Variant report

Variant	rs6416775
Chromosome Location	chr16:58864314-58864315
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs11076263	0.80[EUR][1000 genomes]
rs11646756	0.80[EUR][1000 genomes]
rs11866352	0.93[EUR][1000 genomes]
rs12596434	0.83[EUR][1000 genomes]
rs12598527	0.81[CEU][hapmap];0.80[EUR][1000 genomes]
rs12600201	0.81[CEU][hapmap];0.89[GIH][hapmap];0.86[TSI][hapmap];0.80[EUR][1000 genomes]
rs12600206	0.81[CEU][hapmap];0.89[GIH][hapmap];0.86[TSI][hapmap];0.80[EUR][1000 genomes]
rs12927495	0.94[EUR][1000 genomes]
rs12928733	0.83[EUR][1000 genomes]
rs1615326	0.81[CEU][hapmap];0.89[GIH][hapmap];0.84[TSI][hapmap]
rs1616798	0.85[CEU][hapmap];0.93[GIH][hapmap];0.82[TSI][hapmap];0.81[EUR][1000 genomes]
rs1657179	0.85[CEU][hapmap];0.93[GIH][hapmap];0.82[TSI][hapmap]
rs36098613	0.85[EUR][1000 genomes]
rs4784987	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62064940	0.84[EUR][1000 genomes]
rs62066381	0.84[EUR][1000 genomes]
rs62066382	0.83[EUR][1000 genomes]
rs7185513	0.84[EUR][1000 genomes]
rs8049572	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758427	chr16:58579005-58876037	Enhancers Strong transcription Genic enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	esv2758650	chr16:58579005-58876037	ZNF genes & repeats Active TSS Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	nsv1065269	chr16:58743487-58972224	Flanking Active TSS Enhancers Strong transcription Active TSS Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs6416775	IRX5	cis	cerebellum	SCAN
rs6416775	CSNK2A2	cis	cerebellum	SCAN
rs6416775	CETP	cis	parietal	SCAN
rs6416775	GOT2	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:58862000-58864400	Enhancers	Fetal Brain Male	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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