Variant report

Variant	rs1523947
Chromosome Location	chr6:69483708-69483709
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:69427276..69429730-chr6:69482240..69484850,2	K562	blood:
2	chr6:69361693..69363656-chr6:69482162..69484655,2	K562	blood:
3	chr6:69481523..69484520-chr6:69489886..69492873,2	K562	blood:

Extended variants
information (count: 73 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1015152	0.81[AFR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10945140	0.89[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.88[TSI][hapmap]
rs11965496	0.91[ASN][1000 genomes]
rs1357618	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]
rs1357619	0.83[JPT][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1403927	0.89[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs1523937	0.89[CHB][hapmap];0.95[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.91[TSI][hapmap];0.94[ASN][1000 genomes]
rs1523941	1.00[ASN][1000 genomes]
rs1523948	0.81[ASW][hapmap];0.82[CEU][hapmap];0.90[CHD][hapmap];0.89[GIH][hapmap];0.92[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];0.94[TSI][hapmap];0.96[YRI][hapmap];0.91[AFR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1983623	0.85[JPT][hapmap]
rs2024562	0.83[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap]
rs2064389	1.00[JPT][hapmap];0.94[MEX][hapmap]
rs2140510	0.82[CEU][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2140511	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2177448	1.00[CEU][hapmap];0.89[CHB][hapmap];0.91[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2204285	0.86[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.88[TSI][hapmap];0.92[ASN][1000 genomes]
rs2206834	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2206836	1.00[JPT][hapmap]
rs2223724	0.89[CHB][hapmap];0.91[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.94[TSI][hapmap];0.91[YRI][hapmap];0.83[AFR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2585601	0.84[JPT][hapmap]
rs2585603	0.85[JPT][hapmap]
rs2746128	0.85[JPT][hapmap]
rs2746133	0.85[JPT][hapmap]
rs4708243	0.83[JPT][hapmap]
rs562010	0.89[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.88[TSI][hapmap]
rs6455295	1.00[JPT][hapmap]
rs6455296	1.00[JPT][hapmap]
rs6455298	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6455299	0.91[ASN][1000 genomes]
rs6455302	0.89[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs6455303	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6903692	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6907661	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6911395	1.00[CEU][hapmap];0.89[CHB][hapmap];0.95[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6919103	0.91[ASN][1000 genomes]
rs6920537	0.89[CHB][hapmap];0.90[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.91[ASN][1000 genomes]
rs6924533	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6928142	1.00[JPT][hapmap]
rs6929378	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6932940	1.00[JPT][hapmap]
rs7738291	1.00[JPT][hapmap]
rs7747314	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs7751539	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7754795	1.00[JPT][hapmap]
rs7755356	0.82[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.82[AFR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7758017	0.94[ASN][1000 genomes]
rs7765583	0.89[ASN][1000 genomes]
rs7769724	0.89[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs7771494	0.97[ASN][1000 genomes]
rs7775093	0.91[ASN][1000 genomes]
rs9294806	1.00[JPT][hapmap];0.94[MEX][hapmap]
rs9294807	0.89[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs9294810	0.82[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9294811	0.91[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9346239	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs9346240	0.90[CHD][hapmap];0.92[JPT][hapmap];0.92[ASN][1000 genomes]
rs9346241	0.92[ASN][1000 genomes]
rs9346243	0.89[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs9346245	0.89[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs9346246	0.89[CHB][hapmap];0.95[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.81[TSI][hapmap];0.92[ASN][1000 genomes]
rs9354800	0.86[ASN][1000 genomes]
rs9360357	0.83[JPT][hapmap]
rs9360360	1.00[ASN][1000 genomes]
rs9360361	0.89[CHB][hapmap];0.95[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.91[ASN][1000 genomes]
rs9363963	1.00[JPT][hapmap];0.94[MEX][hapmap]
rs9446057	0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.80[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9446058	0.89[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs9454616	0.89[CHB][hapmap];0.95[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.91[TSI][hapmap];0.92[ASN][1000 genomes]
rs9454621	0.88[CHB][hapmap];0.95[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];0.94[TSI][hapmap];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9454622	0.89[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs992784	1.00[CEU][hapmap];0.92[JPT][hapmap];0.91[YRI][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[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

No data

Chromatin state (count:13 , 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	chr6:69478000-69485000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr6:69480400-69484800	Weak transcription	Fetal Lung	lung
4	chr6:69481200-69483800	Enhancers	Brain Cingulate Gyrus	brain
5	chr6:69481600-69484800	Weak transcription	K562	blood
6	chr6:69482200-69484600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr6:69482400-69484800	Weak transcription	Fetal Brain Female	brain
8	chr6:69482600-69484400	Weak transcription	Brain Hippocampus Middle	brain
9	chr6:69483400-69484400	Weak transcription	Brain Substantia Nigra	brain
10	chr6:69483400-69485000	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr6:69483600-69484000	Enhancers	Brain Germinal Matrix	brain
12	chr6:69483600-69484200	Enhancers	Brain Anterior Caudate	brain
13	chr6:69483600-69485200	Weak transcription	Brain Angular Gyrus	brain

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