Variant report

Variant	rs7588059
Chromosome Location	chr2:99626704-99626705
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 54 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10167390	0.82[ASN][1000 genomes]
rs10170063	0.91[ASN][1000 genomes]
rs10181422	0.87[ASN][1000 genomes]
rs1115756	0.88[ASN][1000 genomes]
rs1115757	0.88[ASN][1000 genomes]
rs1133977	0.82[ASN][1000 genomes]
rs1133978	0.80[ASN][1000 genomes]
rs11683188	0.82[ASN][1000 genomes]
rs11688004	0.82[ASN][1000 genomes]
rs11692336	0.82[ASN][1000 genomes]
rs11895749	0.82[ASN][1000 genomes]
rs12470471	0.85[ASN][1000 genomes]
rs12613624	0.82[ASN][1000 genomes]
rs12619780	0.84[ASN][1000 genomes]
rs12987548	0.83[ASN][1000 genomes]
rs13008171	0.82[ASN][1000 genomes]
rs13407840	0.89[ASN][1000 genomes]
rs1453563	0.83[ASN][1000 genomes]
rs1453564	0.88[ASN][1000 genomes]
rs1563106	0.85[ASN][1000 genomes]
rs1563107	0.85[ASN][1000 genomes]
rs1563108	0.85[ASN][1000 genomes]
rs17708262	0.84[ASN][1000 genomes]
rs17759607	0.82[ASN][1000 genomes]
rs2084988	0.90[ASN][1000 genomes]
rs28648058	0.85[ASN][1000 genomes]
rs34272114	0.82[ASN][1000 genomes]
rs4585080	0.86[ASN][1000 genomes]
rs4851183	0.94[ASN][1000 genomes]
rs4851188	0.82[ASN][1000 genomes]
rs62154638	0.91[ASN][1000 genomes]
rs6542846	0.88[ASN][1000 genomes]
rs6707462	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6722164	0.87[ASN][1000 genomes]
rs6724476	0.94[ASN][1000 genomes]
rs6735801	0.91[ASN][1000 genomes]
rs6737257	0.83[ASN][1000 genomes]
rs6740054	0.89[ASN][1000 genomes]
rs6753650	0.84[ASN][1000 genomes]
rs6754843	0.87[ASN][1000 genomes]
rs720229	0.85[ASN][1000 genomes]
rs72957109	0.81[ASN][1000 genomes]
rs7570657	0.91[ASN][1000 genomes]
rs7571390	0.94[ASN][1000 genomes]
rs7586608	0.87[ASN][1000 genomes]
rs7591794	0.89[ASN][1000 genomes]
rs7605734	0.90[ASN][1000 genomes]
rs7606635	0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1011278	chr2:99280928-99638376	Weak transcription Enhancers Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv535835	chr2:99280928-99638376	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv834310	chr2:99533832-99709999	Enhancers Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases
4	nsv1007718	chr2:99542281-99729107	Bivalent/Poised TSS Flanking Active TSS Active TSS Enhancers Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
5	nsv2844	chr2:99594062-99638761	Enhancers ZNF genes & repeats Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv979072	chr2:99613444-99652736	ZNF genes & repeats Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7588059	TSGA10	Cis_1M	lymphoblastoid	RTeQTL
rs7588059	LIPT1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:99625600-99628600	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr2:99625600-99628800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood

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