Variant report

Variant	rs1486254
Chromosome Location	chr8:50730271-50730272
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-RP11-738G5.2.1-2	chr8:50730146-50730381	ENSG00000253484

Extended variants
information (count: 149 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:148)

rs_ID	r²[population]
rs10086004	1.00[ASN][1000 genomes]
rs10089399	1.00[ASN][1000 genomes]
rs10090657	1.00[ASN][1000 genomes]
rs10092384	1.00[ASN][1000 genomes]
rs10107423	1.00[ASN][1000 genomes]
rs10111730	1.00[ASN][1000 genomes]
rs1038534	1.00[ASN][1000 genomes]
rs10504093	0.86[CHB][hapmap]
rs1074385	1.00[ASN][1000 genomes]
rs10957620	1.00[ASN][1000 genomes]
rs10957679	0.88[ASN][1000 genomes]
rs10957682	0.88[ASN][1000 genomes]
rs1157932	0.86[CHB][hapmap]
rs11777957	0.86[CHB][hapmap]
rs11781675	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11783631	0.86[CHB][hapmap]
rs11785147	1.00[ASN][1000 genomes]
rs11786939	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11787050	0.88[ASN][1000 genomes]
rs12541363	0.84[CHB][hapmap]
rs12542041	0.97[ASN][1000 genomes]
rs12542687	0.85[ASN][1000 genomes]
rs12545695	0.84[ASN][1000 genomes]
rs12547245	0.97[ASN][1000 genomes]
rs12550124	0.81[ASN][1000 genomes]
rs12677051	1.00[ASN][1000 genomes]
rs13251355	1.00[ASN][1000 genomes]
rs13255117	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13261298	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13267366	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1352112	1.00[ASN][1000 genomes]
rs1352113	0.86[ASN][1000 genomes]
rs1385974	1.00[ASN][1000 genomes]
rs1385975	1.00[ASN][1000 genomes]
rs1385976	0.88[ASN][1000 genomes]
rs1385980	0.85[ASN][1000 genomes]
rs1385982	0.88[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1486241	1.00[ASN][1000 genomes]
rs1486242	1.00[ASN][1000 genomes]
rs1486243	1.00[ASN][1000 genomes]
rs1486251	1.00[ASN][1000 genomes]
rs1486252	1.00[ASN][1000 genomes]
rs1486253	1.00[ASN][1000 genomes]
rs1486263	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs1552371	0.86[ASN][1000 genomes]
rs1552372	1.00[ASN][1000 genomes]
rs1552373	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1552375	0.98[ASN][1000 genomes]
rs1552377	0.97[ASN][1000 genomes]
rs1552378	0.84[ASN][1000 genomes]
rs1552379	0.84[ASN][1000 genomes]
rs1580468	1.00[ASN][1000 genomes]
rs1586364	0.88[ASN][1000 genomes]
rs1601569	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16912794	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16913087	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16913172	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16913461	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16913472	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16913475	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16913687	0.88[ASN][1000 genomes]
rs16914039	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs170331	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs1906014	0.84[ASN][1000 genomes]
rs1906015	0.94[ASN][1000 genomes]
rs1979535	1.00[ASN][1000 genomes]
rs1994344	1.00[ASN][1000 genomes]
rs2129162	1.00[ASN][1000 genomes]
rs2129164	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2129165	0.96[ASN][1000 genomes]
rs2247368	1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs2385545	1.00[ASN][1000 genomes]
rs2385546	1.00[ASN][1000 genomes]
rs2385547	1.00[ASN][1000 genomes]
rs2385548	0.88[ASN][1000 genomes]
rs2385696	0.86[CHB][hapmap]
rs2449960	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs2450286	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs2450287	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs2450290	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs28869911	0.82[ASN][1000 genomes]
rs318850	0.84[ASN][1000 genomes]
rs318854	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs318858	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs318859	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs318861	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs318874	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs4242455	0.81[ASN][1000 genomes]
rs4242456	0.86[CHB][hapmap]
rs4339657	0.98[ASN][1000 genomes]
rs4383988	1.00[ASN][1000 genomes]
rs4389954	0.81[ASN][1000 genomes]
rs4457345	0.81[ASN][1000 genomes]
rs4584153	1.00[ASN][1000 genomes]
rs4873113	0.80[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4873114	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4873116	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4873118	0.88[ASN][1000 genomes]
rs4873119	0.88[ASN][1000 genomes]
rs4873120	0.86[CHB][hapmap]
rs4873123	0.86[CHB][hapmap]
rs4873376	0.81[ASN][1000 genomes]
rs4873379	0.83[ASN][1000 genomes]
rs4873382	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4873383	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4873388	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4873391	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4873392	0.88[ASN][1000 genomes]
rs55636909	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs55879210	0.88[ASN][1000 genomes]
rs56659775	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs57462717	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58764084	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59379959	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59848488	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60213702	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60631955	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61662535	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6472721	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6988440	0.85[ASN][1000 genomes]
rs6994224	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7004973	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs7008449	0.84[ASN][1000 genomes]
rs7008924	0.98[ASN][1000 genomes]
rs7013903	1.00[ASN][1000 genomes]
rs73582706	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73582713	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73582718	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73582724	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73582755	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73582756	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73676017	0.88[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73676077	0.84[ASN][1000 genomes]
rs7388392	0.97[ASN][1000 genomes]
rs7463456	0.81[ASN][1000 genomes]
rs7825552	1.00[ASN][1000 genomes]
rs7826013	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7828311	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7828900	0.84[CHB][hapmap]
rs7831807	0.81[ASN][1000 genomes]
rs7834858	0.94[AMR][1000 genomes]
rs9298228	1.00[ASN][1000 genomes]
rs9298229	1.00[ASN][1000 genomes]
rs964011	1.00[ASN][1000 genomes]
rs967107	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs974740	0.88[ASN][1000 genomes]
rs974742	0.88[ASN][1000 genomes]
rs9886451	1.00[ASN][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	esv3353749	chr8:50530807-51139242	Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:50727200-50732600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr8:50728400-50731200	Enhancers	HMEC	breast
3	chr8:50728600-50731000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr8:50728600-50731000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr8:50728600-50731400	Enhancers	Hela-S3	cervix
6	chr8:50728600-50731400	Enhancers	NHDF-Ad	bronchial
7	chr8:50729400-50731000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr8:50729400-50731000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr8:50729800-50730600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr8:50729800-50730600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr8:50729800-50730800	Weak transcription	NHEK	skin
12	chr8:50729800-50732200	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr8:50729800-50734600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr8:50729800-50735200	Weak transcription	HUES6 Cell Line	embryonic stem cell
15	chr8:50730000-50730400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr8:50730000-50730400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr8:50730000-50734200	Weak transcription	HUES64 Cell Line	embryonic stem cell
18	chr8:50730000-50735000	Weak transcription	HUES48 Cell Line	embryonic stem cell
19	chr8:50730000-50735200	Weak transcription	NH-A	brain
20	chr8:50730200-50735200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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