Variant report

Variant	rs12239406
Chromosome Location	chr1:173681993-173681994
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:173675475..173677771-chr1:173680197..173682201,2	K562	blood:
2	chr1:173680351..173683002-chr1:173689911..173692365,2	K562	blood:
3	chr1:173648900..173651507-chr1:173681730..173683630,2	K562	blood:

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10082296	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10128064	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10158274	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10159349	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13313018	1.00[AMR][1000 genomes]
rs13353004	0.83[AFR][1000 genomes]
rs13374735	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13375569	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13376081	1.00[AMR][1000 genomes]
rs13376339	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13376392	1.00[AMR][1000 genomes]
rs13376447	1.00[AMR][1000 genomes]
rs2227605	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2227621	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs34683148	1.00[AMR][1000 genomes]
rs35052032	1.00[AMR][1000 genomes]
rs35133735	1.00[AMR][1000 genomes]
rs4650988	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4652416	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6425252	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6656810	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6665497	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7349122	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7349166	0.91[AFR][1000 genomes]
rs7518933	1.00[AMR][1000 genomes]
rs7525411	0.96[AFR][1000 genomes]
rs7532991	1.00[AMR][1000 genomes]
rs7536930	0.91[AFR][1000 genomes]
rs7540898	1.00[AMR][1000 genomes]
rs9286893	1.00[AMR][1000 genomes]
rs9425412	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9425417	1.00[AMR][1000 genomes]
rs9425429	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9425432	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9425437	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9425732	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9425733	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9425737	1.00[AMR][1000 genomes]
rs9425739	1.00[AMR][1000 genomes]
rs9425743	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9425744	1.00[AMR][1000 genomes]
rs9425767	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9425769	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9425770	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9425771	0.91[AFR][1000 genomes]
rs9425777	0.91[AFR][1000 genomes]
rs9425778	0.91[AFR][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	nsv1012384	chr1:173614816-173974426	Strong transcription Weak transcription Active TSS Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Active 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	294 gene(s)	inside rSNPs	diseases
2	nsv1014827	chr1:173653453-173692470	Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:173681000-173683000	Weak transcription	HepG2	liver
2	chr1:173681000-173683200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr1:173681000-173683400	Weak transcription	K562	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links