Variant report

Variant	rs9446083
Chromosome Location	chr6:69711901-69711902
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10485429	0.85[CHD][hapmap]
rs10485430	0.88[CHB][hapmap];0.92[CHD][hapmap]
rs10945150	0.85[CHD][hapmap]
rs11962923	0.85[CHD][hapmap]
rs1336644	0.86[CHB][hapmap];0.90[ASN][1000 genomes]
rs1959407	0.86[CHB][hapmap];0.90[YRI][hapmap];0.86[ASN][1000 genomes]
rs3799001	0.86[CHB][hapmap]
rs3799011	0.86[CHB][hapmap]
rs60944895	0.90[ASN][1000 genomes]
rs72906771	0.90[ASN][1000 genomes]
rs7757138	0.88[CHB][hapmap]
rs9446078	0.88[CHB][hapmap];0.92[CHD][hapmap];0.94[ASN][1000 genomes]
rs9446082	0.86[CHB][hapmap];0.90[ASN][1000 genomes]
rs9446084	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9454658	0.88[CHB][hapmap]
rs9454663	0.86[ASN][1000 genomes]
rs9454667	0.86[CHB][hapmap];0.85[CHD][hapmap];0.90[ASN][1000 genomes]
rs9454669	0.85[CHB][hapmap];0.90[ASN][1000 genomes]

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	nsv886137	chr6:69684850-70095690	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9446083	CLCF1	trans	parietal	SCAN

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:69685800-69758800	Weak transcription	Fetal Brain Male	brain
2	chr6:69688200-69721200	Weak transcription	Left Ventricle	heart
3	chr6:69692000-69716600	Weak transcription	Fetal Stomach	stomach
4	chr6:69696400-69715400	Weak transcription	Aorta	Aorta
5	chr6:69701000-69723000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr6:69701000-69737600	Weak transcription	Brain Hippocampus Middle	brain
7	chr6:69701200-69721200	Weak transcription	Brain Cingulate Gyrus	brain
8	chr6:69701200-69724400	Weak transcription	Brain Germinal Matrix	brain
9	chr6:69702400-69728600	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr6:69702400-69737600	Weak transcription	Brain Angular Gyrus	brain
11	chr6:69702600-69723800	Weak transcription	Brain Substantia Nigra	brain
12	chr6:69703800-69719400	Weak transcription	Fetal Brain Female	brain
13	chr6:69704800-69713000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr6:69704800-69721600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr6:69706400-69720800	Weak transcription	Fetal Lung	lung
16	chr6:69706600-69721600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr6:69711600-69717600	Weak transcription	Cortex derived primary cultured neurospheres	brain

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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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