Variant report

Variant	rs425159
Chromosome Location	chr6:27902172-27902173
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:27901905..27904183-chr6:28041057..28044024,2	K562	blood:
2	chr6:27900872..27904331-chr6:27905533..27908216,3	K562	blood:
3	chr6:27778583..27780437-chr6:27901055..27904160,3	K562	blood:
4	chr6:27882241..27884858-chr6:27901500..27903298,2	K562	blood:

Variant related genes	Relation type
ENSG00000220721	Chromatin interaction

Extended variants
information (count: 50 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs149854	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs149879	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs149898	1.00[YRI][hapmap];0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs149957	0.85[YRI][hapmap]
rs156741	0.85[YRI][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs156742	0.85[YRI][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1619221	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs169263	0.92[YRI][hapmap];1.00[EUR][1000 genomes]
rs169433	0.85[YRI][hapmap]
rs172164	0.85[YRI][hapmap]
rs175953	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs175955	0.92[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1770132	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs183926	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs200959	0.85[YRI][hapmap]
rs200962	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs200970	0.92[YRI][hapmap];1.00[EUR][1000 genomes]
rs203865	0.80[YRI][hapmap]
rs203867	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs203870	0.80[YRI][hapmap]
rs203874	0.80[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs203885	0.85[YRI][hapmap]
rs203894	0.80[YRI][hapmap]
rs2200870	1.00[EUR][1000 genomes]
rs2622318	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs276364	0.85[YRI][hapmap]
rs276366	0.85[YRI][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs276367	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs276368	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs276372	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs366113	0.83[AMR][1000 genomes]
rs427348	0.85[YRI][hapmap]
rs539474	0.85[YRI][hapmap]
rs55965630	1.00[EUR][1000 genomes]
rs56221999	1.00[EUR][1000 genomes]
rs56262840	1.00[EUR][1000 genomes]
rs56366090	1.00[EUR][1000 genomes]
rs58700542	1.00[EUR][1000 genomes]
rs60554811	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73739685	1.00[EUR][1000 genomes]
rs73740805	1.00[EUR][1000 genomes]
rs73740842	1.00[EUR][1000 genomes]
rs839777	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv432858	chr6:27719375-28011652	Flanking Active TSS Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	387 gene(s)	inside rSNPs	diseases
2	nsv1022173	chr6:27734824-27959408	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	379 gene(s)	inside rSNPs	diseases
3	nsv883512	chr6:27748631-27969004	Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	379 gene(s)	inside rSNPs	diseases
4	nsv601208	chr6:27810626-27969004	Active TSS Bivalent/Poised TSS Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Weak transcription Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	237 gene(s)	inside rSNPs	diseases
5	nsv1022651	chr6:27864217-28017997	Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	50 gene(s)	inside rSNPs	diseases
6	nsv830619	chr6:27872302-28062544	Active TSS ZNF genes & repeats Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
7	nsv970030	chr6:27880682-27909942	Weak transcription Strong transcription Enhancers Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs425159	Hs.158943	cis	multi-tissue	Pritchard

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:27901200-27902400	Weak transcription	K562	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links