Variant report

Variant	rs41285694
Chromosome Location	chr1:98454469-98454470
allele	A/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-DPYD-4	chr1:98453556-98455125	ENSG00000231269
2	lnc-DPYD-4	chr1:98453556-98455125	ENSG00000225206.4
3	lnc-DPYD-4	chr1:98453556-98455125	NR_046105

Extended variants
information (count: 187 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:182)

rs_ID	r²[population]
rs10747495	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10747496	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10783082	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10875121	0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10875125	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11165934	0.91[ASN][1000 genomes]
rs11165935	0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11165937	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11165938	0.91[ASN][1000 genomes]
rs11165939	0.91[ASN][1000 genomes]
rs11165940	0.91[ASN][1000 genomes]
rs1198571	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1198572	0.93[ASN][1000 genomes]
rs1198573	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1198574	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1198575	0.87[ASN][1000 genomes]
rs1198576	0.87[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1198577	0.87[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1198578	0.87[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1198579	0.87[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1198580	0.87[ASN][1000 genomes]
rs1198581	0.87[ASN][1000 genomes]
rs1198582	0.87[ASN][1000 genomes]
rs1198583	0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1198588	0.87[ASN][1000 genomes]
rs1198589	0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1198590	0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1198591	0.87[ASN][1000 genomes]
rs1198592	0.87[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1198593	0.87[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1198594	0.87[ASN][1000 genomes]
rs1198596	0.87[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1198598	0.87[ASN][1000 genomes]
rs1198600	0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs12067567	0.91[ASN][1000 genomes]
rs12067700	0.91[ASN][1000 genomes]
rs12068763	0.91[ASN][1000 genomes]
rs12069474	0.91[ASN][1000 genomes]
rs12071067	0.91[ASN][1000 genomes]
rs12072739	0.84[ASN][1000 genomes]
rs12073487	0.84[ASN][1000 genomes]
rs12077962	0.84[ASN][1000 genomes]
rs12089031	0.84[ASN][1000 genomes]
rs1211661	0.84[ASN][1000 genomes]
rs1622611	0.87[ASN][1000 genomes]
rs1628294	0.93[ASN][1000 genomes]
rs1702291	0.87[ASN][1000 genomes]
rs1702292	0.87[ASN][1000 genomes]
rs1702293	0.93[ASN][1000 genomes]
rs1702294	0.93[ASN][1000 genomes]
rs17379561	0.85[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs1782810	0.93[ASN][1000 genomes]
rs1782811	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1782812	0.87[ASN][1000 genomes]
rs1782813	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1782815	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1782818	0.87[ASN][1000 genomes]
rs1892549	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1892550	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1892551	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1892552	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1938558	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1938559	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1938560	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1938561	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1938562	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1938563	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1938564	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1938565	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1938566	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1938567	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1938568	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1938569	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1938571	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1938572	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1938573	0.85[EUR][1000 genomes]
rs2022864	0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2022865	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2154402	0.93[ASN][1000 genomes]
rs2154403	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2391873	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2391902	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2391903	0.93[ASN][1000 genomes]
rs2391904	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2391905	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2660298	0.87[ASN][1000 genomes]
rs2660299	0.87[ASN][1000 genomes]
rs2660300	0.87[ASN][1000 genomes]
rs2660301	0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2660304	0.93[ASN][1000 genomes]
rs2802525	0.87[ASN][1000 genomes]
rs2802529	0.87[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2802530	0.87[ASN][1000 genomes]
rs2802531	0.87[ASN][1000 genomes]
rs2802532	0.87[ASN][1000 genomes]
rs2802533	0.87[ASN][1000 genomes]
rs2802535	0.90[ASN][1000 genomes]
rs2802536	0.87[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs28582591	0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28641479	0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2893376	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4245673	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4246516	0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4274102	0.88[ASN][1000 genomes]
rs4292998	0.93[ASN][1000 genomes]
rs4322261	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4372296	0.84[ASN][1000 genomes]
rs4378243	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4379706	0.84[ASN][1000 genomes]
rs4411173	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4421623	0.84[ASN][1000 genomes]
rs4423049	0.85[ASN][1000 genomes]
rs4447033	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4477335	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4478846	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4480407	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4495746	0.82[ASN][1000 genomes]
rs4506495	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs45522136	0.90[ASN][1000 genomes]
rs4573558	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4584446	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4598523	0.85[ASN][1000 genomes]
rs4634961	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4950117	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4950118	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4950119	0.83[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4950120	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4970719	0.84[ASN][1000 genomes]
rs5005705	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56732321	0.91[ASN][1000 genomes]
rs57468345	0.91[ASN][1000 genomes]
rs61785881	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61785882	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61785883	0.97[ASN][1000 genomes]
rs61785886	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61785888	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61786696	0.87[ASN][1000 genomes]
rs61786697	0.87[ASN][1000 genomes]
rs61787782	0.84[ASN][1000 genomes]
rs61787783	0.84[ASN][1000 genomes]
rs61787784	0.84[ASN][1000 genomes]
rs61787785	0.85[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs61787829	0.84[ASN][1000 genomes]
rs61787830	0.84[ASN][1000 genomes]
rs61789075	0.97[ASN][1000 genomes]
rs61789077	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61789078	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61789079	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61789082	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6604098	0.85[ASN][1000 genomes]
rs6658412	0.84[ASN][1000 genomes]
rs6664489	0.91[ASN][1000 genomes]
rs6703588	0.91[ASN][1000 genomes]
rs72963738	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7526108	0.84[ASN][1000 genomes]
rs9285628	0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9324378	0.91[ASN][1000 genomes]
rs9324379	0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9324380	0.93[ASN][1000 genomes]
rs9324381	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9324382	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9324383	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9324384	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9324385	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9324386	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9324387	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9324388	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9324389	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9440288	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9440293	0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9440393	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9658841	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9659380	0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9659624	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9659996	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9661157	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9724773	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9725319	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9727941	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9729190	0.91[ASN][1000 genomes]
rs9887831	0.91[ASN][1000 genomes]
rs9887848	0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 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	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
4	nsv1009621	chr1:98435638-98599284	Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	20 gene(s)	inside rSNPs	diseases
5	nsv871230	chr1:98436232-98564736	Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:98409600-98455000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr1:98438000-98460200	Weak transcription	HSMM	muscle
3	chr1:98440200-98462000	Weak transcription	NHDF-Ad	bronchial
4	chr1:98452800-98454800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr1:98452800-98462000	Weak transcription	HUVEC	blood vessel
6	chr1:98453800-98455000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr1:98453800-98455600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr1:98454200-98455600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr1:98454200-98455800	Enhancers	Osteobl	bone
10	chr1:98454400-98455400	Enhancers	NHEK	skin
11	chr1:98454400-98455600	Enhancers	Muscle Satellite Cultured Cells	--
12	chr1:98454400-98456000	Enhancers	A549	lung

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