Variant report

Variant	rs9887848
Chromosome Location	chr1:98432826-98432827
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-DPYD-3	chr1:98432561-98434370	ENSG00000259946.1

Extended variants
information (count: 195 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:191)

rs_ID	r²[population]
rs10747488	1.00[CHB][hapmap];0.82[ASN][1000 genomes]
rs10747489	1.00[CHB][hapmap]
rs10747490	0.81[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs10747491	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs10747492	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs10747495	0.85[ASN][1000 genomes]
rs10747496	0.85[ASN][1000 genomes]
rs10783082	0.85[ASN][1000 genomes]
rs10875111	0.88[ASN][1000 genomes]
rs10875112	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs10875113	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs10875118	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs10875120	0.94[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10875121	0.94[ASN][1000 genomes]
rs10875125	0.85[ASN][1000 genomes]
rs11165920	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs11165921	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs11165934	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11165935	0.94[ASN][1000 genomes]
rs11165937	0.94[ASN][1000 genomes]
rs11165938	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11165939	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11165940	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1198571	0.85[ASN][1000 genomes]
rs1198572	0.85[ASN][1000 genomes]
rs1198573	0.85[ASN][1000 genomes]
rs1198574	0.85[ASN][1000 genomes]
rs1198591	1.00[JPT][hapmap]
rs1198592	1.00[JPT][hapmap]
rs1198593	1.00[JPT][hapmap]
rs1198594	1.00[JPT][hapmap]
rs12062845	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs12067567	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12067700	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12068763	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12069474	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12071067	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12072739	0.94[ASN][1000 genomes]
rs12073487	0.94[ASN][1000 genomes]
rs12077442	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs12077962	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12089031	0.94[ASN][1000 genomes]
rs12406713	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs1628294	0.85[ASN][1000 genomes]
rs1702293	0.85[ASN][1000 genomes]
rs1702294	0.85[ASN][1000 genomes]
rs17379561	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs1782810	0.85[ASN][1000 genomes]
rs1782811	0.85[ASN][1000 genomes]
rs1782813	0.85[ASN][1000 genomes]
rs1782815	0.85[ASN][1000 genomes]
rs1801265	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs1892549	0.85[ASN][1000 genomes]
rs1892550	0.85[ASN][1000 genomes]
rs1892551	0.85[ASN][1000 genomes]
rs1892552	0.85[ASN][1000 genomes]
rs1938558	0.85[ASN][1000 genomes]
rs1938559	0.85[ASN][1000 genomes]
rs1938560	0.85[ASN][1000 genomes]
rs1938561	0.85[ASN][1000 genomes]
rs1938562	0.85[ASN][1000 genomes]
rs1938564	0.85[ASN][1000 genomes]
rs1938565	0.85[ASN][1000 genomes]
rs1938567	0.85[ASN][1000 genomes]
rs1938568	0.85[ASN][1000 genomes]
rs1938569	0.85[ASN][1000 genomes]
rs1938571	0.85[ASN][1000 genomes]
rs2022865	0.85[ASN][1000 genomes]
rs2154402	0.85[ASN][1000 genomes]
rs2154403	0.85[ASN][1000 genomes]
rs2391873	0.85[ASN][1000 genomes]
rs2391902	0.85[ASN][1000 genomes]
rs2391903	0.85[ASN][1000 genomes]
rs2391904	0.85[ASN][1000 genomes]
rs2391905	0.82[ASN][1000 genomes]
rs2660303	1.00[JPT][hapmap]
rs2660304	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs2802535	0.82[ASN][1000 genomes]
rs28582591	0.94[ASN][1000 genomes]
rs28641479	0.94[ASN][1000 genomes]
rs2893376	0.85[ASN][1000 genomes]
rs41285694	0.91[ASN][1000 genomes]
rs4245673	0.85[ASN][1000 genomes]
rs4246515	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4246516	0.94[ASN][1000 genomes]
rs4274102	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4292998	0.85[ASN][1000 genomes]
rs4294451	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4322261	0.88[ASN][1000 genomes]
rs4372296	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs4375301	0.82[ASN][1000 genomes]
rs4378243	0.82[ASN][1000 genomes]
rs4379706	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs4394693	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs4394694	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs4399192	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4411173	0.85[ASN][1000 genomes]
rs4421623	1.00[CHB][hapmap];0.94[ASN][1000 genomes]
rs4423049	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4456128	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4477335	0.85[ASN][1000 genomes]
rs4478846	0.82[ASN][1000 genomes]
rs4480407	0.85[ASN][1000 genomes]
rs4495746	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4506495	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs4523551	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs4523552	1.00[CHB][hapmap];0.88[ASN][1000 genomes]
rs4546957	0.81[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs45522136	0.88[ASN][1000 genomes]
rs4573558	0.85[ASN][1000 genomes]
rs4584446	0.85[ASN][1000 genomes]
rs4598523	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4634961	0.85[ASN][1000 genomes]
rs4950117	0.85[ASN][1000 genomes]
rs4950118	0.85[ASN][1000 genomes]
rs4950119	0.85[ASN][1000 genomes]
rs4950120	0.85[ASN][1000 genomes]
rs4970719	0.94[ASN][1000 genomes]
rs4970720	0.88[ASN][1000 genomes]
rs4970721	0.88[ASN][1000 genomes]
rs4970722	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs4970723	0.88[ASN][1000 genomes]
rs4970725	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs5005705	0.85[ASN][1000 genomes]
rs56732321	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57468345	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61785881	0.94[ASN][1000 genomes]
rs61785882	0.88[ASN][1000 genomes]
rs61785883	0.94[ASN][1000 genomes]
rs61785886	0.88[ASN][1000 genomes]
rs61785888	0.85[ASN][1000 genomes]
rs61787782	0.94[ASN][1000 genomes]
rs61787783	0.82[ASN][1000 genomes]
rs61787784	0.82[ASN][1000 genomes]
rs61787785	0.82[ASN][1000 genomes]
rs61787819	0.88[ASN][1000 genomes]
rs61787820	0.88[ASN][1000 genomes]
rs61787823	0.81[EUR][1000 genomes]
rs61787826	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs61787829	0.82[ASN][1000 genomes]
rs61787830	0.82[ASN][1000 genomes]
rs61789075	0.94[ASN][1000 genomes]
rs61789077	0.94[ASN][1000 genomes]
rs61789078	0.94[ASN][1000 genomes]
rs61789079	0.94[ASN][1000 genomes]
rs61789082	0.94[ASN][1000 genomes]
rs6604093	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs6604098	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6658412	0.94[ASN][1000 genomes]
rs6664489	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6677116	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs6692580	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes]
rs6703588	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72963738	0.94[ASN][1000 genomes]
rs7415086	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7418577	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7524038	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs7526108	1.00[CHB][hapmap];0.94[ASN][1000 genomes]
rs9285628	0.94[ASN][1000 genomes]
rs9324374	0.82[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs9324378	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9324379	0.94[ASN][1000 genomes]
rs9324380	0.85[ASN][1000 genomes]
rs9324381	0.85[ASN][1000 genomes]
rs9324382	0.85[ASN][1000 genomes]
rs9324383	0.85[ASN][1000 genomes]
rs9324384	0.85[ASN][1000 genomes]
rs9324385	0.85[ASN][1000 genomes]
rs9324386	0.85[ASN][1000 genomes]
rs9324387	0.85[ASN][1000 genomes]
rs9324388	0.85[ASN][1000 genomes]
rs9324389	0.85[ASN][1000 genomes]
rs9440288	0.85[ASN][1000 genomes]
rs9440293	0.85[ASN][1000 genomes]
rs9440393	0.85[ASN][1000 genomes]
rs9658841	0.85[ASN][1000 genomes]
rs9659380	0.94[ASN][1000 genomes]
rs9659624	0.85[ASN][1000 genomes]
rs9661157	0.85[ASN][1000 genomes]
rs9661794	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs9662232	0.94[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9662719	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs9662870	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9724773	0.85[ASN][1000 genomes]
rs9725319	0.85[ASN][1000 genomes]
rs9727548	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs9727941	0.85[ASN][1000 genomes]
rs9727976	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9729190	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9729897	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9887831	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1012958	chr1:98081528-98864746	Weak transcription Enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv871625	chr1:98165091-98564736	Weak transcription Bivalent/Poised TSS Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
3	nsv830725	chr1:98257894-98443497	Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv871077	chr1:98274132-98541677	Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:98409400-98437800	Weak transcription	HSMM	muscle
2	chr1:98409600-98455000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr1:98428800-98442400	Weak transcription	Fetal Brain Female	brain
4	chr1:98429800-98443000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr1:98431800-98433000	Strong transcription	NHDF-Ad	bronchial

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