Variant report

Variant	rs1062219
Chromosome Location	chr8:11616410-11616411
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr8:11614600..11617057-chr8:11621350..11623693,3	K562	blood:
2	chr8:11614845..11616684-chr8:11618731..11620285,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000255394	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs11784764	0.86[ASN][1000 genomes]
rs11785481	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs13250578	1.00[JPT][hapmap]
rs13281294	1.00[JPT][hapmap]
rs2409814	1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs2645396	1.00[JPT][hapmap]
rs2645457	1.00[ASN][1000 genomes]
rs2686206	0.92[CEU][hapmap];0.87[TSI][hapmap]
rs3735819	1.00[JPT][hapmap]
rs6991234	1.00[JPT][hapmap]
rs7006733	1.00[JPT][hapmap]
rs745379	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs804279	0.85[GIH][hapmap]
rs804280	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs804281	1.00[ASN][1000 genomes]
rs804283	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs810738	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9644757	1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:10 , 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	nsv890359	chr8:11599570-11617240	Genic enhancers Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
10	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
rs1062219	TUSC3	cis	parietal	SCAN

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:11604800-11616800	Weak transcription	HUES6 Cell Line	embryonic stem cell
2	chr8:11606200-11617400	Strong transcription	HepG2	liver
3	chr8:11607000-11622800	Weak transcription	Stomach Mucosa	stomach
4	chr8:11608800-11619400	Strong transcription	Duodenum Mucosa	Duodenum
5	chr8:11609200-11618600	Strong transcription	Ovary	ovary
6	chr8:11610200-11618400	Strong transcription	Liver	Liver
7	chr8:11610600-11621200	Strong transcription	Fetal Intestine Small	intestine
8	chr8:11611200-11617000	Strong transcription	Placenta	Placenta
9	chr8:11611400-11618000	Strong transcription	Pancreas	Pancrea
10	chr8:11614400-11619200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr8:11614800-11616600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr8:11615200-11617600	Bivalent Enhancer	Fetal Muscle Trunk	muscle
13	chr8:11615200-11618200	Strong transcription	Gastric	stomach
14	chr8:11615400-11616600	Weak transcription	Fetal Heart	heart
15	chr8:11615400-11617000	Enhancers	Right Atrium	heart
16	chr8:11615800-11616800	Strong transcription	Right Ventricle	heart
17	chr8:11615800-11617800	Bivalent Enhancer	Fetal Muscle Leg	muscle
18	chr8:11615800-11626800	Weak transcription	Left Ventricle	heart
19	chr8:11616000-11616800	Strong transcription	Stomach Smooth Muscle	stomach
20	chr8:11616200-11617400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
21	chr8:11616400-11616600	Bivalent Enhancer	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr8:11616400-11616800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr8:11616400-11617200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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