Variant report

Variant	rs12962060
Chromosome Location	chr18:29741715-29741716
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10502582	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11081746	0.86[JPT][hapmap]
rs11081750	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11081751	0.88[EUR][1000 genomes]
rs11661056	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12454857	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12457134	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12457138	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12458851	0.81[CEU][hapmap];0.86[JPT][hapmap]
rs12959368	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1469168	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17735506	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17804730	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1808891	0.81[CEU][hapmap];0.86[JPT][hapmap]
rs2000670	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2000671	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4799636	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4799637	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62095576	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62095578	0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62095579	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62095587	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62095588	0.89[EUR][1000 genomes]
rs67929870	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs68120106	0.89[EUR][1000 genomes]
rs7232533	0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7234231	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7240197	0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs72639475	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72942705	0.89[EUR][1000 genomes]
rs9676102	0.81[CEU][hapmap];0.86[JPT][hapmap]
rs9944759	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9944778	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9952622	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9955753	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9964960	0.89[EUR][1000 genomes];0.90[ASN][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	nsv1056007	chr18:29711974-29899564	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12962060	RNF138	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:29741200-29742000	Enhancers	Colonic Mucosa	Colon

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