Variant report

Variant	rs16853906
Chromosome Location	chr3:143313447-143313448
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	chr3:143310510..143312815-chr3:143313075..143315988,2	K562	blood:
2	chr3:143312590..143314218-chr3:143316587..143318859,2	K562	blood:

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs11927396	0.83[AMR][1000 genomes]
rs16854231	1.00[EUR][1000 genomes]
rs16854235	1.00[EUR][1000 genomes]
rs3894056	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58518314	1.00[EUR][1000 genomes]
rs6781492	1.00[EUR][1000 genomes]
rs72993546	1.00[EUR][1000 genomes]
rs73001769	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73001776	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73005522	0.83[AMR][1000 genomes]
rs73005545	1.00[EUR][1000 genomes]
rs73009383	1.00[EUR][1000 genomes]
rs73009477	1.00[EUR][1000 genomes]
rs7610497	1.00[EUR][1000 genomes]
rs7631610	1.00[EUR][1000 genomes]
rs7632231	1.00[EUR][1000 genomes]
rs7636796	1.00[EUR][1000 genomes]
rs7647113	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949288	chr3:142793323-143585882	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	nsv829745	chr3:143278512-143405626	Weak transcription Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:143294400-143317800	Weak transcription	Brain Substantia Nigra	brain
2	chr3:143297600-143320000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr3:143297600-143339000	Weak transcription	Primary T cells fromperipheralblood	blood
4	chr3:143300400-143336800	Weak transcription	Primary T cells from cord blood	blood
5	chr3:143306000-143314000	Weak transcription	Monocytes-CD14+_RO01746	blood
6	chr3:143309800-143316000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr3:143310000-143316200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr3:143310200-143315600	Weak transcription	K562	blood
9	chr3:143311000-143314400	Enhancers	Duodenum Mucosa	Duodenum
10	chr3:143311000-143314400	Enhancers	Stomach Mucosa	stomach
11	chr3:143311400-143316400	Weak transcription	Placenta	Placenta
12	chr3:143312000-143314400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr3:143312600-143313600	Enhancers	Gastric	stomach
14	chr3:143312600-143313800	Enhancers	Fetal Lung	lung
15	chr3:143312600-143314000	Enhancers	Fetal Intestine Large	intestine
16	chr3:143312600-143314000	Enhancers	Fetal Intestine Small	intestine
17	chr3:143312600-143314800	Enhancers	Rectal Mucosa Donor 31	rectum
18	chr3:143312800-143314000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr3:143312800-143314000	Enhancers	Rectal Mucosa Donor 29	rectum
20	chr3:143313200-143313600	Enhancers	Pancreas	Pancrea
21	chr3:143313200-143314200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
22	chr3:143313200-143315000	Enhancers	Small Intestine	intestine
23	chr3:143313400-143314000	Active TSS	Fetal Brain Male	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links