Variant report

Variant	rs1622590
Chromosome Location	chr12:44288061-44288062
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:44153831..44156325-chr12:44288014..44290828,2	MCF-7	breast:

Extended variants
information (count: 115 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:114)

rs_ID	r²[population]
rs10506231	0.90[CHB][hapmap];0.85[JPT][hapmap]
rs1057486	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10736017	0.94[ASN][1000 genomes]
rs10748373	0.87[EUR][1000 genomes]
rs10748378	0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10785462	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10785463	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10785466	0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10785468	0.90[EUR][1000 genomes]
rs10785469	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10785481	1.00[ASW][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];0.82[TSI][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs10880573	0.90[CHB][hapmap];0.85[JPT][hapmap];0.87[ASN][1000 genomes]
rs10880578	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10880585	0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10880587	0.86[MEX][hapmap];0.82[TSI][hapmap];0.81[EUR][1000 genomes]
rs11182273	0.90[CHB][hapmap];0.82[CHD][hapmap];0.85[JPT][hapmap]
rs11182275	0.90[CHB][hapmap];0.85[JPT][hapmap]
rs11182280	0.90[CHB][hapmap];0.85[JPT][hapmap]
rs11182290	0.90[CHB][hapmap];0.85[JPT][hapmap]
rs11182293	0.93[CEU][hapmap];0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11182324	0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11182325	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12298970	0.85[EUR][1000 genomes]
rs12311962	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs12314126	1.00[CEU][hapmap];0.96[TSI][hapmap];0.82[EUR][1000 genomes]
rs1358705	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1406787	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1609548	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1609549	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1610291	0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1614042	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1621279	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1623667	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs1623829	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1675755	0.93[CEU][hapmap];0.88[GIH][hapmap];0.93[MEX][hapmap];0.91[MKK][hapmap];0.85[TSI][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1675756	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1675758	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1675764	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1675765	0.93[CEU][hapmap];0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1675767	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1675769	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1675771	1.00[CEU][hapmap];0.96[TSI][hapmap];0.87[EUR][1000 genomes]
rs1675772	0.91[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap]
rs1675774	0.89[EUR][1000 genomes]
rs1675776	0.86[EUR][1000 genomes]
rs1675778	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs1675781	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1675782	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs1675783	0.87[EUR][1000 genomes]
rs1675784	0.87[EUR][1000 genomes]
rs1675785	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1675787	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.80[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1675788	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs1675789	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1675790	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1731423	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1731427	1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs1731429	0.98[ASN][1000 genomes]
rs1731430	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1731431	0.86[CHB][hapmap];0.85[JPT][hapmap];0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1731432	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1731434	0.91[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1731438	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs1731439	1.00[CEU][hapmap];0.96[TSI][hapmap];0.89[EUR][1000 genomes]
rs1731440	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs1731442	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs1731447	0.91[ASN][1000 genomes]
rs1731448	1.00[CEU][hapmap];0.96[TSI][hapmap];0.86[EUR][1000 genomes]
rs1731452	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1731454	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1731456	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1731457	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1731458	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1731459	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1881927	0.81[EUR][1000 genomes]
rs2219629	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2407783	0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2447113	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2447114	0.87[EUR][1000 genomes]
rs2447115	0.87[EUR][1000 genomes]
rs2447116	0.87[EUR][1000 genomes]
rs2614394	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2951435	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2951436	0.87[EUR][1000 genomes]
rs3764004	0.88[CHB][hapmap];0.85[JPT][hapmap]
rs4238089	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4238090	0.94[ASN][1000 genomes]
rs4238091	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4354753	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs4363674	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4469953	0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4537822	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4572198	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4572199	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4609659	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4768049	0.86[EUR][1000 genomes]
rs4768052	0.87[ASN][1000 genomes]
rs4768053	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[TSI][hapmap];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4768055	0.81[EUR][1000 genomes]
rs4768538	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4768543	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs5019975	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6582484	0.90[CHB][hapmap];0.85[JPT][hapmap]
rs7295151	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7305609	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73096934	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7311847	0.90[ASW][hapmap];1.00[MEX][hapmap];0.82[TSI][hapmap];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7488456	1.00[YRI][hapmap]
rs7955615	0.91[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7965240	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7965330	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7965873	0.86[MEX][hapmap]
rs7972025	0.90[CHB][hapmap];0.91[CHD][hapmap];0.85[JPT][hapmap];0.84[ASN][1000 genomes]
rs7974214	0.81[EUR][1000 genomes]

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	nsv899048	chr12:44209423-44307888	Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:44240400-44293000	Weak transcription	Aorta	Aorta
2	chr12:44279200-44292600	Weak transcription	Left Ventricle	heart
3	chr12:44279200-44297600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr12:44282800-44289800	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr12:44286200-44289200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr12:44286600-44289000	Weak transcription	Fetal Intestine Large	intestine
7	chr12:44287000-44290000	Weak transcription	HSMMtube	muscle
8	chr12:44287400-44288200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr12:44288000-44288200	Weak transcription	Pancreas	Pancrea
10	chr12:44288000-44296000	Weak transcription	Psoas Muscle	Psoas

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links