Variant report

Variant	rs12549660
Chromosome Location	chr8:91283363-91283364
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr8:91262047..91264019-chr8:91282938..91285265,2	K562	blood:

Extended variants
information (count: 38 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10108327	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12544366	1.00[CEU][hapmap];0.82[YRI][hapmap];0.99[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12544776	0.83[AMR][1000 genomes]
rs12545140	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12546302	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[MEX][hapmap];0.82[TSI][hapmap];0.93[AMR][1000 genomes]
rs12547394	0.90[AMR][1000 genomes]
rs12549515	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12549630	0.90[AMR][1000 genomes]
rs12549875	1.00[CEU][hapmap]
rs12550324	0.90[AMR][1000 genomes]
rs16904149	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[MEX][hapmap];0.82[TSI][hapmap];0.90[AMR][1000 genomes]
rs16904193	0.90[MEX][hapmap]
rs16904195	0.90[MEX][hapmap]
rs2189257	0.90[AMR][1000 genomes]
rs2285725	0.90[AMR][1000 genomes]
rs4735301	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs59497517	0.93[AMR][1000 genomes]
rs6470808	1.00[CEU][hapmap];0.82[TSI][hapmap]
rs6470854	0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6470856	0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7016389	0.96[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs72606646	0.84[AMR][1000 genomes]
rs72606647	0.93[AMR][1000 genomes]
rs72606648	0.93[AMR][1000 genomes]
rs72606649	0.90[AMR][1000 genomes]
rs72606650	0.90[AMR][1000 genomes]
rs72606651	0.99[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs72606652	0.99[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs72606653	0.99[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs72606654	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs72606655	0.99[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs72606656	0.99[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs72606657	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7824654	0.84[AMR][1000 genomes]
rs970473	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][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	esv2758164	chr8:91000786-91329669	Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	esv2759628	chr8:91000786-91329669	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	esv3391888	chr8:91283167-91283478	Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12549660	SLC39A4	trans	lymphoblastoid	seeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:91275600-91283800	Weak transcription	K562	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links