Variant report

Variant	rs856109
Chromosome Location	chr1:158896366-158896367
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 42 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1102018	0.86[EUR][1000 genomes]
rs17697329	1.00[ASN][1000 genomes]
rs2494075	0.86[EUR][1000 genomes]
rs2518543	0.86[EUR][1000 genomes]
rs2518544	0.85[EUR][1000 genomes]
rs2518545	0.86[EUR][1000 genomes]
rs2518546	0.86[EUR][1000 genomes]
rs2518547	0.86[EUR][1000 genomes]
rs2793850	0.86[EUR][1000 genomes]
rs2793852	0.86[EUR][1000 genomes]
rs2793853	0.86[EUR][1000 genomes]
rs2793854	0.86[EUR][1000 genomes]
rs2820117	1.00[ASN][1000 genomes]
rs2820126	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2820191	0.86[EUR][1000 genomes]
rs2820192	0.86[EUR][1000 genomes]
rs2820194	0.86[EUR][1000 genomes]
rs2820195	0.86[EUR][1000 genomes]
rs2852687	0.86[EUR][1000 genomes]
rs2852688	0.86[EUR][1000 genomes]
rs856096	0.87[EUR][1000 genomes]
rs856103	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs856104	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs856105	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs856107	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs856108	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs856112	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs856114	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs856115	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs856116	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs856117	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs856118	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs856119	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs856123	0.90[EUR][1000 genomes]
rs856151	0.86[EUR][1000 genomes]
rs860636	0.85[AMR][1000 genomes];0.92[EUR][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	nsv1002401	chr1:158712627-158972031	Flanking Active TSS Strong transcription Active TSS Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	esv3376764	chr1:158761947-158998617	Enhancers Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv872484	chr1:158863845-158909164	Active TSS Strong transcription Weak transcription Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv872485	chr1:158863845-158922287	Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv1007597	chr1:158874806-158934301	Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	nsv946442	chr1:158886760-158899487	ZNF genes & repeats Enhancers Weak transcription	TF binding region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:158894200-158896400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
2	chr1:158895200-158898600	Weak transcription	Primary T cells fromperipheralblood	blood
3	chr1:158895400-158896600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
4	chr1:158896000-158896800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links