Variant report

Variant	rs1616887
Chromosome Location	chr18:29160752-29160753
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs1080093	0.96[CEU][hapmap];0.95[CHB][hapmap];0.82[JPT][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1080094	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1375446	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1611949	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1667237	0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1667244	0.96[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];0.96[GIH][hapmap];0.82[JPT][hapmap];0.96[MEX][hapmap];0.96[TSI][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1667255	0.81[AMR][1000 genomes]
rs1791198	0.81[AMR][1000 genomes]
rs1791199	0.81[AMR][1000 genomes]
rs1791201	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1791228	0.86[ASN][1000 genomes]
rs1791229	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2704058	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3764476	0.81[CEU][hapmap]
rs3764479	0.81[CEU][hapmap]
rs3794884	0.81[CEU][hapmap]
rs4799581	0.87[EUR][1000 genomes]
rs4799583	0.82[EUR][1000 genomes]
rs6506932	0.86[EUR][1000 genomes]
rs7235277	0.81[CEU][hapmap]
rs723744	0.81[CEU][hapmap]
rs7243588	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1066692	chr18:28856066-29190505	Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv543674	chr18:28856066-29190505	Weak transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
3	nsv916545	chr18:28898800-29166364	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
4	nsv833615	chr18:29008396-29192976	Strong transcription Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
5	nsv576636	chr18:29146822-29190174	Enhancers Genic enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	nsv1066881	chr18:29149752-29180840	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:29153600-29161400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr18:29154800-29161000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr18:29156200-29161600	Weak transcription	NHEK	skin
4	chr18:29156400-29163200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr18:29158000-29162400	Enhancers	Fetal Intestine Large	intestine
6	chr18:29158800-29160800	Weak transcription	HepG2	liver
7	chr18:29159200-29161200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr18:29159200-29163400	Enhancers	Primary hematopoietic stem cells	blood
9	chr18:29159200-29163400	Enhancers	Primary hematopoietic stem cells short term culture	blood
10	chr18:29159400-29166400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr18:29159800-29166200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr18:29160000-29161000	Weak transcription	Fetal Intestine Small	intestine
13	chr18:29160000-29161800	Weak transcription	Placenta	Placenta
14	chr18:29160200-29163800	Enhancers	Liver	Liver
15	chr18:29160600-29160800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr18:29160600-29161800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links