Variant report

Variant	rs12022009
Chromosome Location	chr1:169468718-169468719
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:169467114..169469226-chr1:169481035..169483350,2	K562	blood:
2	chr1:169463126..169465352-chr1:169467023..169469114,3	K562	blood:
3	chr1:169465829..169468810-chr1:169477819..169479657,2	MCF-7	breast:

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs1028180	1.00[CEU][hapmap]
rs12040141	1.00[CEU][hapmap];0.83[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12042044	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12733001	1.00[CEU][hapmap]
rs12733037	1.00[CEU][hapmap]
rs12752953	1.00[CEU][hapmap]
rs13306334	1.00[CEU][hapmap];0.83[CHB][hapmap];0.85[JPT][hapmap];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1533518	1.00[CEU][hapmap]
rs1533519	1.00[CEU][hapmap]
rs16862081	1.00[CEU][hapmap]
rs16862097	1.00[CEU][hapmap]
rs16862176	1.00[CEU][hapmap]
rs16862180	1.00[CEU][hapmap]
rs16862217	1.00[CEU][hapmap]
rs1883167	1.00[CEU][hapmap]
rs2037249	1.00[CEU][hapmap]
rs2040444	0.81[JPT][hapmap]
rs2066001	1.00[CEU][hapmap]
rs2271762	1.00[CEU][hapmap]
rs2301517	0.89[CHB][hapmap];0.95[JPT][hapmap];0.94[YRI][hapmap];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2420369	0.81[JPT][hapmap]
rs3213586	1.00[CEU][hapmap]
rs3213587	1.00[CEU][hapmap]
rs3766103	0.80[JPT][hapmap]
rs3862937	1.00[CEU][hapmap]
rs4140538	1.00[CEU][hapmap]
rs4140539	1.00[CEU][hapmap]
rs6008	0.89[EUR][1000 genomes]
rs6670407	0.80[JPT][hapmap]
rs66737090	0.90[EUR][1000 genomes]
rs7551623	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9332623	1.00[CEU][hapmap];0.83[CHB][hapmap];0.95[JPT][hapmap];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9332624	1.00[CEU][hapmap];0.85[JPT][hapmap];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9332628	1.00[CEU][hapmap];0.83[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9332647	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9332658	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9332678	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[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	esv10418	chr1:169059628-169621268	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription 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	56 gene(s)	inside rSNPs	diseases
2	nsv831871	chr1:169320673-169486680	Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:169465800-169468800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
2	chr1:169467000-169469000	Enhancers	Placenta	Placenta
3	chr1:169467800-169469600	Enhancers	HepG2	liver
4	chr1:169468000-169468800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr1:169468600-169469200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links