Variant report

Variant	rs16888707
Chromosome Location	chr6:24133220-24133221
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 7 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs10484658	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12190504	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12206686	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12210270	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12215474	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2139790	1.00[AMR][1000 genomes];1.00[EUR][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	nsv1029930	chr6:23481989-24289948	Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs16888707	PAK6	trans	lymphoblastoid	seeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:24127200-24141000	Weak transcription	Brain Cingulate Gyrus	brain
2	chr6:24127600-24140600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr6:24127600-24146800	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr6:24127800-24134600	Weak transcription	Brain Angular Gyrus	brain
5	chr6:24127800-24140600	Weak transcription	Brain Anterior Caudate	brain
6	chr6:24127800-24140600	Weak transcription	Brain Inferior Temporal Lobe	brain
7	chr6:24128600-24140600	Weak transcription	Fetal Brain Male	brain
8	chr6:24129400-24140000	Weak transcription	Brain Germinal Matrix	brain

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Input of quick search could be:

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

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