][hapmap];0.91[CHD][hapmap];0.92[JPT][hapmap];1.00[ASN][1000 genomes]
rs9346240	0.88[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs9346241	0.89[ASN][1000 genomes]
rs9346243	0.92[JPT][hapmap];0.89[ASN][1000 genomes]
rs9346245	0.92[JPT][hapmap];0.91[ASN][1000 genomes]
rs9346246	0.86[CHD][hapmap];0.85[GIH][hapmap];0.92[JPT][hapmap];0.94[MEX][hapmap];0.89[ASN][1000 genomes]
rs9354800	0.83[ASN][1000 genomes]
rs9360360	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9360361	1.00[ASW][hapmap];1.00[CEU][hapmap];0.86[CHD][hapmap];0.95[GIH][hapmap];0.92[JPT][hapmap];0.92[LWK][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.91[YRI][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9363963	0.84[CEU][hapmap];0.89[GIH][hapmap];0.92[JPT][hapmap];0.94[MEX][hapmap];0.81[TSI][hapmap]
rs9446057	0.92[ASW][hapmap];1.00[CEU][hapmap];0.88[CHB][hapmap];0.92[JPT][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9446058	1.00[CEU][hapmap];0.91[JPT][hapmap];0.84[YRI][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9454616	1.00[CEU][hapmap];0.86[CHD][hapmap];1.00[GIH][hapmap];0.92[JPT][hapmap];0.81[LWK][hapmap];0.94[MEX][hapmap];0.97[TSI][hapmap];0.84[YRI][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9454621	0.86[CHD][hapmap];0.95[GIH][hapmap];0.92[JPT][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9454622	1.00[CEU][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs992784	0.88[CHB][hapmap];1.00[JPT][hapmap];0.88[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	nsv886130	chr6:68950298-69531957	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv886131	chr6:69480628-69545903	Weak transcription Active TSS Flanking Active TSS Enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1357618	BAI3	cis	cerebellum	SCAN

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:69467200-69485000	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr6:69471600-69481600	Weak transcription	Brain Anterior Caudate	brain
3	chr6:69478000-69485000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr6:69480000-69481800	Enhancers	Brain Substantia Nigra	brain
5	chr6:69480000-69482600	Enhancers	Brain Angular Gyrus	brain
6	chr6:69480400-69481600	Weak transcription	Brain Hippocampus Middle	brain
7	chr6:69480400-69484800	Weak transcription	Fetal Lung	lung
8	chr6:69480600-69481000	Weak transcription	Brain Inferior Temporal Lobe	brain

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