Variant report

Variant	rs12493881
Chromosome Location	chr3:86153785-86153786
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs12486099	0.82[AMR][1000 genomes]
rs12486982	0.87[ASW][hapmap];0.89[CEU][hapmap];0.92[MEX][hapmap]
rs12488773	0.92[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap]
rs12491363	0.91[MEX][hapmap]
rs12491891	0.87[CEU][hapmap];0.89[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap]
rs13061174	0.92[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.83[TSI][hapmap];1.00[YRI][hapmap]
rs13065014	0.82[AMR][1000 genomes]
rs13073604	0.82[AMR][1000 genomes]
rs13073774	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13082138	0.96[MEX][hapmap]
rs13100969	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs2324975	0.82[AMR][1000 genomes]
rs34184235	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs35885688	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4600827	0.96[MEX][hapmap]
rs4688895	0.89[CEU][hapmap]
rs62263325	0.86[AMR][1000 genomes];0.88[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	nsv532629	chr3:85763873-86608579	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12493881	ZNF654	cis	parietal	SCAN

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:86153200-86154800	Enhancers	iPS-18 Cell Line	embryonic stem cell
2	chr3:86153200-86155000	Enhancers	HUES48 Cell Line	embryonic stem cell
3	chr3:86153400-86153800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr3:86153400-86154000	Enhancers	Cortex derived primary cultured neurospheres	brain
5	chr3:86153400-86154800	Enhancers	HUES64 Cell Line	embryonic stem cell
6	chr3:86153600-86154000	Enhancers	ES-I3 Cell Line	embryonic stem cell
7	chr3:86153600-86154000	Flanking Active TSS	iPS-20b 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