Variant report

Variant	rs989789
Chromosome Location	chr8:107958718-107958719
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 56 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs1466403	0.87[ASN][1000 genomes]
rs1466404	0.87[ASN][1000 genomes]
rs1903611	0.86[ASN][1000 genomes]
rs2126362	0.81[ASN][1000 genomes]
rs2219653	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2346901	0.81[ASN][1000 genomes]
rs2346902	0.86[ASN][1000 genomes]
rs2927092	0.82[ASN][1000 genomes]
rs2927094	0.83[ASN][1000 genomes]
rs2927095	0.83[ASN][1000 genomes]
rs2927097	0.80[ASN][1000 genomes]
rs2927100	0.83[ASN][1000 genomes]
rs2927102	0.83[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs2927103	0.87[ASN][1000 genomes]
rs2927105	0.86[ASN][1000 genomes]
rs2927106	0.86[ASN][1000 genomes]
rs2927109	0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2927110	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2927111	0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2927112	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2927114	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2927115	0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2927118	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2927120	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2927121	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2927166	0.87[ASN][1000 genomes]
rs2927167	0.87[ASN][1000 genomes]
rs2927168	0.87[ASN][1000 genomes]
rs3019913	0.83[ASN][1000 genomes]
rs3019939	0.87[ASN][1000 genomes]
rs3019944	0.84[ASN][1000 genomes]
rs3019945	0.83[ASN][1000 genomes]
rs3019946	0.88[ASN][1000 genomes]
rs3019948	0.83[ASN][1000 genomes]
rs3019954	0.82[ASN][1000 genomes]
rs3019956	0.83[ASN][1000 genomes]
rs3019957	0.83[ASN][1000 genomes]
rs3019958	0.83[ASN][1000 genomes]
rs3019959	0.80[ASN][1000 genomes]
rs3019960	0.81[ASN][1000 genomes]
rs3019965	0.84[CEU][hapmap];0.87[CHB][hapmap];0.86[CHD][hapmap];0.84[GIH][hapmap];0.91[JPT][hapmap]
rs3019966	0.84[CEU][hapmap];0.87[CHB][hapmap];0.91[JPT][hapmap]
rs7842415	0.81[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1029202	chr8:107796289-108384241	Enhancers Weak transcription Genic enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv539712	chr8:107796289-108384241	Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1034210	chr8:107796489-108384102	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv539713	chr8:107796489-108384102	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv529383	chr8:107796490-108368465	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv915821	chr8:107796490-108393008	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv916496	chr8:107813722-108338822	Genic enhancers Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	nsv1028726	chr8:107816841-108392547	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
9	nsv497805	chr8:107852509-108368371	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
10	nsv1028916	chr8:107925350-107974654	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
11	esv2761458	chr8:107947610-107958891	Enhancers Weak transcription Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
12	nsv465759	chr8:107948846-107993651	Enhancers Genic enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
13	nsv611850	chr8:107948846-107993651	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs989789	LRP12	cis	parietal	SCAN

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:107952600-107958800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr8:107954000-107959000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr8:107954400-107959200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr8:107957800-107959200	Weak transcription	Aorta	Aorta

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