Variant report

Variant	rs9883215
Chromosome Location	chr3:156522061-156522062
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:156521817..156525806-chr3:156525939..156530007,4	MCF-7	breast:
2	chr3:156520527..156524062-chr3:156525428..156529948,5	K562	blood:
3	chr3:156513155..156515198-chr3:156521079..156523360,2	K562	blood:
4	chr3:156508855..156510383-chr3:156521044..156523599,2	K562	blood:
5	chr3:156520601..156523359-chr3:156541786..156544716,4	K562	blood:

Variant related genes	Relation type
ENSG00000230457	Chromatin interaction
ENSG00000197980	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs13317783	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16826938	0.87[ASW][hapmap];0.82[LWK][hapmap];1.00[MEX][hapmap]
rs1991618	0.87[ASW][hapmap];0.82[LWK][hapmap];1.00[MEX][hapmap];0.86[AFR][1000 genomes]
rs4474996	1.00[MEX][hapmap]
rs56231331	1.00[AMR][1000 genomes]
rs57472927	0.83[AFR][1000 genomes]
rs59077786	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61607068	0.86[AFR][1000 genomes]
rs6763606	0.86[AFR][1000 genomes]
rs6766799	1.00[AMR][1000 genomes]
rs6782196	1.00[AMR][1000 genomes]
rs6783136	1.00[AMR][1000 genomes]
rs6797924	1.00[MEX][hapmap]
rs73875742	1.00[AMR][1000 genomes]
rs73875746	1.00[AMR][1000 genomes]
rs7620432	1.00[MEX][hapmap]
rs7625660	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9810073	1.00[AMR][1000 genomes]
rs9811311	1.00[ASW][hapmap];0.82[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9815241	1.00[AMR][1000 genomes]
rs9824348	1.00[AMR][1000 genomes]
rs9825950	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9839563	1.00[AMR][1000 genomes]
rs9855517	0.83[AFR][1000 genomes]
rs9859716	1.00[ASW][hapmap];0.82[LWK][hapmap];1.00[MEX][hapmap]
rs9863865	1.00[YRI][hapmap]
rs9866769	0.86[AFR][1000 genomes]
rs9870882	1.00[AMR][1000 genomes]
rs9873640	0.86[AFR][1000 genomes]
rs9876941	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9883478	1.00[MEX][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv428745	chr3:156405054-156577840	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
2	nsv877685	chr3:156444383-156611676	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	48 gene(s)	inside rSNPs	diseases
3	nsv877686	chr3:156489509-156557697	Weak transcription Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	42 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156502800-156528400	Weak transcription	Esophagus	oesophagus
2	chr3:156502800-156529000	Weak transcription	Liver	Liver
3	chr3:156511200-156529000	Weak transcription	Primary T cells from cord blood	blood
4	chr3:156511400-156530400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
5	chr3:156514400-156525400	Weak transcription	Muscle Satellite Cultured Cells	--
6	chr3:156514400-156525800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr3:156517400-156529000	Weak transcription	A549	lung
8	chr3:156518000-156524800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr3:156518000-156529800	Weak transcription	Pancreatic Islets	Pancreatic Islet
10	chr3:156519800-156523600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr3:156520200-156525800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
12	chr3:156520200-156530400	Weak transcription	Right Ventricle	heart
13	chr3:156520400-156524800	Weak transcription	NHEK	skin
14	chr3:156520400-156525800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr3:156520600-156522200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr3:156521400-156522800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr3:156521600-156522200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr3:156521800-156522200	Enhancers	Primary neutrophils fromperipheralblood	blood
19	chr3:156521800-156522400	Enhancers	Primary hematopoietic stem cells short term culture	blood
20	chr3:156522000-156522200	Enhancers	Gastric	stomach
21	chr3:156522000-156522600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links