Variant report

Variant	rs264012
Chromosome Location	chr1:45459462-45459463
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:45452472..45454113-chr1:45457671..45459951,2	K562	blood:
2	chr1:45284009..45285674-chr1:45458082..45459797,2	K562	blood:
3	chr1:45455788..45461421-chr1:45474837..45478788,5	MCF-7	breast:
4	chr1:45273538..45275897-chr1:45458719..45460723,2	K562	blood:

Variant related genes	Relation type
ENSG00000202444	Chromatin interaction
ENSG00000126088	Chromatin interaction
ENSG00000222009	Chromatin interaction
ENSG00000126107	Chromatin interaction

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs1007005	1.00[AMR][1000 genomes]
rs12407290	1.00[YRI][hapmap]
rs1561794	1.00[AMR][1000 genomes]
rs174638	1.00[AMR][1000 genomes]
rs174639	1.00[AMR][1000 genomes]
rs1892476	1.00[AMR][1000 genomes]
rs2211646	1.00[AMR][1000 genomes]
rs2265603	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs2476170	1.00[AFR][1000 genomes]
rs263984	1.00[YRI][hapmap]
rs263993	1.00[AFR][1000 genomes]
rs263995	1.00[AFR][1000 genomes]
rs264000	1.00[AFR][1000 genomes]
rs264001	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs264003	1.00[AFR][1000 genomes]
rs264016	1.00[AMR][1000 genomes]
rs264017	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs264018	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2883814	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs35710243	1.00[AMR][1000 genomes]
rs3923304	1.00[YRI][hapmap]
rs410800	0.89[AFR][1000 genomes]
rs411976	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs418302	1.00[AMR][1000 genomes]
rs425780	1.00[AMR][1000 genomes]
rs428928	1.00[AFR][1000 genomes]
rs449870	1.00[AFR][1000 genomes]
rs4660829	1.00[AMR][1000 genomes]
rs474207	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs492515	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs506691	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs536499	1.00[AFR][1000 genomes]
rs57755658	1.00[AMR][1000 genomes]
rs577647	1.00[AFR][1000 genomes]
rs58600794	1.00[AMR][1000 genomes]
rs58829168	1.00[AMR][1000 genomes]
rs59682873	1.00[AMR][1000 genomes]
rs60123910	1.00[AMR][1000 genomes]
rs61542654	1.00[AMR][1000 genomes]
rs638062	1.00[AFR][1000 genomes]
rs6666857	1.00[AMR][1000 genomes]
rs9429139	1.00[AFR][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	nsv529677	chr1:45179509-45748571	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	424 gene(s)	inside rSNPs	diseases
2	nsv1002026	chr1:45187594-45758048	Flanking Active TSS Enhancers Genic enhancers Strong transcription Weak transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	386 gene(s)	inside rSNPs	diseases
3	nsv915644	chr1:45282802-45696079	Enhancers Genic enhancers Strong transcription Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases
4	nsv498036	chr1:45428030-46050934	Active TSS Enhancers Flanking Active TSS Genic enhancers Weak transcription Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	191 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:45452800-45466600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
2	chr1:45452800-45467800	Weak transcription	Osteobl	bone
3	chr1:45452800-45475200	Weak transcription	Right Atrium	heart
4	chr1:45454600-45467800	Weak transcription	K562	blood
5	chr1:45457800-45460000	Weak transcription	HepG2	liver
6	chr1:45459200-45460000	Weak transcription	Cortex derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links