Variant report

Variant	rs7746943
Chromosome Location	chr6:69358039-69358040
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:69354530..69356777-chr6:69357079..69359360,2	K562	blood:
2	chr6:69355292..69359376-chr6:69359699..69365505,6	K562	blood:
3	chr6:69346849..69353858-chr6:69356877..69365508,11	K562	blood:

Extended variants
information (count: 33 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10945140	0.87[GIH][hapmap];0.85[LWK][hapmap]
rs1357618	0.87[GIH][hapmap]
rs1523937	0.83[GIH][hapmap]
rs1523948	0.87[GIH][hapmap]
rs1983623	0.93[ASW][hapmap];0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[LWK][hapmap];0.85[MEX][hapmap];0.90[MKK][hapmap];0.85[TSI][hapmap];0.93[YRI][hapmap];0.81[EUR][1000 genomes]
rs2024562	0.93[GIH][hapmap]
rs2064389	0.88[CEU][hapmap];0.98[GIH][hapmap];0.84[TSI][hapmap];0.81[EUR][1000 genomes]
rs2204285	0.87[GIH][hapmap]
rs2223724	0.83[GIH][hapmap]
rs2257875	0.81[EUR][1000 genomes]
rs2585601	0.88[CEU][hapmap];1.00[CHB][hapmap];0.80[EUR][1000 genomes]
rs2585603	0.88[CEU][hapmap];1.00[CHB][hapmap];0.81[EUR][1000 genomes]
rs2746128	0.93[ASW][hapmap];0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];0.98[LWK][hapmap];0.85[MEX][hapmap];0.84[MKK][hapmap];0.85[TSI][hapmap];0.89[YRI][hapmap];0.81[EUR][1000 genomes]
rs2746133	1.00[CHB][hapmap]
rs2880145	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4708197	0.82[EUR][1000 genomes]
rs4708231	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4708243	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.91[EUR][1000 genomes]
rs562010	0.87[GIH][hapmap]
rs6455295	0.98[GIH][hapmap]
rs6920537	0.87[GIH][hapmap]
rs7752462	0.95[EUR][1000 genomes]
rs7768160	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7773117	0.84[EUR][1000 genomes]
rs9294806	0.98[GIH][hapmap];0.82[TSI][hapmap]
rs9351732	0.81[EUR][1000 genomes]
rs9360357	1.00[CEU][hapmap];0.93[CHB][hapmap];0.92[JPT][hapmap];0.89[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9360361	0.83[GIH][hapmap]
rs9363961	0.83[EUR][1000 genomes]
rs9363963	0.88[CEU][hapmap];0.98[GIH][hapmap];0.85[TSI][hapmap];0.83[EUR][1000 genomes]
rs9454616	0.87[GIH][hapmap]
rs9454621	0.83[GIH][hapmap]

Variant overlapped rSNPs/rCNVs (count:1 , 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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7746943	C6orf57	cis	cerebellum	SCAN

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:69350800-69362000	Weak transcription	Right Atrium	heart
2	chr6:69352200-69363200	Weak transcription	Brain Germinal Matrix	brain
3	chr6:69352200-69399000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr6:69352400-69361000	Weak transcription	Fetal Brain Female	brain
5	chr6:69353200-69359600	Weak transcription	Fetal Brain Male	brain
6	chr6:69353600-69359600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr6:69353600-69359600	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr6:69353600-69359600	Weak transcription	K562	blood
9	chr6:69353800-69358400	Weak transcription	Brain Substantia Nigra	brain
10	chr6:69355000-69359600	Weak transcription	Fetal Lung	lung
11	chr6:69355600-69359600	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr6:69356800-69359600	Weak transcription	Brain Cingulate Gyrus	brain
13	chr6:69357000-69359600	Weak transcription	Brain Angular Gyrus	brain
14	chr6:69357600-69359600	Weak transcription	Brain Anterior Caudate	brain
15	chr6:69358000-69359000	Weak transcription	Brain Hippocampus Middle	brain
16	chr6:69358000-69360200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain

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