Variant report

Variant	rs4642406
Chromosome Location	chr5:116585561-116585562
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10035146	0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10037418	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10066055	0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10079309	0.84[EUR][1000 genomes]
rs10080021	0.90[EUR][1000 genomes]
rs10085046	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10463690	0.86[EUR][1000 genomes]
rs10478339	0.84[EUR][1000 genomes]
rs11957082	0.90[EUR][1000 genomes]
rs12652528	0.86[EUR][1000 genomes]
rs13170803	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13184380	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1353285	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1389934	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1389935	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1494818	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1494820	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1494821	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1494823	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1565889	0.82[EUR][1000 genomes]
rs1565890	0.86[EUR][1000 genomes]
rs1908408	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1908409	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1976282	0.84[EUR][1000 genomes]
rs2036024	0.86[EUR][1000 genomes]
rs2220858	0.84[EUR][1000 genomes]
rs2900101	0.84[EUR][1000 genomes]
rs34469130	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35793287	0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4331937	0.82[EUR][1000 genomes]
rs4435900	0.92[CEU][hapmap];0.84[EUR][1000 genomes]
rs55813945	0.90[EUR][1000 genomes]
rs56020309	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs60269947	0.90[EUR][1000 genomes]
rs6595020	0.90[EUR][1000 genomes]
rs6595026	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6595028	0.81[EUR][1000 genomes]
rs6862441	0.89[EUR][1000 genomes]
rs7702997	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7703434	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7710974	0.80[EUR][1000 genomes]
rs7712165	0.86[EUR][1000 genomes]
rs7714476	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7729749	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7730432	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7732328	0.86[EUR][1000 genomes]
rs7736463	0.86[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1015741	chr5:116525936-116665270	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:116582400-116586200	Enhancers	Brain Cingulate Gyrus	brain
2	chr5:116582400-116591400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr5:116583000-116591800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr5:116583600-116586800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr5:116583800-116586800	Enhancers	Brain Substantia Nigra	brain
6	chr5:116584200-116585800	Weak transcription	Brain Anterior Caudate	brain
7	chr5:116584400-116585800	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr5:116584800-116586200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr5:116585200-116585600	Enhancers	Cortex derived primary cultured neurospheres	brain
10	chr5:116585200-116586000	Enhancers	Brain Hippocampus Middle	brain
11	chr5:116585200-116586200	Weak transcription	Brain Angular Gyrus	brain
12	chr5:116585400-116585600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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