Variant report

Variant	rs17884656
Chromosome Location	chr1:153003428-153003429
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	FOS	chr1:153003374-153003737	MCF10A-Er-Src	breast:	n/a	n/a
2	FOS	chr1:153003347-153003792	MCF10A-Er-Src	breast:	n/a	n/a
3	FOS	chr1:153003332-153003746	MCF10A-Er-Src	breast:	n/a	n/a
4	CTCF	chr1:153003360-153003510	WERI-Rb-1	eye:	n/a	n/a
5	CEBPB	chr1:153003377-153003680	MCF-7	breast:	n/a	n/a
6	FOS	chr1:153003381-153003760	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:152997979..153000273-chr1:153001489..153003586,2	MCF-7	breast:

Variant related genes	Relation type
SPRR1B	TF binding region

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs12080468	1.00[AMR][1000 genomes]
rs1611761	1.00[AMR][1000 genomes]
rs16834738	1.00[AMR][1000 genomes]
rs17879439	1.00[AMR][1000 genomes]
rs17880410	1.00[AMR][1000 genomes]
rs17881511	1.00[AMR][1000 genomes]
rs17881530	1.00[AMR][1000 genomes]
rs17882306	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28924714	1.00[AMR][1000 genomes]
rs28924716	1.00[AMR][1000 genomes]
rs28924720	1.00[AMR][1000 genomes]
rs56979260	1.00[AMR][1000 genomes]
rs57034461	1.00[AMR][1000 genomes]
rs58039969	1.00[AMR][1000 genomes]
rs58965301	1.00[AMR][1000 genomes]
rs6658402	1.00[AMR][1000 genomes]
rs6666622	1.00[AMR][1000 genomes]
rs6667024	1.00[AMR][1000 genomes]
rs6691763	1.00[AMR][1000 genomes]
rs6696961	1.00[AMR][1000 genomes]
rs6697499	1.00[AMR][1000 genomes]
rs7520592	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 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
9	esv3416199	chr1:152957887-153005113	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:153002800-153003600	Enhancers	HMEC	breast
2	chr1:153003000-153003600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr1:153003000-153003600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr1:153003200-153008200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr1:153003400-153003600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
6	chr1:153003400-153006200	Flanking Active TSS	NHEK	skin

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