Variant report

Variant	rs492699
Chromosome Location	chr12:123186381-123186382
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-DENR-2	chr12:123185843-123186416	NONHSAT031529

Extended variants
information (count: 54 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11059384	0.81[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs1798218	0.81[AMR][1000 genomes]
rs1798219	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2244689	0.90[ASN][1000 genomes]
rs2262194	0.88[ASN][1000 genomes]
rs2454702	0.85[ASN][1000 genomes]
rs2454722	0.90[ASN][1000 genomes]
rs2649991	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs3104613	0.85[ASN][1000 genomes]
rs3104614	0.85[ASN][1000 genomes]
rs34699072	0.87[ASN][1000 genomes]
rs35683065	0.80[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3922628	0.85[ASN][1000 genomes]
rs4759361	0.80[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs4759364	0.81[AMR][1000 genomes]
rs4759404	0.87[ASN][1000 genomes]
rs488635	0.87[ASN][1000 genomes]
rs491489	0.92[ASN][1000 genomes]
rs507525	0.85[ASN][1000 genomes]
rs509548	0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs525215	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs526276	0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs537527	0.87[ASN][1000 genomes]
rs545234	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs562042	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs568853	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs580063	0.84[ASN][1000 genomes]
rs582452	0.90[AFR][1000 genomes];0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs582856	0.80[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs585465	0.87[ASN][1000 genomes]
rs589154	0.81[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs601339	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs630408	0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs632393	0.80[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs635400	0.90[ASN][1000 genomes]
rs643285	0.81[AFR][1000 genomes];0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs645491	0.80[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs6489203	0.83[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs662889	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs71456771	0.87[ASN][1000 genomes]
rs7296217	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs7956284	0.80[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs7969523	0.81[AMR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv13329	chr12:123178106-123210671	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	n/a
2	esv3379602	chr12:123179885-123191721	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
3	esv3336946	chr12:123180291-123193845	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a
4	esv8843	chr12:123181591-123195219	Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a
5	esv1834041	chr12:123184235-123187305	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
6	nsv973132	chr12:123184783-123201537	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	n/a
7	esv3500953	chr12:123184899-123189597	Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
8	esv3500964	chr12:123184899-123189597	Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
9	esv10672	chr12:123185095-123188038	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
10	esv3486411	chr12:123186029-123195050	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a
11	esv3486412	chr12:123186029-123195050	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:123166600-123187800	Weak transcription	A549	lung
2	chr12:123174000-123199800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr12:123184000-123188800	Enhancers	Primary monocytes fromperipheralblood	blood
4	chr12:123185200-123187200	Active TSS	Esophagus	oesophagus
5	chr12:123185400-123186800	Active TSS	Primary hematopoietic stem cells	blood
6	chr12:123185400-123188200	Active TSS	Primary B cells from cord blood	blood
7	chr12:123185800-123186400	Bivalent Enhancer	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr12:123185800-123186400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr12:123185800-123187000	Flanking Active TSS	Adipose Nuclei	Adipose
10	chr12:123186000-123186400	Enhancers	NHLF	lung
11	chr12:123186000-123187400	Weak transcription	HMEC	breast
12	chr12:123186000-123188000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr12:123186000-123188000	Enhancers	Placenta	Placenta
14	chr12:123186000-123188200	Enhancers	NHEK	skin
15	chr12:123186000-123188600	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
16	chr12:123186000-123188600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
17	chr12:123186200-123186400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr12:123186200-123186400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr12:123186200-123186600	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr12:123186200-123186600	Enhancers	Fetal Stomach	stomach
21	chr12:123186200-123186800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr12:123186200-123186800	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr12:123186200-123186800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr12:123186200-123186800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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