Variant report

Variant	rs6800117
Chromosome Location	chr3:56511815-56511816
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10510786	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11708250	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11712094	0.81[EUR][1000 genomes]
rs1352765	0.84[AMR][1000 genomes]
rs17056853	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17056854	0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17825463	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17825487	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55783589	0.84[AMR][1000 genomes]
rs55801834	0.89[AMR][1000 genomes]
rs55963289	0.80[EUR][1000 genomes]
rs57164168	0.84[AMR][1000 genomes]
rs6801539	0.82[EUR][1000 genomes]
rs72875310	0.80[EUR][1000 genomes]
rs72877217	0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7611444	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7651181	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][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	esv3347557	chr3:56466500-56619322	Enhancers Strong transcription Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs6800117	ZNF468	trans	cerebellum	SCAN
rs6800117	CCDC66	cis	cerebellum	SCAN
rs6800117	RFT1	cis	cerebellum	SCAN
rs6800117	SBNO1	trans	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:56511600-56512800	Weak transcription	H1 Cell Line	embryonic stem cell
2	chr3:56511600-56513000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

what's new

Quick links