Variant report

Variant	rs9923409
Chromosome Location	chr16:58672948-58672949
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr16:58664236..58666541-chr16:58669812..58673129,3	K562	blood:
2	chr16:58662782..58668187-chr16:58668379..58674564,7	K562	blood:

Variant related genes	Relation type
ENSG00000125107	Chromatin interaction

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs13329892	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13333754	1.00[AMR][1000 genomes]
rs13334745	1.00[EUR][1000 genomes]
rs13334922	1.00[EUR][1000 genomes]
rs13335464	1.00[EUR][1000 genomes]
rs13335851	1.00[EUR][1000 genomes]
rs13335953	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13337650	1.00[EUR][1000 genomes]
rs13339352	1.00[EUR][1000 genomes]
rs28394663	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28468502	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28472773	1.00[EUR][1000 genomes]
rs28530777	1.00[EUR][1000 genomes]
rs28533067	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28613241	1.00[EUR][1000 genomes]
rs28644182	1.00[EUR][1000 genomes]
rs28744389	1.00[EUR][1000 genomes]
rs34698978	1.00[EUR][1000 genomes]
rs57335704	1.00[EUR][1000 genomes]
rs7186446	1.00[EUR][1000 genomes]
rs7193580	1.00[EUR][1000 genomes]
rs73550817	1.00[EUR][1000 genomes]
rs73550821	1.00[EUR][1000 genomes]
rs73558468	1.00[EUR][1000 genomes]
rs8048686	1.00[EUR][1000 genomes]
rs9746055	1.00[EUR][1000 genomes]
rs9924494	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9926053	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9930277	1.00[EUR][1000 genomes]
rs9938192	1.00[EUR][1000 genomes]
rs9938386	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9939324	1.00[EUR][1000 genomes]
rs9941013	1.00[EUR][1000 genomes]
rs9941175	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:17 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758427	chr16:58579005-58876037	Enhancers Strong transcription Genic enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	esv2758650	chr16:58579005-58876037	ZNF genes & repeats Active TSS Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	esv1794872	chr16:58619643-58678078	Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Enhancers Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv510686	chr16:58646119-58765894	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
5	nsv572791	chr16:58668566-58675370	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a
6	nsv572792	chr16:58668566-58676279	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a
7	esv3437646	chr16:58671851-58676449	Enhancers Weak transcription Bivalent Enhancer	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a
8	esv3523703	chr16:58672451-58678449	Enhancers Bivalent Enhancer Weak transcription	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
9	esv3523704	chr16:58672501-58678299	Enhancers Bivalent Enhancer Weak transcription	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
10	esv3523705	chr16:58672501-58678299	Enhancers Bivalent Enhancer Weak transcription	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
11	nsv572793	chr16:58672763-58675370	Enhancers Weak transcription Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
12	nsv572794	chr16:58672763-58676224	Weak transcription Bivalent Enhancer Enhancers	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
13	nsv572795	chr16:58672763-58676279	Enhancers Bivalent Enhancer Weak transcription	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
14	nsv572796	chr16:58672763-58676332	Enhancers Bivalent Enhancer Weak transcription	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
15	nsv528513	chr16:58672763-58717874	Strong transcription Active TSS Weak transcription Flanking Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	n/a
16	esv33099	chr16:58672772-58676185	Enhancers Weak transcription Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
17	esv3523702	chr16:58672779-58679451	Enhancers Weak transcription Bivalent Enhancer	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:58664800-58717200	Weak transcription	Right Atrium	heart
2	chr16:58669600-58673000	Enhancers	Placenta	Placenta
3	chr16:58671600-58673000	Enhancers	Breast Myoepithelial Primary Cells	Breast
4	chr16:58671600-58673200	Enhancers	HMEC	breast
5	chr16:58671800-58673000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr16:58671800-58673000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr16:58672000-58673000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr16:58672000-58673000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr16:58672000-58673000	Enhancers	A549	lung
10	chr16:58672200-58673000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr16:58672200-58673200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr16:58672400-58673000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr16:58672400-58673000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr16:58672400-58673000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links