Variant report

Variant	rs11564132
Chromosome Location	chr12:40550174-40550175
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs10747955	1.00[ASN][1000 genomes]
rs10747959	1.00[ASN][1000 genomes]
rs10784283	1.00[ASN][1000 genomes]
rs10878226	0.88[YRI][hapmap]
rs10878246	1.00[YRI][hapmap]
rs11175620	0.88[YRI][hapmap]
rs11175645	0.88[YRI][hapmap]
rs11175655	1.00[YRI][hapmap]
rs11175658	0.88[YRI][hapmap]
rs11175666	0.88[YRI][hapmap]
rs11564118	0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11564120	1.00[ASN][1000 genomes]
rs11564122	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11564226	1.00[ASN][1000 genomes]
rs11564274	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11564275	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12099949	1.00[CEU][hapmap];1.00[CHB][hapmap];0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1497046	1.00[ASN][1000 genomes]
rs1497048	1.00[ASN][1000 genomes]
rs1566127	1.00[ASN][1000 genomes]
rs17442665	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17442735	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17442812	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17442853	1.00[YRI][hapmap]
rs17458341	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17458780	0.85[CEU][hapmap];1.00[CHB][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17458836	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17458974	1.00[CEU][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17465428	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17489985	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17519573	0.88[YRI][hapmap]
rs2132745	1.00[ASN][1000 genomes]
rs2132746	1.00[ASN][1000 genomes]
rs2404351	1.00[ASN][1000 genomes]
rs28370599	1.00[ASN][1000 genomes]
rs2952711	0.86[EUR][1000 genomes]
rs34714539	1.00[ASN][1000 genomes]
rs35985096	1.00[ASN][1000 genomes]
rs4768196	1.00[ASN][1000 genomes]
rs4768202	1.00[ASN][1000 genomes]
rs6581438	1.00[ASN][1000 genomes]
rs6581439	1.00[ASN][1000 genomes]
rs7135678	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[YRI][hapmap];0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7138075	1.00[ASN][1000 genomes]
rs7138078	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs71449744	1.00[ASN][1000 genomes]
rs7294619	0.88[YRI][hapmap]
rs7300161	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7305155	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7305994	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74088117	1.00[ASN][1000 genomes]
rs7959787	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs937385	1.00[ASN][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	nsv558596	chr12:40413698-40591117	Active TSS Flanking Active TSS Bivalent Enhancer Enhancers Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv899030	chr12:40509341-40580440	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv899031	chr12:40520684-40580440	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv1045516	chr12:40543200-40589557	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:40547200-40558600	Weak transcription	Liver	Liver
2	chr12:40547600-40551800	Weak transcription	NHEK	skin
3	chr12:40547800-40551200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr12:40547800-40551200	Weak transcription	HMEC	breast
5	chr12:40547800-40551800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr12:40547800-40552200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr12:40548400-40551200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr12:40548600-40550200	Enhancers	HUES64 Cell Line	embryonic stem cell
9	chr12:40548800-40553800	Weak transcription	H1 Cell Line	embryonic stem cell
10	chr12:40549200-40550200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
11	chr12:40549600-40550400	Enhancers	Primary B cells from peripheral blood	blood
12	chr12:40549600-40552200	Enhancers	Primary monocytes fromperipheralblood	blood
13	chr12:40549800-40550200	Enhancers	Primary B cells from cord blood	blood
14	chr12:40549800-40550200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr12:40549800-40550600	Active TSS	Pancreatic Islets	Pancreatic Islet
16	chr12:40549800-40551600	Enhancers	Primary neutrophils fromperipheralblood	blood
17	chr12:40550000-40550200	Enhancers	HUES48 Cell Line	embryonic stem cell
18	chr12:40550000-40550200	Enhancers	Fetal Kidney	kidney
19	chr12:40550000-40550200	Enhancers	Monocytes-CD14+_RO01746	blood

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