Variant report

Variant	rs17154709
Chromosome Location	chr8:8620141-8620142
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 101 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:80)

rs_ID	r²[population]
rs10092600	1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap]
rs10092720	1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap]
rs10093872	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs10105920	1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap]
rs10109886	1.00[JPT][hapmap]
rs10113326	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1039912	1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap]
rs10503392	0.91[ASN][1000 genomes]
rs11774722	0.91[ASN][1000 genomes]
rs11774744	0.91[ASN][1000 genomes]
rs11774860	1.00[CHB][hapmap]
rs11775476	0.84[ASN][1000 genomes]
rs11775821	0.91[ASN][1000 genomes]
rs11775888	0.91[ASN][1000 genomes]
rs11776513	0.91[ASN][1000 genomes]
rs11776546	0.91[ASN][1000 genomes]
rs11776845	0.87[ASN][1000 genomes]
rs11777091	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11778970	0.91[ASN][1000 genomes]
rs11779327	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11779524	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11780216	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11780824	0.95[ASN][1000 genomes]
rs11781542	0.91[ASN][1000 genomes]
rs11781841	0.95[ASN][1000 genomes]
rs11782235	0.81[AMR][1000 genomes]
rs11783112	0.91[ASN][1000 genomes]
rs11783944	0.91[ASN][1000 genomes]
rs11783950	0.91[ASN][1000 genomes]
rs11784958	0.91[ASN][1000 genomes]
rs11786455	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11906	1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap];0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs12155530	0.91[ASN][1000 genomes]
rs13261926	0.82[ASN][1000 genomes]
rs1589613	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17154599	0.82[ASN][1000 genomes]
rs17154702	0.91[ASN][1000 genomes]
rs17629935	0.81[AMR][1000 genomes]
rs17684466	0.82[ASN][1000 genomes]
rs2427	1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap];0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs28583936	0.87[ASN][1000 genomes]
rs28663303	0.82[ASN][1000 genomes]
rs35654766	0.87[ASN][1000 genomes]
rs3827807	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4840353	0.82[ASN][1000 genomes]
rs4840356	0.91[ASN][1000 genomes]
rs4840359	0.95[ASN][1000 genomes]
rs4840365	0.87[ASN][1000 genomes]
rs4841012	0.82[ASN][1000 genomes]
rs4841030	0.91[ASN][1000 genomes]
rs4841031	0.91[ASN][1000 genomes]
rs55798129	0.89[AMR][1000 genomes]
rs55816468	0.91[ASN][1000 genomes]
rs55874147	0.95[ASN][1000 genomes]
rs55971558	0.91[ASN][1000 genomes]
rs56007835	0.91[ASN][1000 genomes]
rs56094035	0.82[ASN][1000 genomes]
rs56152067	0.95[ASN][1000 genomes]
rs56173033	0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs56188408	0.95[ASN][1000 genomes]
rs57301822	0.91[ASN][1000 genomes]
rs66564323	0.87[ASN][1000 genomes]
rs67000451	0.87[ASN][1000 genomes]
rs67653033	0.87[ASN][1000 genomes]
rs68168815	0.82[ASN][1000 genomes]
rs6994131	0.82[ASN][1000 genomes]
rs7002397	1.00[CHB][hapmap];0.86[TSI][hapmap]
rs73198272	0.91[ASN][1000 genomes]
rs73198279	0.91[ASN][1000 genomes]
rs73198286	0.91[ASN][1000 genomes]
rs73198287	0.91[ASN][1000 genomes]
rs73198288	0.91[ASN][1000 genomes]
rs73198290	0.91[ASN][1000 genomes]
rs73201840	0.87[ASN][1000 genomes]
rs7813355	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs7816329	0.82[ASN][1000 genomes]
rs7816427	0.82[ASN][1000 genomes]
rs7819167	0.82[ASN][1000 genomes]
rs7820324	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs940032	0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:21 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv890331	chr8:8093240-8971100	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv1030433	chr8:8130629-8653691	Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
3	nsv539447	chr8:8130629-8653691	Flanking Bivalent TSS/Enh Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
4	nsv1033463	chr8:8221922-8674333	Weak transcription Bivalent/Poised TSS Genic enhancers Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
5	nsv539451	chr8:8221922-8674333	Weak transcription Strong transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
6	nsv1019613	chr8:8239352-8636357	Strong transcription Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
7	nsv539452	chr8:8239352-8636357	Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
8	nsv1019606	chr8:8353661-8736992	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
9	nsv539456	chr8:8353661-8736992	Strong transcription Weak transcription Bivalent Enhancer Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
10	nsv995047	chr8:8353662-8857913	Bivalent/Poised TSS Enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
11	nsv1016933	chr8:8432279-8624770	Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
12	nsv1022511	chr8:8493992-8737132	Weak transcription Flanking Active TSS Bivalent Enhancer Enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
13	nsv539457	chr8:8493992-8737132	Genic enhancers Enhancers Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
14	esv2762724	chr8:8578794-8630642	Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
15	esv1795023	chr8:8583943-8655580	Enhancers Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
16	esv1825234	chr8:8583943-8655580	Strong transcription Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
17	esv1824870	chr8:8583943-8699382	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
18	nsv610189	chr8:8590437-8664940	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
19	nsv831228	chr8:8608387-8790790	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
20	nsv1018828	chr8:8609880-8790660	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
21	nsv1022331	chr8:8610035-8787981	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs17154709	CLDN23	cis	multi-tissue	Pritchard
rs17154709	CTSB	cis	cerebellum	SCAN
rs17154709	MFHAS1	cis	cerebellum	SCAN
rs17154709	TDH	cis	cerebellum	SCAN
rs17154709	PPP1R3B	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:8610800-8621200	Weak transcription	Fetal Lung	lung

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