Variant report

Variant	rs59966095
Chromosome Location	chr5:70665606-70665607
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 32 )

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs4704274	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6453403	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6453405	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6453406	0.88[ASN][1000 genomes]
rs7378507	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529287	chr5:69732192-70716662	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	nsv1033366	chr5:70254883-70710447	Weak transcription Strong transcription Bivalent Enhancer Enhancers Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	nsv882135	chr5:70275720-70689452	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
4	nsv1034703	chr5:70391173-70995695	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
5	nsv980680	chr5:70530575-70702151	Enhancers Weak transcription Active TSS Flanking Active TSS	TF binding region CpG island lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv882169	chr5:70541571-70679626	Weak transcription Enhancers	TF binding region CpG island lncRNA	4 gene(s)	inside rSNPs	diseases
7	nsv882171	chr5:70556976-70667205	Enhancers Weak transcription	TF binding region lncRNA	3 gene(s)	inside rSNPs	diseases
8	nsv882172	chr5:70567610-70667205	Enhancers Weak transcription	TF binding region lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv882173	chr5:70567610-70689452	Weak transcription Enhancers Active TSS	TF binding region CpG island lncRNA	4 gene(s)	inside rSNPs	diseases
10	nsv882174	chr5:70576973-70679626	Weak transcription Enhancers	TF binding region CpG island lncRNA	3 gene(s)	inside rSNPs	diseases
11	nsv882175	chr5:70576973-70689452	Enhancers Weak transcription Active TSS	TF binding region CpG island lncRNA	4 gene(s)	inside rSNPs	diseases
12	nsv1018141	chr5:70654060-70708985	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island lncRNA	3 gene(s)	inside rSNPs	diseases
13	nsv1031941	chr5:70654060-70710447	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS	TF binding region CpG island lncRNA	3 gene(s)	inside rSNPs	diseases
14	nsv1017385	chr5:70660739-70710447	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer	TF binding region CpG island lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:32)

SNP	Gene	Cis/trans	Tissue	Source
rs59966095	DKFZP686M0199	N/A	lymphoblastoid	RTeQTL
rs59966095	GTF2H2	cis	Whole Blood	GTEx
rs59966095	GTF2H2	cis	lung	GTEx
rs59966095	RP11-497H16.2	cis	Whole Blood	GTEx
rs59966095	RP11-195E2.4	cis	Esophagus Muscularis	GTEx
rs59966095	RP11-195E2.4	cis	Nerve Tibial	GTEx
rs59966095	RP11-195E2.4	cis	Heart Left Ventricle	GTEx
rs59966095	RP11-195E2.1	cis	Heart Left Ventricle	GTEx
rs59966095	RP11-497H16.2	cis	Nerve Tibial	GTEx
rs59966095	RP11-497H16.2	cis	Adipose Subcutaneous	GTEx
rs59966095	RP11-195E2.1	cis	Skin Sun Exposed Lower leg	GTEx
rs59966095	RP11-195E2.1	cis	Adipose Subcutaneous	GTEx
rs59966095	RP11-195E2.1	cis	Artery Tibial	GTEx
rs59966095	RP11-195E2.4	cis	Artery Tibial	GTEx
rs59966095	RP11-195E2.1	cis	Thyroid	GTEx
rs59966095	RP11-497H16.2	cis	Artery Tibial	GTEx
rs59966095	RP11-195E2.1	cis	Whole Blood	GTEx
rs59966095	RP11-195E2.1	cis	Muscle Skeletal	GTEx
rs59966095	RP11-497H16.2	cis	lung	GTEx
rs59966095	RP11-497H16.2	cis	Thyroid	GTEx
rs59966095	RP11-195E2.4	cis	Whole Blood	GTEx
rs59966095	RP11-195E2.4	cis	Muscle Skeletal	GTEx
rs59966095	RP11-195E2.4	cis	Adipose Subcutaneous	GTEx
rs59966095	GTF2H2B	cis	Skin Sun Exposed Lower leg	GTEx
rs59966095	RP11-195E2.4	cis	lung	GTEx
rs59966095	RP11-195E2.1	cis	Nerve Tibial	GTEx
rs59966095	RP11-195E2.4	cis	Thyroid	GTEx
rs59966095	RP11-195E2.1	cis	Esophagus Muscularis	GTEx
rs59966095	RP11-497H16.2	cis	Esophagus Muscularis	GTEx
rs59966095	RP11-195E2.4	cis	Skin Sun Exposed Lower leg	GTEx
rs59966095	RP11-497H16.7	cis	Whole Blood	GTEx
rs59966095	RP11-195E2.4	cis	Esophagus Mucosa	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:70664600-70669200	Weak transcription	iPS-20b Cell Line	embryonic stem cell

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