Variant report

Variant	rs1954285
Chromosome Location	chr1:71662977-71662978
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:71662550..71665187-chr1:71831887..71834481,2	K562	blood:
2	chr1:71662166..71663092-chr1:71987067..71987944,4	MCF-7	breast:
3	chr1:71650900..71653329-chr1:71661783..71664278,2	K562	blood:
4	chr1:71662232..71663221-chr1:71987100..71987819,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000226324	Chromatin interaction

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs1009311	1.00[ASN][1000 genomes]
rs11209743	0.82[ASN][1000 genomes]
rs11209747	0.85[ASN][1000 genomes]
rs11209756	0.96[ASN][1000 genomes]
rs11209757	0.89[ASN][1000 genomes]
rs11209761	0.84[ASN][1000 genomes]
rs11209762	0.84[ASN][1000 genomes]
rs11811835	0.84[ASN][1000 genomes]
rs12118599	1.00[ASN][1000 genomes]
rs12119958	0.96[ASN][1000 genomes]
rs12139565	0.96[ASN][1000 genomes]
rs12729268	1.00[ASN][1000 genomes]
rs12737582	0.84[ASN][1000 genomes]
rs12744775	0.84[ASN][1000 genomes]
rs12748649	0.85[ASN][1000 genomes]
rs1367767	0.84[ASN][1000 genomes]
rs1395289	0.84[ASN][1000 genomes]
rs1418449	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1546809	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1573061	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1832900	0.94[ASN][1000 genomes]
rs2066371	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2066373	0.96[ASN][1000 genomes]
rs2639329	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2639330	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2639331	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2639335	0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2639338	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2694954	0.96[ASN][1000 genomes]
rs2790675	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2796187	0.98[ASN][1000 genomes]
rs2796188	0.98[ASN][1000 genomes]
rs2796189	0.98[ASN][1000 genomes]
rs2796190	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2796192	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2796196	0.92[ASN][1000 genomes]
rs2796201	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2796202	1.00[ASN][1000 genomes]
rs2796203	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2817869	0.81[ASN][1000 genomes]
rs4272572	0.85[ASN][1000 genomes]
rs4367753	0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4397614	1.00[ASN][1000 genomes]
rs4425938	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6680193	0.85[ASN][1000 genomes]
rs7411	0.81[ASN][1000 genomes]
rs7525499	0.85[ASN][1000 genomes]
rs7556111	0.92[ASN][1000 genomes]
rs880098	0.81[ASN][1000 genomes]
rs952337	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

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	nsv997782	chr1:71628776-71668906	Enhancers Weak transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv949599	chr1:71655652-72327802	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:71659000-71663000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr1:71659400-71663000	Weak transcription	Breast Myoepithelial Primary Cells	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links