Variant report

Variant	rs13074289
Chromosome Location	chr3:110310664-110310665
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 95 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:79)

rs_ID	r²[population]
rs1022206	0.87[EUR][1000 genomes]
rs1154944	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11708774	0.92[ASN][1000 genomes]
rs11710764	0.83[ASN][1000 genomes]
rs11714695	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11717425	0.92[ASN][1000 genomes]
rs11718338	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11719908	0.83[ASN][1000 genomes]
rs11721105	0.81[EUR][1000 genomes]
rs11721109	0.82[EUR][1000 genomes]
rs11920731	0.82[EUR][1000 genomes]
rs11920740	0.82[EUR][1000 genomes]
rs11923966	0.82[EUR][1000 genomes]
rs12489421	0.90[EUR][1000 genomes]
rs12639004	0.83[EUR][1000 genomes]
rs13062747	0.82[EUR][1000 genomes]
rs13067662	0.82[EUR][1000 genomes]
rs13073901	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13077386	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[TSI][hapmap]
rs13077450	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13077986	0.86[EUR][1000 genomes]
rs13082127	0.82[EUR][1000 genomes]
rs13082391	0.80[EUR][1000 genomes]
rs13082702	0.87[EUR][1000 genomes]
rs13085701	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13088357	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13092632	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs13097489	0.82[EUR][1000 genomes]
rs1355627	0.88[EUR][1000 genomes]
rs1398340	0.89[EUR][1000 genomes]
rs1398342	0.89[EUR][1000 genomes]
rs1398344	0.84[EUR][1000 genomes]
rs1398355	0.89[EUR][1000 genomes]
rs1398356	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1398357	0.89[EUR][1000 genomes]
rs1398358	0.89[EUR][1000 genomes]
rs1512512	0.88[EUR][1000 genomes]
rs1512532	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1512537	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1858429	0.92[ASN][1000 genomes]
rs1877461	0.89[EUR][1000 genomes]
rs1913092	0.90[EUR][1000 genomes]
rs1913093	0.90[EUR][1000 genomes]
rs1913096	0.88[EUR][1000 genomes]
rs1913097	0.88[EUR][1000 genomes]
rs2089941	0.90[EUR][1000 genomes]
rs2089942	0.90[EUR][1000 genomes]
rs2175607	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2175608	0.86[EUR][1000 genomes]
rs2399329	0.90[EUR][1000 genomes]
rs2399331	0.87[EUR][1000 genomes]
rs2399334	0.85[EUR][1000 genomes]
rs34877286	0.92[ASN][1000 genomes]
rs35947928	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs36021113	0.92[ASN][1000 genomes]
rs3899903	0.90[EUR][1000 genomes]
rs4267670	0.82[EUR][1000 genomes]
rs4510407	0.83[EUR][1000 genomes]
rs4640600	1.00[JPT][hapmap]
rs4682009	0.87[EUR][1000 genomes]
rs4682010	0.88[EUR][1000 genomes]
rs4682011	0.89[EUR][1000 genomes]
rs4682182	1.00[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs4682185	0.92[ASN][1000 genomes]
rs4682186	0.88[EUR][1000 genomes]
rs4682187	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4682596	1.00[CHD][hapmap];1.00[JPT][hapmap]
rs61188814	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61302912	0.92[ASN][1000 genomes]
rs62270154	0.82[EUR][1000 genomes]
rs6768646	0.87[EUR][1000 genomes]
rs6768745	0.87[EUR][1000 genomes]
rs6781525	0.87[EUR][1000 genomes]
rs6781864	0.87[EUR][1000 genomes]
rs7621339	0.90[EUR][1000 genomes]
rs7628651	0.89[EUR][1000 genomes]
rs949971	0.92[ASN][1000 genomes]
rs9866331	0.87[EUR][1000 genomes]
rs9874430	0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv999414	chr3:110103126-110340180	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv520365	chr3:110155172-110441165	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1001144	chr3:110158316-110431113	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv536687	chr3:110158316-110431113	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv1001810	chr3:110158316-110522247	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv1010230	chr3:110204439-110588814	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv536688	chr3:110204439-110588814	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	nsv829672	chr3:110206693-110361632	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv1011034	chr3:110209344-110559021	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
10	nsv536689	chr3:110209344-110559021	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
11	nsv1003106	chr3:110264476-111105943	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
12	nsv460820	chr3:110283716-110321035	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
13	nsv591274	chr3:110283716-110321035	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
14	nsv1014199	chr3:110293896-110754155	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
15	nsv1007612	chr3:110296571-110310664	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
16	nsv1007973	chr3:110296571-110313934	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:110302800-110311600	Weak transcription	Dnd41	blood
2	chr3:110310600-110311600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell

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