Variant report

Variant	rs2522106
Chromosome Location	chr19:22140621-22140622
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 68 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10401697	0.83[EUR][1000 genomes]
rs10416159	0.83[EUR][1000 genomes]
rs10419899	0.82[EUR][1000 genomes]
rs11670558	0.83[EUR][1000 genomes]
rs1849000	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1849001	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1849003	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1849006	0.86[EUR][1000 genomes]
rs1859092	0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1859093	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1987570	0.84[EUR][1000 genomes]
rs1987974	0.84[EUR][1000 genomes]
rs1987975	0.84[EUR][1000 genomes]
rs1988427	0.83[EUR][1000 genomes]
rs2007506	0.83[EUR][1000 genomes]
rs2079062	0.86[EUR][1000 genomes]
rs2079064	0.84[EUR][1000 genomes]
rs2097733	0.86[EUR][1000 genomes]
rs2106870	0.80[EUR][1000 genomes]
rs2158107	0.86[EUR][1000 genomes]
rs2188971	0.82[EUR][1000 genomes]
rs2214296	0.86[EUR][1000 genomes]
rs2214301	0.83[EUR][1000 genomes]
rs2262908	0.86[EUR][1000 genomes]
rs2359810	0.84[EUR][1000 genomes]
rs2359812	0.84[EUR][1000 genomes]
rs2359813	0.83[EUR][1000 genomes]
rs2359814	0.83[EUR][1000 genomes]
rs2522089	0.86[EUR][1000 genomes]
rs2522090	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2522093	0.86[EUR][1000 genomes]
rs2522094	0.86[EUR][1000 genomes]
rs2522095	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2522096	0.84[EUR][1000 genomes]
rs2522101	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2522102	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2522103	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2666438	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2666440	0.80[AFR][1000 genomes];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2666442	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2666448	0.86[EUR][1000 genomes]
rs2666449	0.86[EUR][1000 genomes]
rs2666450	0.86[EUR][1000 genomes]
rs2666453	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4378732	0.84[EUR][1000 genomes]
rs6511305	0.84[EUR][1000 genomes]
rs6511306	0.84[EUR][1000 genomes]
rs6511307	0.84[EUR][1000 genomes]
rs6511308	0.84[EUR][1000 genomes]
rs7247121	0.84[EUR][1000 genomes]
rs7249472	0.80[EUR][1000 genomes]
rs8101183	0.83[EUR][1000 genomes]
rs8103214	0.84[EUR][1000 genomes]
rs8108535	0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3441368	chr19:21781459-22182822	Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	esv3339694	chr19:21781479-22182792	Enhancers Active TSS ZNF genes & repeats Weak transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv1063115	chr19:21782104-22528039	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
4	nsv911424	chr19:21798441-22471156	Strong transcription Enhancers Active TSS ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	36 gene(s)	inside rSNPs	diseases
5	nsv911425	chr19:21841379-22338142	Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
6	esv3395280	chr19:21968753-22202288	Active TSS Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
7	nsv833785	chr19:22082143-22263312	ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
8	nsv1058678	chr19:22084265-22288686	Active TSS ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
9	nsv1059225	chr19:22084265-22301003	Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
10	esv2754060	chr19:22086241-22567144	Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
11	nsv432039	chr19:22086260-22704860	ZNF genes & repeats Strong transcription Bivalent/Poised TSS Active TSS Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
12	esv3384540	chr19:22089182-22316805	Active TSS ZNF genes & repeats Weak transcription Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
13	esv3326382	chr19:22112592-22509135	Active TSS ZNF genes & repeats Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
14	esv3392637	chr19:22135121-22332040	ZNF genes & repeats Weak transcription Active TSS Enhancers Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2522106	AC003973.1	cis	Thyroid	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:22139200-22144800	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
2	chr19:22139400-22142600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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