Variant report

Variant	rs804289
Chromosome Location	chr8:11617916-11617917
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr8:11617826-11618027	HepG2	liver:	n/a	n/a
2	CEBPB	chr8:11617753-11617916	HepG2	liver:	n/a	n/a

Variant related genes	Relation type
C8orf49	TF binding region

Extended variants
information (count: 23 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs1004712	0.81[ASN][1000 genomes]
rs10108052	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10108876	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11778526	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12458	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12825	0.80[ASN][1000 genomes]
rs1466785	0.83[ASN][1000 genomes]
rs2645453	0.85[ASN][1000 genomes]
rs2740433	0.89[ASN][1000 genomes]
rs7015453	0.97[ASN][1000 genomes]
rs804272	0.87[ASN][1000 genomes]
rs867858	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9329248	0.97[ASN][1000 genomes]
rs9644752	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529399	chr8:10970091-11805960	Enhancers Strong transcription Weak transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
2	nsv1018978	chr8:11438267-11858466	Flanking Active TSS Bivalent/Poised TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer 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	29 gene(s)	inside rSNPs	diseases
3	nsv917963	chr8:11540723-11751798	Genic enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
4	nsv1027378	chr8:11541739-11858466	Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
5	nsv1028229	chr8:11575762-11805961	Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
6	nsv539475	chr8:11575762-11805961	Flanking Active TSS Genic enhancers Enhancers Weak transcription Transcr. at gene 5' and 3' Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
7	nsv428514	chr8:11580381-11765706	Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
8	nsv916483	chr8:11590294-11672038	Strong transcription Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
9	nsv1034014	chr8:11602337-11858466	Enhancers Active TSS Strong transcription Weak transcription Genic enhancers Flanking 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	26 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs804289	NEIL2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:11607000-11622800	Weak transcription	Stomach Mucosa	stomach
2	chr8:11608800-11619400	Strong transcription	Duodenum Mucosa	Duodenum
3	chr8:11609200-11618600	Strong transcription	Ovary	ovary
4	chr8:11610200-11618400	Strong transcription	Liver	Liver
5	chr8:11610600-11621200	Strong transcription	Fetal Intestine Small	intestine
6	chr8:11611400-11618000	Strong transcription	Pancreas	Pancrea
7	chr8:11614400-11619200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr8:11615200-11618200	Strong transcription	Gastric	stomach
9	chr8:11615800-11626800	Weak transcription	Left Ventricle	heart
10	chr8:11616800-11618400	Genic enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr8:11616800-11618600	Weak transcription	Stomach Smooth Muscle	stomach
12	chr8:11617000-11622800	Weak transcription	Fetal Heart	heart
13	chr8:11617000-11623000	Weak transcription	Placenta	Placenta
14	chr8:11617000-11626800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr8:11617200-11618200	Weak transcription	H1 Cell Line	embryonic stem cell
16	chr8:11617200-11619400	Weak transcription	HSMMtube	muscle
17	chr8:11617200-11619600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr8:11617400-11619200	Weak transcription	Right Ventricle	heart
19	chr8:11617400-11619400	Weak transcription	HUES6 Cell Line	embryonic stem cell
20	chr8:11617400-11619400	Weak transcription	HSMM	muscle
21	chr8:11617400-11620000	Weak transcription	HUES64 Cell Line	embryonic stem cell
22	chr8:11617400-11622800	Weak transcription	HUES48 Cell Line	embryonic stem cell
23	chr8:11617400-11623200	Weak transcription	HepG2	liver
24	chr8:11617400-11626000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr8:11617400-11626400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
26	chr8:11617400-11626800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
27	chr8:11617800-11618600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr8:11617800-11619200	Weak transcription	ES-I3 Cell Line	embryonic stem cell

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