Variant report

Variant	rs4960106
Chromosome Location	chr6:5586900-5586901
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs1985346	0.93[CEU][hapmap]
rs2013289	0.93[CEU][hapmap]
rs2064109	1.00[CEU][hapmap];0.80[CHB][hapmap];1.00[JPT][hapmap]
rs2142736	0.93[CEU][hapmap];0.90[JPT][hapmap]
rs2326649	0.93[CEU][hapmap]
rs2326651	0.94[CEU][hapmap];0.80[CHB][hapmap];1.00[JPT][hapmap]
rs4960102	0.93[CEU][hapmap];1.00[JPT][hapmap]
rs4960108	0.88[CEU][hapmap];1.00[JPT][hapmap]
rs5012511	0.94[CEU][hapmap]
rs6597147	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs7738509	0.81[CEU][hapmap];0.82[JPT][hapmap]
rs7744153	0.81[CEU][hapmap];0.81[JPT][hapmap]
rs7744837	0.90[JPT][hapmap]
rs7765047	0.82[CEU][hapmap];0.82[JPT][hapmap]
rs7765256	0.82[JPT][hapmap]
rs9328318	0.81[CEU][hapmap];0.81[JPT][hapmap]
rs9328319	0.81[CEU][hapmap];0.81[JPT][hapmap]
rs9328320	0.82[CEU][hapmap];0.90[JPT][hapmap]
rs9378972	0.82[JPT][hapmap]
rs9392084	0.82[CHB][hapmap]
rs9392698	1.00[JPT][hapmap]
rs9405276	0.94[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap]
rs9405852	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs9405853	0.94[CEU][hapmap];0.80[CHB][hapmap]
rs9502320	0.93[CEU][hapmap];0.81[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1019428	chr6:5216835-5627839	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv538118	chr6:5216835-5627839	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv916361	chr6:5315853-5695486	Weak transcription Enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv600887	chr6:5545046-5694713	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv1016905	chr6:5566364-5639167	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Genic enhancers	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:5577400-5639800	Weak transcription	Fetal Intestine Small	intestine
2	chr6:5581000-5614200	Weak transcription	Lung	lung
3	chr6:5581000-5640400	Weak transcription	Gastric	stomach
4	chr6:5582200-5595000	Weak transcription	Fetal Stomach	stomach
5	chr6:5584600-5589000	Weak transcription	Fetal Heart	heart
6	chr6:5584600-5589400	Weak transcription	Fetal Lung	lung
7	chr6:5585000-5590200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr6:5585200-5587800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr6:5585400-5593200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
10	chr6:5586600-5587200	ZNF genes & repeats	Primary B cells from cord blood	blood
11	chr6:5586800-5591200	Weak transcription	Primary T cells from cord blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links