Variant report

Variant	rs2963820
Chromosome Location	chr5:59109014-59109015
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10514856	0.90[CEU][hapmap];0.82[EUR][1000 genomes]
rs10514881	0.86[CEU][hapmap];0.81[EUR][1000 genomes]
rs10940647	0.84[EUR][1000 genomes]
rs10940648	0.89[CEU][hapmap];0.84[EUR][1000 genomes]
rs11738448	0.90[CEU][hapmap];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11741470	0.89[CEU][hapmap];0.82[EUR][1000 genomes]
rs11747378	0.94[CEU][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13168643	0.95[CEU][hapmap];0.90[EUR][1000 genomes]
rs13177163	0.89[CEU][hapmap]
rs1504985	0.90[CEU][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs159612	0.84[CEU][hapmap]
rs159614	0.84[CEU][hapmap]
rs159621	0.84[CEU][hapmap]
rs159625	0.84[CEU][hapmap]
rs173944	0.85[CEU][hapmap]
rs190458	0.86[CEU][hapmap];0.81[EUR][1000 genomes]
rs194368	0.85[CEU][hapmap]
rs256349	0.86[CEU][hapmap]
rs256351	0.86[CEU][hapmap]
rs256355	0.84[CEU][hapmap]
rs2938781	0.95[CEU][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2938782	0.95[CEU][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2938787	0.95[CEU][hapmap];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2963823	0.95[CEU][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3111174	0.89[CEU][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs35526661	0.85[EUR][1000 genomes]
rs59251157	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6450533	1.00[ASN][1000 genomes]
rs7718096	0.81[EUR][1000 genomes]
rs7731666	0.84[CEU][hapmap];0.81[EUR][1000 genomes]
rs877744	0.89[CEU][hapmap];0.84[EUR][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	nsv1018015	chr5:58889470-59532667	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
2	nsv537766	chr5:58889470-59532667	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
3	nsv534614	chr5:58962510-59388525	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:59106200-59109600	Weak transcription	Primary hematopoietic stem cells	blood
2	chr5:59106200-59109600	Weak transcription	Monocytes-CD14+_RO01746	blood
3	chr5:59106200-59110200	Weak transcription	Brain Germinal Matrix	brain
4	chr5:59106200-59115000	Weak transcription	HSMMtube	muscle
5	chr5:59106400-59110000	Weak transcription	Primary monocytes fromperipheralblood	blood
6	chr5:59106400-59112400	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr5:59106600-59109200	Weak transcription	Fetal Brain Male	brain
8	chr5:59109000-59109600	Enhancers	Hela-S3	cervix

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