Variant report

Variant	rs1867153
Chromosome Location	chr15:75271229-75271230
allele	C/T
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	FOSL2	chr15:75270746-75271300	SK-N-SH	brain:	n/a	chr15:75271031-75271041 chr15:75271031-75271041 chr15:75271031-75271041 chr15:75271032-75271040 chr15:75271031-75271041 chr15:75271006-75271015

Variant related genes	Relation type
ENSG00000261813	TF binding region

Extended variants
information (count: 10 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs12050494	0.81[ASN][1000 genomes]
rs12050759	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.81[ASN][1000 genomes]
rs12592377	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12594897	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2004278	0.81[ASN][1000 genomes]
rs57684159	0.81[ASN][1000 genomes]
rs6495132	0.83[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.80[ASN][1000 genomes]
rs67271490	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv569993	chr15:75242155-75483752	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	72 gene(s)	inside rSNPs	diseases
2	nsv1612	chr15:75247725-75281284	Flanking Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Weak transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	46 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs1867153	CYP11A1	cis	cerebellum	SCAN
rs1867153	SCAMP5	cis	Artery Tibial	GTEx
rs1867153	GPX7	trans	lymphoblastoid	seeQTL
rs1867153	SCAMP5	cis	cerebellum	SCAN
rs1867153	POLR2J	trans	cerebellum	SCAN

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:75270000-75271400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
2	chr15:75270000-75271400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr15:75270000-75271400	Enhancers	Muscle Satellite Cultured Cells	--
4	chr15:75270000-75271400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr15:75270000-75271400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr15:75270000-75271400	Enhancers	NH-A	brain
7	chr15:75270000-75271400	Enhancers	NHDF-Ad	bronchial
8	chr15:75270000-75272000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr15:75270000-75272400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
10	chr15:75270200-75271600	Enhancers	Brain Hippocampus Middle	brain
11	chr15:75270200-75271600	Enhancers	Brain Substantia Nigra	brain
12	chr15:75270200-75272200	Enhancers	ES-I3 Cell Line	embryonic stem cell
13	chr15:75270200-75276200	Weak transcription	HSMM	muscle
14	chr15:75270600-75271400	Enhancers	A549	lung
15	chr15:75270600-75271600	Enhancers	Brain Cingulate Gyrus	brain
16	chr15:75270600-75272200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
17	chr15:75270600-75276200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr15:75271000-75271400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr15:75271000-75271400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
20	chr15:75271000-75271600	Bivalent Enhancer	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr15:75271000-75272200	Enhancers	H1 Cell Line	embryonic stem cell
22	chr15:75271000-75272400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
23	chr15:75271200-75271400	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr15:75271200-75271600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr15:75271200-75272200	Enhancers	HUES48 Cell Line	embryonic stem cell
26	chr15:75271200-75276000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links