Variant report

Variant	rs3862236
Chromosome Location	chr1:56183394-56183395
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PCSK9-9	chr1:56183348-56183513	NONHSAT003419
2	lnc-PCSK9-9	chr1:56183305-56183448	l_59_chr1:56183304-56188363_testes

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs11206646	0.83[CHB][hapmap]
rs12029835	0.89[ASW][hapmap];0.92[CHB][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.90[AMR][1000 genomes]
rs12035892	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs12046600	0.84[CHB][hapmap];1.00[GIH][hapmap]
rs12047589	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs12403776	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1392138	0.84[CHB][hapmap];0.81[CHD][hapmap];1.00[GIH][hapmap]
rs1392139	0.84[CHB][hapmap]
rs1499675	0.83[CHB][hapmap]
rs17112559	0.92[CHB][hapmap];0.87[AMR][1000 genomes]
rs17112560	0.92[CHB][hapmap];0.86[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.85[AMR][1000 genomes]
rs17112610	1.00[CHB][hapmap];0.90[JPT][hapmap];0.85[AMR][1000 genomes]
rs17112615	0.89[ASW][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];1.00[MEX][hapmap];0.87[AMR][1000 genomes]
rs17112658	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs1828802	0.84[CHB][hapmap];0.86[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.85[AMR][1000 genomes]
rs3889741	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3914412	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs4317850	0.81[CHB][hapmap]
rs55888217	0.90[AMR][1000 genomes]
rs58586799	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs59832333	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6672047	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs6689891	0.84[CHB][hapmap]
rs6693323	0.84[CHB][hapmap];0.81[CHD][hapmap];1.00[GIH][hapmap]
rs74072496	0.87[AMR][1000 genomes]
rs74075506	1.00[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs7513796	1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7551229	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs769973	0.92[CHB][hapmap]
rs9436516	0.83[MEX][hapmap]

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:56174000-56186000	Weak transcription	Spleen	Spleen
2	chr1:56177800-56187800	Enhancers	Placenta	Placenta
3	chr1:56178800-56183400	Weak transcription	Fetal Kidney	kidney
4	chr1:56179400-56183800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr1:56179800-56186800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr1:56180000-56186400	Enhancers	NHLF	lung
7	chr1:56180000-56190600	Enhancers	Muscle Satellite Cultured Cells	--
8	chr1:56180400-56186600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr1:56180400-56186600	Enhancers	Osteobl	bone
10	chr1:56180600-56185000	Enhancers	NHDF-Ad	bronchial
11	chr1:56180600-56187200	Enhancers	Breast Myoepithelial Primary Cells	Breast
12	chr1:56181000-56184000	Weak transcription	Liver	Liver
13	chr1:56181000-56184200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
14	chr1:56181000-56187000	Enhancers	HSMM	muscle
15	chr1:56181400-56186600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr1:56181600-56186600	Enhancers	Placenta Amnion	Placenta Amnion
17	chr1:56181600-56186800	Enhancers	Fetal Stomach	stomach
18	chr1:56181600-56187200	Enhancers	Fetal Muscle Leg	muscle
19	chr1:56181800-56186200	Enhancers	Colon Smooth Muscle	Colon
20	chr1:56181800-56186400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr1:56181800-56186400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr1:56181800-56186400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr1:56181800-56186400	Enhancers	Fetal Lung	lung
24	chr1:56181800-56186400	Enhancers	NH-A	brain
25	chr1:56181800-56186600	Enhancers	HSMMtube	muscle
26	chr1:56182000-56183800	Weak transcription	Right Atrium	heart
27	chr1:56182000-56186400	Enhancers	Skeletal Muscle Female	skeletal muscle
28	chr1:56182000-56186400	Enhancers	HMEC	breast
29	chr1:56182200-56184400	Enhancers	Hela-S3	cervix
30	chr1:56182400-56184000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr1:56182600-56183400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr1:56183000-56186200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
33	chr1:56183000-56186200	Enhancers	Psoas Muscle	Psoas
34	chr1:56183200-56187800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr1:56183200-56187800	Enhancers	Ovary	ovary

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