Variant report

Variant	rs6499500
Chromosome Location	chr16:71348415-71348416
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs11645087	0.85[CEU][hapmap]
rs11648802	0.85[CEU][hapmap]
rs12924136	0.85[CEU][hapmap]
rs184647	0.85[CEU][hapmap]
rs1859088	0.82[CEU][hapmap]
rs2015813	0.82[CEU][hapmap]
rs235986	0.82[CEU][hapmap]
rs235989	0.82[CEU][hapmap]
rs235990	0.81[CEU][hapmap]
rs236009	0.82[CEU][hapmap]
rs236011	0.85[CEU][hapmap]
rs34907542	0.81[EUR][1000 genomes]
rs35897488	0.80[EUR][1000 genomes]
rs370875	0.85[CEU][hapmap]
rs3785347	0.82[CEU][hapmap]
rs443889	0.85[CEU][hapmap]
rs71403844	0.81[EUR][1000 genomes]
rs72795760	0.81[EUR][1000 genomes]
rs9939485	0.81[CHB][hapmap];0.81[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949461	chr16:71196153-71579711	ZNF genes & repeats Enhancers Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	41 gene(s)	inside rSNPs	diseases
2	nsv482374	chr16:71228600-71401617	Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Strong transcription Weak transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv1062426	chr16:71307180-71423400	Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv528229	chr16:71331728-71358937	Enhancers Flanking Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs6499500	ATXN7L1	trans	cerebellum	SCAN
rs6499500	ZFP90	cis	cerebellum	SCAN
rs6499500	NUTF2	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:71348200-71348600	Enhancers	HepG2	liver

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