Variant report

Variant	rs985956
Chromosome Location	chr14:79187749-79187750
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10137516	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10148040	0.92[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10148134	0.83[ASW][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.84[JPT][hapmap];0.81[LWK][hapmap];0.81[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs12147248	0.80[CEU][hapmap]
rs12147249	0.80[CEU][hapmap]
rs12431582	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12880185	0.83[AMR][1000 genomes]
rs12880418	0.81[ASW][hapmap];0.89[LWK][hapmap];0.80[MEX][hapmap];0.80[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs17757467	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2241441	0.90[ASW][hapmap];0.92[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];0.88[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];0.93[TSI][hapmap];0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs28505980	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs28728169	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35035363	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35813445	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7148462	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs8003598	0.92[CEU][hapmap];1.00[GIH][hapmap];0.89[JPT][hapmap];0.88[MEX][hapmap];0.91[TSI][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs988014	1.00[ASW][hapmap];0.92[CEU][hapmap];0.87[CHB][hapmap];0.83[CHD][hapmap];0.90[GIH][hapmap];0.83[LWK][hapmap];0.96[MEX][hapmap];0.85[MKK][hapmap];0.91[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs985956	COQ6	cis	cerebellum	SCAN
rs985956	GTF2A1	cis	parietal	SCAN
rs985956	TMEM90A	cis	cerebellum	SCAN

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:79176000-79189000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr14:79176600-79188600	Weak transcription	Brain Anterior Caudate	brain
3	chr14:79177000-79188400	Weak transcription	Brain Angular Gyrus	brain
4	chr14:79177200-79188000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr14:79181600-79188600	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr14:79187200-79190000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr14:79187400-79190000	Enhancers	Brain Germinal Matrix	brain
8	chr14:79187600-79189200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr14:79187600-79190000	Enhancers	Brain Hippocampus Middle	brain
10	chr14:79187600-79192400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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