Variant report

Variant	rs17882151
Chromosome Location	chr1:153005495-153005496
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

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

No.	Distal block	Cell Line	Cell type
1	chr1:152843263..152844168-chr1:153005237..153006058,6	MCF-7	breast:
2	chr1:152898333..152898906-chr1:153005465..153006016,2	MCF-7	breast:
3	chr1:153005244..153005821-chr1:153164960..153165646,3	MCF-7	breast:
4	chr1:152932933..152933748-chr1:153005112..153006074,3	MCF-7	breast:
5	chr1:152926650..152927561-chr1:153005080..153005744,2	MCF-7	breast:
6	chr1:152890404..152890921-chr1:153005056..153005990,2	MCF-7	breast:
7	chr1:152850201..152851155-chr1:153005077..153005710,4	MCF-7	breast:
8	chr1:152948835..152951226-chr1:153005121..153006755,2	MCF-7	breast:
9	chr1:153005373..153007183-chr1:153162991..153164575,2	MCF-7	breast:
10	chr1:152843289..152844260-chr1:153005064..153006050,2	MCF-7	breast:
11	chr1:152999178..153000779-chr1:153005146..153007947,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000163206	Chromatin interaction

Extended variants
information (count: 70 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs10494283	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10494284	1.00[AMR][1000 genomes]
rs10494286	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10494287	1.00[AMR][1000 genomes]
rs10494289	1.00[AMR][1000 genomes]
rs1611758	1.00[AMR][1000 genomes]
rs1611769	1.00[AMR][1000 genomes]
rs16829001	1.00[AMR][1000 genomes]
rs16829018	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16834786	1.00[AMR][1000 genomes]
rs16834788	1.00[AMR][1000 genomes]
rs16834793	1.00[AMR][1000 genomes]
rs16834804	1.00[AMR][1000 genomes]
rs16834825	1.00[AMR][1000 genomes]
rs16834841	1.00[AMR][1000 genomes]
rs16834843	1.00[AMR][1000 genomes]
rs16834855	1.00[AMR][1000 genomes]
rs16834863	1.00[AMR][1000 genomes]
rs16834869	1.00[AMR][1000 genomes]
rs16834878	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16834888	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16834890	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17878691	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17883580	1.00[AMR][1000 genomes]
rs1933385	1.00[AMR][1000 genomes]
rs1933387	1.00[AMR][1000 genomes]
rs1998818	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28924715	1.00[AMR][1000 genomes]
rs3806220	1.00[AMR][1000 genomes]
rs3964618	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4378151	1.00[AMR][1000 genomes]
rs4433340	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57055311	1.00[AMR][1000 genomes]
rs57242863	1.00[AMR][1000 genomes]
rs57450008	1.00[AMR][1000 genomes]
rs57458543	1.00[AMR][1000 genomes]
rs58109785	1.00[AMR][1000 genomes]
rs58783614	1.00[AMR][1000 genomes]
rs59237147	1.00[AMR][1000 genomes]
rs59460179	1.00[AMR][1000 genomes]
rs61089580	1.00[AMR][1000 genomes]
rs73010427	1.00[AMR][1000 genomes]
rs73010429	1.00[AMR][1000 genomes]
rs73010443	1.00[AMR][1000 genomes]
rs73010447	1.00[AMR][1000 genomes]
rs73010449	1.00[AMR][1000 genomes]
rs73010452	1.00[AMR][1000 genomes]
rs73010454	1.00[AMR][1000 genomes]
rs73010458	1.00[AMR][1000 genomes]
rs73010459	1.00[AMR][1000 genomes]
rs73012481	1.00[AMR][1000 genomes]
rs73012485	1.00[AMR][1000 genomes]
rs73012496	1.00[AMR][1000 genomes]
rs73012500	1.00[AMR][1000 genomes]
rs73014324	1.00[AMR][1000 genomes]
rs73014333	1.00[AMR][1000 genomes]
rs73014337	1.00[AMR][1000 genomes]
rs73014398	1.00[AMR][1000 genomes]
rs73014402	1.00[AMR][1000 genomes]
rs73016303	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73016322	1.00[AMR][1000 genomes]
rs883809	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1013433	chr1:152619305-153262215	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	46 gene(s)	inside rSNPs	diseases
2	nsv535170	chr1:152619305-153262215	Enhancers Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	46 gene(s)	inside rSNPs	diseases
3	nsv1001834	chr1:152648853-153279143	Enhancers Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	44 gene(s)	inside rSNPs	diseases
4	nsv547899	chr1:152672005-153245082	Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	42 gene(s)	inside rSNPs	diseases
5	nsv1010488	chr1:152901263-153670972	Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	236 gene(s)	inside rSNPs	diseases
6	nsv535171	chr1:152901263-153670972	Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	236 gene(s)	inside rSNPs	diseases
7	nsv533877	chr1:152923645-153468131	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
8	nsv1003756	chr1:152944201-153044621	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:153003200-153008200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr1:153003400-153006200	Flanking Active TSS	NHEK	skin
3	chr1:153003600-153005600	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr1:153004800-153007400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr1:153005200-153005800	Enhancers	HUES48 Cell Line	embryonic stem cell
6	chr1:153005200-153006000	Enhancers	ES-I3 Cell Line	embryonic stem cell
7	chr1:153005400-153005800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
8	chr1:153005400-153006000	Enhancers	iPS-20b Cell Line	embryonic stem cell
9	chr1:153005400-153006000	Enhancers	Placenta	Placenta
10	chr1:153005400-153007800	Enhancers	HMEC	breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links