Variant report

Variant	rs8192701
Chromosome Location	chr15:58724371-58724372
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-AQP9-5	chr15:58724192-58724562	NONHSAT044110

Extended variants
information (count: 19 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs12900622	1.00[ASW][hapmap];0.91[CEU][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];1.00[MKK][hapmap];0.87[TSI][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12912415	1.00[ASW][hapmap];0.97[GIH][hapmap];0.88[TSI][hapmap];1.00[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs12914035	1.00[ASW][hapmap];0.91[CEU][hapmap];0.88[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.85[MKK][hapmap];0.83[TSI][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17190510	1.00[CEU][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MKK][hapmap];0.92[TSI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17301781	1.00[ASW][hapmap]
rs1869143	1.00[ASW][hapmap]
rs35547826	1.00[AFR][1000 genomes]
rs35684611	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs62000939	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1051058	chr15:58519922-59092530	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv542401	chr15:58519922-59092530	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
3	nsv529717	chr15:58519923-58756814	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv1042201	chr15:58520746-58780710	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv569598	chr15:58552606-58852463	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
6	nsv904267	chr15:58699010-58769583	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv1047048	chr15:58701400-58784800	Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	esv3362898	chr15:58705732-58850860	ZNF genes & repeats Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent Enhancer Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
9	esv2760372	chr15:58721447-58731153	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
10	esv2761874	chr15:58724371-58730571	Enhancers Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs8192701	PIGB	cis	parietal	SCAN

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:58704600-58728800	Weak transcription	Thymus	Thymus
2	chr15:58716600-58725800	Weak transcription	Right Atrium	heart
3	chr15:58716600-58726600	Weak transcription	Esophagus	oesophagus
4	chr15:58717800-58724400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr15:58718000-58724600	Weak transcription	NHDF-Ad	bronchial
6	chr15:58718400-58726600	Weak transcription	Stomach Mucosa	stomach
7	chr15:58718600-58725000	Weak transcription	Fetal Lung	lung
8	chr15:58719600-58725800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr15:58722000-58724400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr15:58722600-58731000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr15:58723400-58724400	Enhancers	Fetal Kidney	kidney
12	chr15:58723600-58724400	Enhancers	Fetal Thymus	thymus
13	chr15:58723600-58724600	Enhancers	Duodenum Mucosa	Duodenum
14	chr15:58723600-58725000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr15:58723600-58725000	Enhancers	Fetal Intestine Large	intestine
16	chr15:58723800-58724400	Enhancers	Fetal Intestine Small	intestine
17	chr15:58723800-58724400	Weak transcription	K562	blood
18	chr15:58724000-58724400	Flanking Active TSS	Liver	Liver
19	chr15:58724000-58724400	Active TSS	HepG2	liver
20	chr15:58724000-58725800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr15:58724000-58725800	Weak transcription	Pancreas	Pancrea
22	chr15:58724200-58724400	Enhancers	Right Ventricle	heart
23	chr15:58724200-58724400	Flanking Active TSS	A549	lung
24	chr15:58724200-58724600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr15:58724200-58724800	Active TSS	Pancreatic Islets	Pancreatic Islet
26	chr15:58724200-58724800	Enhancers	Psoas Muscle	Psoas
27	chr15:58724200-58724800	Enhancers	Skeletal Muscle Female	skeletal muscle
28	chr15:58724200-58724800	Enhancers	NHEK	skin
29	chr15:58724200-58725000	Flanking Active TSS	Hela-S3	cervix
30	chr15:58724200-58726400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr15:58724200-58727000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr15:58724200-58727200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links