Variant report

Variant	rs16834172
Chromosome Location	chr1:152488838-152488839
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:152485897..152487871-chr1:152488735..152491342,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000169509	Chromatin interaction

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs1001832	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1001833	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11205011	0.85[AMR][1000 genomes]
rs11205013	0.85[AMR][1000 genomes]
rs11205015	1.00[AMR][1000 genomes]
rs11205016	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11205019	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11205020	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11205021	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11205022	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12079099	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12081449	0.85[AMR][1000 genomes]
rs12083339	1.00[AMR][1000 genomes]
rs12091397	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12097074	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1337339	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs1337343	1.00[AMR][1000 genomes]
rs1361061	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16834165	1.00[AMR][1000 genomes]
rs16834179	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1819602	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1856122	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4573527	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6674436	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6695861	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73004851	1.00[AMR][1000 genomes]
rs73004866	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73004867	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73004887	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73006961	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73006963	0.97[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs73006967	0.87[AMR][1000 genomes]
rs7526623	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7531805	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7531924	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7538262	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7541949	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7542704	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7549858	0.85[AMR][1000 genomes]
rs945787	0.87[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916016	chr1:152337775-152590520	Weak transcription Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv1014393	chr1:152451935-152491693	Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	esv2750810	chr1:152453669-152660927	Enhancers Weak transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv1012908	chr1:152464844-152517845	Enhancers Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv1005553	chr1:152464844-152519197	Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv1013357	chr1:152469744-152519184	Enhancers Active TSS Bivalent Enhancer Weak transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	esv1798404	chr1:152472839-152587113	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
8	esv1827111	chr1:152472839-152690073	Weak transcription Bivalent Enhancer Enhancers Bivalent/Poised TSS ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
9	esv1830764	chr1:152472839-152690073	Weak transcription Enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
10	esv2757755	chr1:152472839-152898153	Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
11	esv2758970	chr1:152472839-152898153	ZNF genes & repeats Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
12	nsv518413	chr1:152488428-152497685	Enhancers ZNF genes & repeats Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:152487200-152489600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr1:152488200-152489400	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
3	chr1:152488200-152490200	Enhancers	HMEC	breast
4	chr1:152488400-152489000	Weak transcription	Esophagus	oesophagus
5	chr1:152488400-152489600	Weak transcription	HSMM	muscle
6	chr1:152488400-152489800	Enhancers	A549	lung
7	chr1:152488600-152490600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr1:152488600-152490600	Enhancers	NHEK	skin
9	chr1:152488800-152489200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

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