Variant report

Variant	rs12270790
Chromosome Location	chr11:86138490-86138491
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs10466700	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10466729	0.97[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs10466730	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11234643	0.85[YRI][hapmap];0.89[AFR][1000 genomes]
rs11234647	1.00[JPT][hapmap];0.95[YRI][hapmap];0.97[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs11234648	1.00[JPT][hapmap];0.90[YRI][hapmap];0.92[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs11824889	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11828146	0.82[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs11828283	0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12270471	1.00[JPT][hapmap];0.86[YRI][hapmap];0.92[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12270570	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12270761	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12272259	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12272318	0.89[AFR][1000 genomes]
rs12273667	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12276248	0.82[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12277432	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12278247	0.82[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12280555	1.00[JPT][hapmap];0.95[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12280833	1.00[JPT][hapmap];0.92[YRI][hapmap];0.97[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12281645	1.00[ASN][1000 genomes]
rs12283035	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12285249	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12288560	0.94[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12289817	0.82[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12291532	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12292316	1.00[JPT][hapmap];0.81[YRI][hapmap];0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12293159	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12293545	1.00[JPT][hapmap];0.86[YRI][hapmap];0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12294756	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12804130	1.00[ASN][1000 genomes]
rs12804407	1.00[ASN][1000 genomes]
rs12805940	0.82[JPT][hapmap];1.00[ASN][1000 genomes]
rs1452136	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1452137	1.00[ASN][1000 genomes]
rs1458381	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17149063	0.99[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17149064	1.00[CEU][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17819176	0.82[JPT][hapmap];1.00[ASN][1000 genomes]
rs2242142	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2279047	0.82[JPT][hapmap];1.00[ASN][1000 genomes]
rs34416639	1.00[ASN][1000 genomes]
rs34939684	1.00[ASN][1000 genomes]
rs35686713	1.00[ASN][1000 genomes]
rs3741001	1.00[ASN][1000 genomes]
rs3741002	0.82[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs3741003	0.82[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs3781806	1.00[ASN][1000 genomes]
rs3781813	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3824953	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs56009909	1.00[ASN][1000 genomes]
rs58228993	1.00[ASN][1000 genomes]
rs58354189	1.00[ASN][1000 genomes]
rs66833360	1.00[ASN][1000 genomes]
rs66872826	1.00[ASN][1000 genomes]
rs7107941	1.00[ASN][1000 genomes]
rs7108053	0.82[JPT][hapmap]
rs7122296	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7122406	1.00[CEU][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7129977	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72953614	1.00[ASN][1000 genomes]
rs7932664	1.00[CEU][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7948566	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7948764	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	nsv1044081	chr11:86133641-86868560	Bivalent/Poised TSS Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv541118	chr11:86133641-86868560	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:86108600-86138600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr11:86117800-86142200	Weak transcription	Fetal Stomach	stomach
3	chr11:86118200-86151000	Weak transcription	Skeletal Muscle Female	skeletal muscle
4	chr11:86118400-86142800	Weak transcription	Left Ventricle	heart
5	chr11:86119600-86142200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr11:86124600-86142200	Weak transcription	Aorta	Aorta
7	chr11:86131400-86142400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr11:86132200-86142200	Weak transcription	Spleen	Spleen
9	chr11:86136200-86143600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr11:86136200-86145000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr11:86136800-86170200	Weak transcription	Fetal Heart	heart
12	chr11:86137000-86142200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr11:86138400-86139200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links