Variant report

Variant	rs2900385
Chromosome Location	chr12:10391616-10391617
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	chr12:10390106..10391990-chr12:10392432..10394861,2	K562	blood:
2	chr12:10389529..10391922-chr12:10874501..10876323,2	K562	blood:

Variant related genes	Relation type
ENSG00000060138	Chromatin interaction

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs10505754	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs10734822	1.00[CEU][hapmap]
rs10734823	1.00[CEU][hapmap]
rs10734824	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap]
rs10743876	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10743878	1.00[CEU][hapmap]
rs10743879	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs10743880	1.00[CEU][hapmap]
rs10772244	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10772245	0.88[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs10772246	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10845098	1.00[CEU][hapmap]
rs10845099	0.85[GIH][hapmap]
rs11053719	1.00[CEU][hapmap]
rs11539	1.00[CEU][hapmap];0.88[CHB][hapmap];0.92[CHD][hapmap];0.90[GIH][hapmap];1.00[TSI][hapmap];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11834167	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11837211	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12310669	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2045881	1.00[CEU][hapmap]
rs2417582	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2417584	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2417585	1.00[CEU][hapmap]
rs2417586	1.00[CEU][hapmap]
rs2537782	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];0.89[JPT][hapmap];1.00[TSI][hapmap];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2537800	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2537801	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4254156	0.87[GIH][hapmap]
rs4267162	1.00[CEU][hapmap]
rs4372546	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs4483689	1.00[CEU][hapmap]
rs4764331	0.84[GIH][hapmap]
rs4764332	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4764333	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4764337	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4764342	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4764359	1.00[CEU][hapmap]
rs55823125	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs58510785	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs59389382	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs59511495	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59761822	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60221429	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs61658032	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6488277	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6488279	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs66996903	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7136409	0.84[GIH][hapmap]
rs7137304	0.96[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7302157	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7302532	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs73053363	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73053368	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73053387	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73053396	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73060068	0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs73060081	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73062005	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73068064	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73068080	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7315203	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs765790	0.87[GIH][hapmap]
rs7959312	1.00[CEU][hapmap];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7959512	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7960272	1.00[CEU][hapmap]
rs7962426	1.00[CEU][hapmap]
rs7974717	1.00[CEU][hapmap]

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	nsv898757	chr12:10229281-10614641	Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
2	nsv1054811	chr12:10350587-10440005	Enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:10376400-10395000	Weak transcription	Pancreas	Pancrea
2	chr12:10376400-10397600	Weak transcription	Aorta	Aorta
3	chr12:10377200-10394200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr12:10377200-10394600	Weak transcription	Stomach Smooth Muscle	stomach
5	chr12:10377200-10399000	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr12:10377800-10404400	Weak transcription	Left Ventricle	heart
7	chr12:10380200-10395800	Weak transcription	Thymus	Thymus
8	chr12:10387200-10396800	Weak transcription	Liver	Liver
9	chr12:10387400-10392000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr12:10388400-10392000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
11	chr12:10389200-10394400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr12:10390200-10393400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
13	chr12:10390400-10392800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr12:10390400-10392800	Weak transcription	Placenta	Placenta
15	chr12:10390400-10393200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr12:10390400-10394800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
17	chr12:10391400-10392200	Enhancers	Fetal Lung	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links