Variant report

Variant	rs11768615
Chromosome Location	chr7:121472247-121472248
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 44 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs1014171	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10238474	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10238868	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10246475	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10256242	0.96[CEU][hapmap];1.00[GIH][hapmap];0.96[MEX][hapmap];0.97[MKK][hapmap];0.98[TSI][hapmap]
rs10275407	0.85[AMR][1000 genomes]
rs11766572	0.83[EUR][1000 genomes]
rs11766594	0.83[EUR][1000 genomes]
rs11766616	0.85[EUR][1000 genomes]
rs11978007	0.82[JPT][hapmap]
rs11983105	0.84[EUR][1000 genomes]
rs1206473	0.92[GIH][hapmap]
rs12111892	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12535478	0.82[EUR][1000 genomes]
rs12666526	0.86[AMR][1000 genomes]
rs13231796	0.92[EUR][1000 genomes]
rs13243402	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1916880	0.81[JPT][hapmap]
rs1916886	0.92[GIH][hapmap];0.82[JPT][hapmap];0.91[MKK][hapmap];0.80[TSI][hapmap]
rs1916888	0.82[JPT][hapmap];0.80[TSI][hapmap]
rs1916889	0.82[JPT][hapmap]
rs2024249	0.89[CEU][hapmap];0.97[GIH][hapmap];0.82[JPT][hapmap];0.92[MEX][hapmap];0.94[MKK][hapmap];0.93[TSI][hapmap];0.86[AMR][1000 genomes]
rs2052131	0.83[EUR][1000 genomes]
rs2052132	0.83[EUR][1000 genomes]
rs2052134	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2109764	0.84[EUR][1000 genomes]
rs2191782	0.82[AMR][1000 genomes]
rs2215572	0.89[CEU][hapmap];0.86[AMR][1000 genomes]
rs2402589	0.83[EUR][1000 genomes]
rs2402590	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3757549	0.89[CEU][hapmap];0.82[JPT][hapmap];0.86[AMR][1000 genomes]
rs3757550	0.83[GIH][hapmap];0.82[JPT][hapmap];0.86[TSI][hapmap]
rs4731038	0.85[EUR][1000 genomes]
rs740961	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs740962	0.82[EUR][1000 genomes]
rs740963	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs740964	0.85[CEU][hapmap];0.97[GIH][hapmap];0.91[TSI][hapmap]
rs7797305	0.96[CEU][hapmap];1.00[GIH][hapmap];0.82[JPT][hapmap];0.96[MEX][hapmap];0.92[MKK][hapmap];0.98[TSI][hapmap]
rs7802916	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7808915	0.85[AMR][1000 genomes]
rs7809971	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7811200	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs960539	0.89[CEU][hapmap];0.84[AMR][1000 genomes]

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	nsv429808	chr7:121384049-121600049	Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11768615	PTPRZ1	cis	parietal	SCAN

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:121470600-121473000	Enhancers	Breast Myoepithelial Primary Cells	Breast
2	chr7:121471200-121472400	Enhancers	Brain Anterior Caudate	brain
3	chr7:121471200-121472800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr7:121471400-121472800	Enhancers	HMEC	breast
5	chr7:121471400-121475600	Enhancers	Fetal Brain Male	brain
6	chr7:121471600-121472400	Flanking Active TSS	Brain Germinal Matrix	brain
7	chr7:121471600-121472400	Flanking Active TSS	Brain Hippocampus Middle	brain
8	chr7:121471600-121472800	Enhancers	iPS-18 Cell Line	embryonic stem cell
9	chr7:121471600-121472800	Flanking Active TSS	NHEK	skin
10	chr7:121471800-121472400	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
11	chr7:121471800-121472600	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr7:121471800-121472600	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr7:121471800-121472800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr7:121471800-121473600	Enhancers	Fetal Lung	lung
15	chr7:121471800-121477000	Weak transcription	H9 Cell Line	embryonic stem cell
16	chr7:121472000-121472400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr7:121472000-121472600	Flanking Active TSS	Fetal Brain Female	brain

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