Variant report

Variant	rs7777684
Chromosome Location	chr7:39245404-39245405
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10242061	0.91[CHD][hapmap];0.80[JPT][hapmap];0.85[ASN][1000 genomes]
rs10272803	0.80[JPT][hapmap];0.87[ASN][1000 genomes]
rs11505524	0.86[ASN][1000 genomes]
rs11771925	0.91[CHD][hapmap];0.80[JPT][hapmap];0.85[ASN][1000 genomes]
rs12667875	0.87[ASN][1000 genomes]
rs12667891	0.91[CHD][hapmap];0.80[JPT][hapmap];0.87[ASN][1000 genomes]
rs12672115	0.84[JPT][hapmap];0.87[ASN][1000 genomes]
rs28599716	0.87[ASN][1000 genomes]
rs35439815	0.87[ASN][1000 genomes]
rs4410807	0.85[CHD][hapmap]
rs4723832	0.91[CHD][hapmap];0.80[JPT][hapmap];0.87[ASN][1000 genomes]
rs6956858	0.85[CHD][hapmap]
rs6974806	0.85[CHD][hapmap]
rs7789406	0.80[JPT][hapmap];0.87[ASN][1000 genomes]
rs7789925	0.91[CHD][hapmap];0.80[JPT][hapmap];0.87[ASN][1000 genomes]
rs9655034	0.91[CHD][hapmap];0.80[JPT][hapmap];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1024142	chr7:38978728-39300444	Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv830968	chr7:39127531-39283543	Enhancers Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	nsv428163	chr7:39127531-39283543	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
4	nsv1015572	chr7:39185895-39413053	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv538821	chr7:39185895-39413053	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7777684	POU6F2	cis	parietal	SCAN
rs7777684	GKAP1	trans	parietal	SCAN

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:39215000-39247000	Weak transcription	Pancreas	Pancrea
2	chr7:39232000-39252400	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr7:39241800-39247200	Weak transcription	H1 Cell Line	embryonic stem cell

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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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