Variant report

Variant	rs11564120
Chromosome Location	chr12:40344666-40344667
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10747955	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10747959	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10784283	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[TSI][hapmap];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10877840	1.00[LWK][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs11564118	1.00[ASN][1000 genomes]
rs11564122	1.00[ASN][1000 genomes]
rs11564132	1.00[ASN][1000 genomes]
rs11564226	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11564275	1.00[ASN][1000 genomes]
rs12099949	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs1497046	0.90[CEU][hapmap];1.00[CHB][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1497048	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1566127	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17442665	1.00[ASN][1000 genomes]
rs17442735	1.00[ASN][1000 genomes]
rs17442812	1.00[ASN][1000 genomes]
rs17458341	1.00[ASN][1000 genomes]
rs17458780	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs17458836	1.00[ASN][1000 genomes]
rs17458974	1.00[ASN][1000 genomes]
rs17465428	1.00[ASN][1000 genomes]
rs17489985	1.00[ASN][1000 genomes]
rs2132745	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2132746	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2404351	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[TSI][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28370599	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34714539	0.91[AFR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35985096	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4768196	0.90[CEU][hapmap];1.00[CHB][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4768202	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs574918	0.91[GIH][hapmap];0.90[TSI][hapmap];0.85[EUR][1000 genomes]
rs6581438	0.90[CEU][hapmap];1.00[CHB][hapmap];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6581439	0.90[CEU][hapmap];1.00[GIH][hapmap];0.90[TSI][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7135678	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs7136390	0.81[AFR][1000 genomes]
rs7138075	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7138078	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71449744	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7300161	1.00[ASN][1000 genomes]
rs7305155	1.00[ASN][1000 genomes]
rs7305863	1.00[LWK][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs7305994	1.00[ASN][1000 genomes]
rs7312341	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs74088117	1.00[ASN][1000 genomes]
rs7959787	1.00[ASN][1000 genomes]
rs7973509	1.00[YRI][hapmap]
rs7974169	1.00[LWK][hapmap];1.00[YRI][hapmap]
rs937385	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[TSI][hapmap];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1046428	chr12:40226283-40439843	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv541481	chr12:40226283-40439843	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region miRNA target site	6 gene(s)	inside rSNPs	diseases
3	nsv1052202	chr12:40322607-40406760	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Strong transcription	Chromatin interactive region miRNA target site	4 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	chr12:40337400-40350600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr12:40338000-40366000	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr12:40338600-40346600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr12:40340800-40346400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr12:40341000-40347600	Weak transcription	Cortex derived primary cultured neurospheres	brain
6	chr12:40343000-40346600	Enhancers	Pancreatic Islets	Pancreatic Islet

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