Variant report

Variant	rs875119
Chromosome Location	chr18:29167091-29167092
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	ARID3A	chr18:29166577-29167110	HepG2	liver:	n/a	chr18:29166636-29166652

Variant related genes	Relation type
TTR	TF binding region

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

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs12458967	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13381522	0.89[CHD][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1574501	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1667227	0.87[EUR][1000 genomes]
rs16962266	0.82[CEU][hapmap]
rs17740912	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs17740990	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1791185	1.00[EUR][1000 genomes]
rs1791190	1.00[EUR][1000 genomes]
rs1791196	0.93[EUR][1000 genomes]
rs1791206	0.80[EUR][1000 genomes]
rs1900880	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2852322	0.83[EUR][1000 genomes]
rs36204272	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3764477	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4799580	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4799586	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4799587	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs57844152	0.93[EUR][1000 genomes]
rs58616646	0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73418122	0.90[EUR][1000 genomes]
rs875120	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9797439	0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 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	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
4	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
5	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:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:29163800-29167400	Weak transcription	Liver	Liver
2	chr18:29165600-29168000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr18:29165600-29168200	Enhancers	Fetal Intestine Small	intestine
4	chr18:29165800-29167800	Enhancers	Fetal Intestine Large	intestine
5	chr18:29166400-29167200	Enhancers	Placenta	Placenta
6	chr18:29166400-29171000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr18:29166600-29168800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr18:29166800-29167800	Enhancers	Placenta Amnion	Placenta Amnion
9	chr18:29166800-29167800	Flanking Active TSS	HepG2	liver
10	chr18:29167000-29167200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr18:29167000-29167400	Flanking Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr18:29167000-29167800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr18:29167000-29168000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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