Variant report

Variant	rs17202466
Chromosome Location	chr3:110430026-110430027
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 122 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:110)

rs_ID	r²[population]
rs10934065	0.85[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1156330	0.91[EUR][1000 genomes]
rs1156743	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1156744	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1156775	0.91[EUR][1000 genomes]
rs1156776	0.90[EUR][1000 genomes]
rs1156777	0.91[EUR][1000 genomes]
rs11715183	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11721105	0.88[ASN][1000 genomes]
rs1303902	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13098266	0.87[EUR][1000 genomes]
rs13098277	0.82[EUR][1000 genomes]
rs1350929	0.91[EUR][1000 genomes]
rs1381604	0.83[EUR][1000 genomes]
rs1462294	0.90[EUR][1000 genomes]
rs1462301	0.83[EUR][1000 genomes]
rs1462302	0.91[EUR][1000 genomes]
rs1462303	0.90[EUR][1000 genomes]
rs1462306	0.90[EUR][1000 genomes]
rs1462314	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1462315	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1462316	0.90[EUR][1000 genomes]
rs1473828	0.82[EUR][1000 genomes]
rs1547543	0.82[EUR][1000 genomes]
rs1585559	0.84[EUR][1000 genomes]
rs1599569	0.89[EUR][1000 genomes]
rs1599570	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1599572	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1599574	0.85[EUR][1000 genomes]
rs1824630	0.90[EUR][1000 genomes]
rs1903678	0.91[EUR][1000 genomes]
rs2054375	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2126450	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2169496	0.84[EUR][1000 genomes]
rs2199454	0.91[EUR][1000 genomes]
rs2399356	0.89[EUR][1000 genomes]
rs2399357	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2399361	0.91[EUR][1000 genomes]
rs2399362	0.81[EUR][1000 genomes]
rs4234398	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4234400	0.88[EUR][1000 genomes]
rs4362750	0.88[EUR][1000 genomes]
rs4395426	0.82[EUR][1000 genomes]
rs4410465	0.82[EUR][1000 genomes]
rs4438690	0.91[EUR][1000 genomes]
rs4449350	0.82[EUR][1000 genomes]
rs4450854	0.82[EUR][1000 genomes]
rs4469006	0.81[EUR][1000 genomes]
rs4481181	0.88[EUR][1000 genomes]
rs4547734	0.82[EUR][1000 genomes]
rs4550849	0.82[EUR][1000 genomes]
rs4588395	0.81[EUR][1000 genomes]
rs4610259	0.82[EUR][1000 genomes]
rs4634158	0.82[EUR][1000 genomes]
rs4640600	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4682014	0.82[EUR][1000 genomes]
rs4682018	0.88[EUR][1000 genomes]
rs4682019	0.84[EUR][1000 genomes]
rs4682020	0.86[EUR][1000 genomes]
rs4682192	0.82[EUR][1000 genomes]
rs4682193	0.82[EUR][1000 genomes]
rs4682194	0.82[EUR][1000 genomes]
rs4682195	0.82[EUR][1000 genomes]
rs4682198	0.88[EUR][1000 genomes]
rs4682204	0.84[EUR][1000 genomes]
rs4682205	0.82[EUR][1000 genomes]
rs4682206	0.82[EUR][1000 genomes]
rs55894328	0.89[EUR][1000 genomes]
rs56203101	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6437925	0.91[EUR][1000 genomes]
rs6762150	0.91[EUR][1000 genomes]
rs6773268	0.86[EUR][1000 genomes]
rs6784490	0.89[EUR][1000 genomes]
rs6809227	0.86[EUR][1000 genomes]
rs7615772	0.91[EUR][1000 genomes]
rs7629191	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7633076	0.91[EUR][1000 genomes]
rs7633234	0.82[EUR][1000 genomes]
rs7633936	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7637105	0.81[EUR][1000 genomes]
rs7637286	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7640594	0.91[EUR][1000 genomes]
rs7647181	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7647421	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9288913	0.82[EUR][1000 genomes]
rs931019	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9816253	0.91[EUR][1000 genomes]
rs9820478	0.91[EUR][1000 genomes]
rs9826294	0.82[EUR][1000 genomes]
rs9830854	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9830959	0.91[EUR][1000 genomes]
rs9836371	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9837589	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9838550	0.88[EUR][1000 genomes]
rs9838611	0.82[EUR][1000 genomes]
rs9838715	0.80[EUR][1000 genomes]
rs9840671	0.82[EUR][1000 genomes]
rs9842924	0.91[EUR][1000 genomes]
rs9843528	0.81[EUR][1000 genomes]
rs9843978	0.82[EUR][1000 genomes]
rs9844791	0.82[EUR][1000 genomes]
rs9857065	0.85[EUR][1000 genomes]
rs9857228	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9859534	0.82[EUR][1000 genomes]
rs9863549	0.82[EUR][1000 genomes]
rs9864306	0.80[EUR][1000 genomes]
rs9876058	0.82[EUR][1000 genomes]
rs9884058	0.82[EUR][1000 genomes]
rs991930	0.85[EUR][1000 genomes]
rs994125	0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	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
3	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
4	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
5	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
6	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
7	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
8	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
9	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
10	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
11	nsv829673	chr3:110378069-110530815	Enhancers Weak transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
12	nsv3941	chr3:110385790-110430523	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:110427200-110433400	Enhancers	Fetal Intestine Small	intestine
2	chr3:110427600-110430200	Weak transcription	HUES6 Cell Line	embryonic stem cell
3	chr3:110427800-110432600	Enhancers	ES-I3 Cell Line	embryonic stem cell
4	chr3:110428200-110432600	Enhancers	iPS-15b Cell Line	embryonic stem cell
5	chr3:110428200-110433000	Enhancers	HUES64 Cell Line	embryonic stem cell
6	chr3:110428200-110434200	Enhancers	Fetal Intestine Large	intestine
7	chr3:110428400-110431200	Enhancers	Liver	Liver
8	chr3:110428400-110431600	Enhancers	HUES48 Cell Line	embryonic stem cell
9	chr3:110428400-110432600	Enhancers	H1 Cell Line	embryonic stem cell
10	chr3:110429400-110430800	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr3:110429400-110431200	Enhancers	HepG2	liver
12	chr3:110429600-110431800	Enhancers	iPS-18 Cell Line	embryonic stem cell
13	chr3:110429800-110431400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
14	chr3:110430000-110431000	Enhancers	Duodenum Mucosa	Duodenum
15	chr3:110430000-110431200	Enhancers	Pancreatic Islets	Pancreatic Islet
16	chr3:110430000-110431600	Enhancers	Stomach Mucosa	stomach
17	chr3:110430000-110431800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr3:110430000-110431800	Enhancers	iPS-20b Cell Line	embryonic stem cell

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