Variant report

Variant	rs9787069
Chromosome Location	chr1:209736028-209736029
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 5 )

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

rs_ID	r²[population]
rs11119313	0.86[CEU][hapmap];0.81[EUR][1000 genomes]
rs11801272	0.81[EUR][1000 genomes]
rs12402938	0.87[CEU][hapmap];0.81[MEX][hapmap];0.82[TSI][hapmap];0.81[EUR][1000 genomes]
rs12408760	0.80[EUR][1000 genomes]
rs12734177	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2235449	0.81[EUR][1000 genomes]
rs2235452	0.87[CEU][hapmap];0.82[TSI][hapmap];0.81[EUR][1000 genomes]
rs2235453	0.87[CEU][hapmap];0.81[MEX][hapmap];0.82[TSI][hapmap];0.81[EUR][1000 genomes]
rs2235454	0.81[EUR][1000 genomes]
rs2235455	0.81[EUR][1000 genomes]
rs35104617	0.84[EUR][1000 genomes]
rs35498535	0.81[EUR][1000 genomes]
rs35503098	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35508847	0.81[EUR][1000 genomes]
rs35553417	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs55814069	0.83[EUR][1000 genomes]
rs7517804	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7517839	0.85[CEU][hapmap];0.81[EUR][1000 genomes]
rs760833	0.82[TSI][hapmap]

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	nsv999901	chr1:209600631-210205379	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	76 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs9787069	CDK18	cis	parietal	SCAN
rs9787069	HHAT	cis	parietal	SCAN
rs9787069	SETD1A	trans	parietal	SCAN
rs9787069	SLC41A1	cis	cerebellum	SCAN
rs9787069	NUCKS1	cis	parietal	SCAN

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:209726600-209737800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr1:209726800-209738400	Weak transcription	NHEK	skin
3	chr1:209727000-209737600	Weak transcription	HMEC	breast
4	chr1:209728600-209738200	Weak transcription	Esophagus	oesophagus
5	chr1:209734200-209738200	Weak transcription	Fetal Kidney	kidney
6	chr1:209734400-209740600	Weak transcription	HSMM	muscle
7	chr1:209735200-209736200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr1:209735600-209736400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr1:209735800-209739000	Weak transcription	Fetal Brain Male	brain

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