Variant report

Variant	rs9930141
Chromosome Location	chr16:80687642-80687643
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	chr16:80686642..80688263-chr16:80836979..80838505,2	MCF-7	breast:
2	chr16:80649156..80651296-chr16:80686426..80687984,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000166446	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10514505	0.81[CEU][hapmap]
rs10871391	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11859496	0.81[CEU][hapmap]
rs12444299	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12448651	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12716895	0.86[ASN][1000 genomes]
rs12920375	0.94[ASN][1000 genomes]
rs12931703	0.94[ASN][1000 genomes]
rs13331233	0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1377119	1.00[CEU][hapmap];0.86[CHB][hapmap];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1452505	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17752269	0.81[CEU][hapmap]
rs2123284	0.89[CEU][hapmap];0.85[GIH][hapmap];0.82[MEX][hapmap];0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2316152	0.85[CEU][hapmap];0.84[JPT][hapmap]
rs2873085	0.91[ASN][1000 genomes]
rs34889599	0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4344764	0.88[ASN][1000 genomes]
rs4366717	0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4462607	0.90[ASN][1000 genomes]
rs4536490	0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs4550468	0.86[ASN][1000 genomes]
rs4889188	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4889189	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4889190	1.00[ASW][hapmap];0.89[CEU][hapmap];0.95[CHB][hapmap];0.90[GIH][hapmap];0.91[JPT][hapmap];0.95[MEX][hapmap];0.90[YRI][hapmap];0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4889191	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4889192	0.85[EUR][1000 genomes]
rs4889193	0.85[CEU][hapmap];0.84[EUR][1000 genomes]
rs4889194	0.80[CEU][hapmap];0.81[EUR][1000 genomes]
rs7189183	0.82[CEU][hapmap];0.90[CHB][hapmap];0.85[JPT][hapmap];0.81[YRI][hapmap];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7190973	0.81[CEU][hapmap]
rs7195952	0.81[CEU][hapmap]
rs8048112	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs8053722	0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs8055716	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8057515	0.81[CHB][hapmap]
rs896629	0.81[CEU][hapmap]
rs9888872	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9889160	0.80[JPT][hapmap];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9931314	0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1060621	chr16:80532848-80980616	Weak transcription Active TSS ZNF genes & repeats Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
2	nsv542989	chr16:80532848-80980616	Enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Weak transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
3	nsv1058764	chr16:80656966-80707848	Active TSS Flanking Active TSS Weak transcription Enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv1057357	chr16:80662770-80794945	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 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	chr16:80646600-80687800	Weak transcription	Pancreas	Pancrea
2	chr16:80663200-80690200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr16:80667400-80690000	Weak transcription	Spleen	Spleen
4	chr16:80674400-80687800	Weak transcription	Hela-S3	cervix
5	chr16:80674400-80707600	Weak transcription	Placenta	Placenta
6	chr16:80684600-80690400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
7	chr16:80684800-80689600	Weak transcription	Primary T helper cells PMA-I stimulated	--
8	chr16:80684800-80689800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
9	chr16:80684800-80689800	Weak transcription	Primary T helper cells fromperipheralblood	blood
10	chr16:80684800-80689800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
11	chr16:80684800-80689800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
12	chr16:80684800-80690000	Weak transcription	Primary hematopoietic stem cells	blood
13	chr16:80684800-80690000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
14	chr16:80685200-80690000	Weak transcription	Monocytes-CD14+_RO01746	blood
15	chr16:80685800-80690200	Weak transcription	HUVEC	blood vessel
16	chr16:80685800-80691800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr16:80686800-80690800	Weak transcription	Fetal Kidney	kidney
18	chr16:80687000-80716200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr16:80687200-80692400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr16:80687400-80689600	Weak transcription	Primary T cells fromperipheralblood	blood
21	chr16:80687600-80687800	Enhancers	Fetal Intestine Small	intestine
22	chr16:80687600-80688200	ZNF genes & repeats	Aorta	Aorta
23	chr16:80687600-80688200	Enhancers	Lung	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links