Variant report

Variant	rs17627019
Chromosome Location	chr8:8500562-8500563
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs11989467	1.00[ASN][1000 genomes]
rs11991607	1.00[ASN][1000 genomes]
rs11992599	1.00[ASN][1000 genomes]
rs11997261	1.00[ASN][1000 genomes]
rs13248908	1.00[CHB][hapmap]
rs13251924	1.00[ASN][1000 genomes]
rs13253870	1.00[ASN][1000 genomes]
rs13255451	1.00[ASN][1000 genomes]
rs13262476	1.00[ASN][1000 genomes]
rs13265046	1.00[ASN][1000 genomes]
rs13269433	1.00[ASN][1000 genomes]
rs13272624	1.00[ASN][1000 genomes]
rs13274548	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13280653	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs1522840	1.00[ASN][1000 genomes]
rs17617027	1.00[ASN][1000 genomes]
rs17618598	1.00[ASN][1000 genomes]
rs17618723	1.00[ASN][1000 genomes]
rs17626703	1.00[ASN][1000 genomes]
rs17681846	1.00[ASN][1000 genomes]
rs17682402	1.00[CHB][hapmap];1.00[LWK][hapmap];1.00[ASN][1000 genomes]
rs2177255	1.00[ASN][1000 genomes]
rs34419947	1.00[ASN][1000 genomes]
rs34517137	1.00[ASN][1000 genomes]
rs34675013	1.00[ASN][1000 genomes]
rs35231847	1.00[ASN][1000 genomes]
rs35571623	1.00[ASN][1000 genomes]
rs4840969	1.00[CHB][hapmap]
rs4840970	1.00[CHB][hapmap]
rs66599721	1.00[ASN][1000 genomes]
rs6983300	1.00[ASN][1000 genomes]
rs6994016	1.00[ASN][1000 genomes]
rs7001925	1.00[ASN][1000 genomes]
rs7010670	1.00[ASN][1000 genomes]
rs71514503	1.00[ASN][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	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	nsv1025994	chr8:8108863-8580201	Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
3	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
4	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
5	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
6	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
7	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
8	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
9	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
10	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
11	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
12	nsv890336	chr8:8396676-8500562	Weak transcription Flanking Active TSS Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
13	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
14	nsv610179	chr8:8471348-8501322	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
15	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
16	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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17627019	CLDN23	cis	multi-tissue	Pritchard

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:8489200-8513000	Weak transcription	Gastric	stomach
2	chr8:8492800-8500600	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr8:8493400-8506000	Weak transcription	HSMMtube	muscle
4	chr8:8494600-8504600	Weak transcription	Right Atrium	heart
5	chr8:8495000-8503000	Weak transcription	Spleen	Spleen
6	chr8:8495200-8503600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr8:8497400-8502800	Weak transcription	Fetal Muscle Leg	muscle
8	chr8:8498000-8506600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr8:8498200-8503600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
10	chr8:8499000-8501400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr8:8499000-8502400	Weak transcription	Fetal Brain Male	brain
12	chr8:8499000-8502600	Weak transcription	Adipose Nuclei	Adipose
13	chr8:8499000-8504400	Weak transcription	Fetal Kidney	kidney
14	chr8:8499200-8501000	Enhancers	GM12878-XiMat	blood
15	chr8:8499200-8502400	Weak transcription	Fetal Lung	lung
16	chr8:8499200-8502800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr8:8499200-8502800	Weak transcription	Cortex derived primary cultured neurospheres	brain
18	chr8:8499200-8502800	Weak transcription	Lung	lung
19	chr8:8499200-8502800	Weak transcription	Pancreas	Pancrea
20	chr8:8500200-8501000	Enhancers	Stomach Mucosa	stomach
21	chr8:8500200-8506400	Enhancers	Breast Myoepithelial Primary Cells	Breast
22	chr8:8500400-8500600	Enhancers	Brain Anterior Caudate	brain
23	chr8:8500400-8500600	Enhancers	Esophagus	oesophagus
24	chr8:8500400-8500600	Enhancers	Left Ventricle	heart
25	chr8:8500400-8500800	Flanking Active TSS	A549	lung
26	chr8:8500400-8500800	Flanking Active TSS	Hela-S3	cervix
27	chr8:8500400-8501000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr8:8500400-8501200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr8:8500400-8501200	Enhancers	Placenta	Placenta
30	chr8:8500400-8501200	Enhancers	NHEK	skin
31	chr8:8500400-8501400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr8:8500400-8501400	Enhancers	HMEC	breast
33	chr8:8500400-8501600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin

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