Variant report

Variant	rs1786568
Chromosome Location	chr18:11821000-11821001
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 42 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10468681	0.82[CHB][hapmap];0.90[CHD][hapmap]
rs11080534	0.82[CHD][hapmap]
rs12326439	0.83[ASN][1000 genomes]
rs12327266	0.87[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.90[CHD][hapmap];0.93[GIH][hapmap];0.89[JPT][hapmap];0.84[MEX][hapmap];0.84[MKK][hapmap];0.95[TSI][hapmap];0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs12962767	0.81[CHB][hapmap]
rs12965108	0.82[CHB][hapmap];0.90[CHD][hapmap]
rs12965256	0.82[CHB][hapmap];0.90[CHD][hapmap]
rs12965697	0.80[AFR][1000 genomes];0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs1364632	0.82[CHB][hapmap];0.90[CHD][hapmap]
rs1477481	0.85[CHD][hapmap]
rs1477483	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs1647558	0.82[CHD][hapmap]
rs1647561	0.82[AFR][1000 genomes]
rs16976671	0.86[CHB][hapmap]
rs1786566	0.82[CHD][hapmap]
rs1941224	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs2161960	0.82[ASN][1000 genomes]
rs2161961	0.82[CHB][hapmap]
rs28651978	0.82[ASN][1000 genomes]
rs4797579	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs4797582	0.83[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs57536188	0.88[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs59700035	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60736251	0.85[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7226993	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7240632	0.80[CHB][hapmap]
rs8084246	0.82[ASN][1000 genomes]
rs8084992	0.82[ASN][1000 genomes]
rs8086766	0.83[CEU][hapmap];0.91[CHB][hapmap];0.95[CHD][hapmap];0.89[JPT][hapmap];0.80[TSI][hapmap];0.85[ASN][1000 genomes]
rs8094039	0.86[CHB][hapmap];0.82[CHD][hapmap]
rs8098539	0.81[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.89[GIH][hapmap];0.84[JPT][hapmap];0.94[MEX][hapmap];0.89[MKK][hapmap];0.90[TSI][hapmap];0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs9303746	0.81[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.89[GIH][hapmap];0.89[JPT][hapmap];0.94[MEX][hapmap];0.81[MKK][hapmap];0.90[TSI][hapmap];0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs9303748	0.85[CHD][hapmap]
rs9303749	0.82[CHB][hapmap];0.90[CHD][hapmap]
rs9675368	0.82[ASN][1000 genomes]
rs9676126	0.82[ASN][1000 genomes]
rs9948889	0.91[CHB][hapmap];0.92[CHD][hapmap];0.89[JPT][hapmap];0.83[ASN][1000 genomes]
rs9962277	0.85[CHD][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	esv3362008	chr18:11647654-11959830	Active TSS Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv833590	chr18:11757329-11924539	Active TSS Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
3	nsv1055453	chr18:11776790-12110135	Weak transcription Active TSS Enhancers Genic enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
4	nsv543654	chr18:11776790-12110135	Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1786568	C18orf1	cis	parietal	SCAN

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:11783400-11829200	Weak transcription	Right Atrium	heart
2	chr18:11808000-11830600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr18:11817000-11821800	Weak transcription	Gastric	stomach
4	chr18:11817400-11823000	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr18:11817600-11821400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr18:11819000-11821800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr18:11819200-11821800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr18:11820000-11821000	Enhancers	K562	blood
9	chr18:11820400-11824800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr18:11820600-11821600	Enhancers	HUES6 Cell Line	embryonic stem cell
11	chr18:11820800-11821200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr18:11820800-11821600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr18:11820800-11821800	Enhancers	iPS-15b Cell Line	embryonic stem cell
14	chr18:11821000-11821200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr18:11821000-11823000	Weak transcription	K562	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links