Variant report

Variant	rs16827308
Chromosome Location	chr3:156919138-156919139
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:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

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

No.	Distal block	Cell Line	Cell type
1	chr3:156875185..156880246-chr3:156915839..156922107,12	K562	blood:
2	chr3:156872801..156875141-chr3:156917968..156922076,3	K562	blood:
3	chr3:156890802..156892781-chr3:156917700..156920010,2	MCF-7	breast:
4	chr3:156873291..156875141-chr3:156917968..156919549,2	K562	blood:
5	chr3:156875185..156879753-chr3:156915839..156922107,8	K562	blood:
6	chr3:156891845..156893389-chr3:156917560..156921097,3	MCF-7	breast:
7	chr3:156875720..156879203-chr3:156917751..156922284,5	MCF-7	breast:
8	chr3:156875709..156878595-chr3:156916349..156920525,3	MCF-7	breast:
9	chr3:156918691..156919685-chr3:156957052..156957552,2	K562	blood:
10	chr3:156880369..156881165-chr3:156919127..156919741,3	K562	blood:

No data

Variant related genes	Relation type
ENSG00000222675	Chromatin interaction
ENSG00000163660	Chromatin interaction
ENSG00000243176	Chromatin interaction

Extended variants
information (count: 69 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs10451916	0.88[CEU][hapmap];0.93[YRI][hapmap]
rs1046938	0.88[CEU][hapmap]
rs10513507	0.88[CEU][hapmap]
rs1060543	0.88[CEU][hapmap];0.90[YRI][hapmap]
rs10804777	0.87[CHB][hapmap]
rs10936063	0.87[CEU][hapmap]
rs10936066	0.87[CEU][hapmap]
rs1157738	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12488480	0.87[CEU][hapmap]
rs12492801	0.87[CEU][hapmap]
rs12493531	0.88[EUR][1000 genomes]
rs12496111	0.86[CEU][hapmap]
rs12632562	0.83[CEU][hapmap]
rs12633429	0.87[CEU][hapmap]
rs12637932	0.91[CHB][hapmap]
rs13061214	0.92[CEU][hapmap];0.89[YRI][hapmap]
rs13081036	0.92[CEU][hapmap];0.90[YRI][hapmap]
rs13081038	0.88[CEU][hapmap];0.89[YRI][hapmap]
rs1392799	0.88[CEU][hapmap];0.93[YRI][hapmap]
rs1403104	1.00[CEU][hapmap];0.87[CHB][hapmap];0.86[JPT][hapmap];0.88[EUR][1000 genomes]
rs1403106	0.87[CEU][hapmap]
rs1587535	0.88[CEU][hapmap];0.90[YRI][hapmap]
rs1608127	0.92[CEU][hapmap];0.90[YRI][hapmap]
rs16827322	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1969066	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1995304	0.88[CEU][hapmap]
rs2047647	0.86[CHB][hapmap]
rs2874616	0.87[CEU][hapmap]
rs3749214	0.88[CEU][hapmap];0.89[YRI][hapmap]
rs3935750	0.87[CEU][hapmap]
rs4256081	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4679788	0.84[CEU][hapmap]
rs4680340	0.87[CEU][hapmap]
rs4680342	0.81[CEU][hapmap];0.87[YRI][hapmap]
rs4680343	0.87[CEU][hapmap]
rs4680345	0.87[CEU][hapmap]
rs4680346	0.88[CEU][hapmap];0.90[YRI][hapmap]
rs4680347	1.00[CEU][hapmap];0.87[CHB][hapmap];0.96[JPT][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4680352	0.87[CEU][hapmap]
rs5003893	0.87[CEU][hapmap]
rs58666615	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62276493	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62276528	0.86[EUR][1000 genomes]
rs6441115	0.87[CEU][hapmap]
rs6441116	0.87[CEU][hapmap]
rs6441123	0.87[CEU][hapmap];0.90[YRI][hapmap]
rs6767619	0.91[CEU][hapmap];0.90[YRI][hapmap]
rs6768074	0.88[CEU][hapmap]
rs6781682	0.83[CEU][hapmap]
rs6783595	0.81[CEU][hapmap]
rs6788214	0.84[CEU][hapmap]
rs6805114	0.83[CEU][hapmap]
rs6805989	0.87[CEU][hapmap]
rs6808457	0.88[CEU][hapmap];0.90[YRI][hapmap]
rs6809003	0.81[CEU][hapmap];0.93[YRI][hapmap]
rs6809307	0.87[CEU][hapmap]
rs6809394	0.80[CEU][hapmap]
rs68122740	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73154652	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7621912	0.88[CEU][hapmap]
rs7625059	0.88[CEU][hapmap];0.93[YRI][hapmap]
rs7638194	0.88[CEU][hapmap]
rs7647643	0.88[CEU][hapmap];0.93[YRI][hapmap]
rs7648599	0.87[CEU][hapmap]
rs7652298	0.88[CEU][hapmap]
rs872652	0.87[CHB][hapmap]
rs8925	0.87[CEU][hapmap]
rs9827676	0.82[CEU][hapmap];0.90[YRI][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv829766	chr3:156811536-157020551	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	144 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156905000-156922800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr3:156905200-156919200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr3:156917200-156919800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr3:156917600-156919800	Enhancers	Cortex derived primary cultured neurospheres	brain
5	chr3:156918000-156919600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr3:156918000-156920400	Enhancers	Fetal Brain Male	brain
7	chr3:156918200-156919200	Weak transcription	NHDF-Ad	bronchial
8	chr3:156918200-156919200	Weak transcription	NHLF	lung
9	chr3:156918200-156919200	Weak transcription	Osteobl	bone
10	chr3:156918200-156919400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr3:156918800-156919400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr3:156918800-156919400	Enhancers	Fetal Brain Female	brain
13	chr3:156918800-156920000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr3:156919000-156919600	Enhancers	Muscle Satellite Cultured Cells	--
15	chr3:156919000-156919600	Enhancers	Brain Hippocampus Middle	brain
16	chr3:156919000-156919800	Enhancers	Brain Angular Gyrus	brain

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