Variant report

Variant	rs12568084
Chromosome Location	chr1:9734287-9734288
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	chr1:9734041..9735853-chr1:9737561..9739742,2	MCF-7	breast:
2	chr1:9730384..9732236-chr1:9733949..9735646,2	K562	blood:

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs4240910	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs4333853	0.81[CHD][hapmap];0.95[JPT][hapmap]
rs4378250	0.82[CEU][hapmap]
rs4601595	0.81[CHB][hapmap];0.90[JPT][hapmap]
rs4846192	0.82[JPT][hapmap]
rs60881965	0.83[ASN][1000 genomes]
rs6660363	0.81[CHD][hapmap];0.95[JPT][hapmap]
rs6666059	0.83[ASN][1000 genomes]
rs6669509	0.81[CHD][hapmap];0.95[JPT][hapmap]
rs6671868	0.87[ASN][1000 genomes]
rs6675842	0.95[CHB][hapmap];0.83[ASN][1000 genomes]
rs6680148	0.87[ASN][1000 genomes]
rs6697096	0.80[ASN][1000 genomes]
rs9430635	0.86[CHD][hapmap];0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs9430636	0.86[CHD][hapmap];0.95[JPT][hapmap];0.80[ASN][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	esv3385337	chr1:9105242-10082223	Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	549 gene(s)	inside rSNPs	diseases
2	nsv871610	chr1:9655795-10008221	Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
3	esv3417409	chr1:9683992-10241703	Flanking Active TSS Enhancers Bivalent/Poised TSS Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
4	nsv832203	chr1:9726632-9860209	Flanking Active TSS Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:9713200-9744000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr1:9713200-9747200	Weak transcription	Pancreas	Pancrea
3	chr1:9714000-9739600	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr1:9722400-9734600	Genic enhancers	Primary T cells fromperipheralblood	blood
5	chr1:9723600-9736800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr1:9724400-9734400	Genic enhancers	Primary T helper cells fromperipheralblood	blood
7	chr1:9727200-9734600	Genic enhancers	Primary T helper cells PMA-I stimulated	--
8	chr1:9727200-9741000	Strong transcription	Dnd41	blood
9	chr1:9727800-9734600	Genic enhancers	Primary T helper naive cells fromperipheralblood	blood
10	chr1:9728000-9734400	Genic enhancers	Primary B cells from peripheral blood	blood
11	chr1:9729600-9746800	Weak transcription	Thymus	Thymus
12	chr1:9730600-9735000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr1:9730800-9734600	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
14	chr1:9730800-9740000	Strong transcription	Monocytes-CD14+_RO01746	blood
15	chr1:9731000-9734400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
16	chr1:9731000-9734400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr1:9731000-9739600	Strong transcription	Primary monocytes fromperipheralblood	blood
18	chr1:9731200-9734400	Genic enhancers	Primary T helper naive cells from peripheral blood	blood
19	chr1:9731800-9734400	Strong transcription	GM12878-XiMat	blood
20	chr1:9732000-9736600	Weak transcription	K562	blood
21	chr1:9732200-9735800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
22	chr1:9732200-9736600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
23	chr1:9732200-9736600	Weak transcription	Lung	lung
24	chr1:9732200-9737000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr1:9732400-9734600	Strong transcription	Primary T cells from cord blood	blood
26	chr1:9732400-9736600	Weak transcription	HepG2	liver
27	chr1:9732400-9741800	Weak transcription	A549	lung
28	chr1:9732600-9743800	Weak transcription	Primary hematopoietic stem cells	blood
29	chr1:9733000-9736200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
30	chr1:9733600-9734400	Genic enhancers	Primary neutrophils fromperipheralblood	blood
31	chr1:9733600-9734400	Genic enhancers	Primary T regulatory cells fromperipheralblood	blood
32	chr1:9733600-9736400	Strong transcription	Spleen	Spleen
33	chr1:9733800-9734400	Genic enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
34	chr1:9733800-9734600	Strong transcription	Fetal Thymus	thymus
35	chr1:9734000-9734400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
36	chr1:9734000-9734600	Genic enhancers	Primary T killer naive cells fromperipheralblood	blood
37	chr1:9734200-9734800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
38	chr1:9734200-9735400	Weak transcription	Primary B cells from cord blood	blood
39	chr1:9734200-9736400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
40	chr1:9734200-9736800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links