Variant report

Variant	rs2420815
Chromosome Location	chr2:116078442-116078443
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:54)

rs_ID	r²[population]
rs10180987	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10181472	0.87[ASN][1000 genomes]
rs10496490	0.84[AMR][1000 genomes]
rs1155664	0.86[ASN][1000 genomes]
rs1159302	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11678564	0.86[ASN][1000 genomes]
rs11883530	0.82[AMR][1000 genomes]
rs11896853	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11902350	0.86[ASN][1000 genomes]
rs12474916	0.84[ASN][1000 genomes]
rs12478263	0.87[ASN][1000 genomes]
rs12478502	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12611770	0.85[ASN][1000 genomes]
rs13017848	0.81[AFR][1000 genomes]
rs1356384	0.97[ASN][1000 genomes]
rs1400667	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1400668	0.82[AMR][1000 genomes]
rs1402445	0.89[ASN][1000 genomes]
rs1517371	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1521071	0.86[ASN][1000 genomes]
rs1521075	0.90[ASN][1000 genomes]
rs1521078	0.97[ASN][1000 genomes]
rs1607914	0.87[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs1812952	0.81[ASN][1000 genomes]
rs1949402	0.87[ASN][1000 genomes]
rs2176955	0.86[ASN][1000 genomes]
rs2420819	0.84[AMR][1000 genomes]
rs4268936	0.82[AMR][1000 genomes]
rs4493269	0.93[ASN][1000 genomes]
rs4610067	0.84[AMR][1000 genomes]
rs4849396	0.86[ASN][1000 genomes]
rs62167292	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62167293	0.85[ASN][1000 genomes]
rs6542256	0.90[ASN][1000 genomes]
rs6714356	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6716722	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6749876	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs6760151	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7422121	0.86[ASN][1000 genomes]
rs7561031	0.81[AMR][1000 genomes]
rs7564387	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7565854	0.89[EUR][1000 genomes]
rs7568698	1.00[ASN][1000 genomes]
rs7571103	0.86[ASN][1000 genomes]
rs7578669	0.86[ASN][1000 genomes]
rs7591002	0.88[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs7605036	1.00[ASN][1000 genomes]
rs908599	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs908600	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs949889	0.86[ASN][1000 genomes]
rs975453	0.94[ASN][1000 genomes]
rs992217	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs992218	0.84[AMR][1000 genomes]
rs993986	0.81[AMR][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	nsv1001542	chr2:115920847-116082585	Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv834339	chr2:115953298-116132979	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	esv3451356	chr2:116073771-116101275	Enhancers Weak transcription	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:116068000-116083000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr2:116070600-116082800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links