Variant report

Variant	rs17797425
Chromosome Location	chr4:56790878-56790879
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:56718714..56721334-chr4:56789784..56792673,2	K562	blood:

Variant related genes	Relation type
ENSG00000090989	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10033331	0.95[ASN][1000 genomes]
rs10212814	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10517365	0.98[ASN][1000 genomes]
rs10866430	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11133419	0.82[CEU][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap]
rs11724411	0.82[CEU][hapmap];0.95[GIH][hapmap];0.81[JPT][hapmap]
rs11726419	0.88[CEU][hapmap];1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];0.86[ASN][1000 genomes]
rs11731842	0.82[CEU][hapmap]
rs11732545	0.86[ASN][1000 genomes]
rs11734217	0.82[CEU][hapmap];0.90[JPT][hapmap];0.88[YRI][hapmap]
rs11933720	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.82[TSI][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11934142	0.82[CEU][hapmap];1.00[GIH][hapmap];0.81[JPT][hapmap];0.89[YRI][hapmap]
rs11937308	0.86[CHD][hapmap]
rs11937929	0.88[CEU][hapmap];1.00[CHB][hapmap];0.85[CHD][hapmap];0.95[GIH][hapmap];0.90[JPT][hapmap];1.00[LWK][hapmap];0.88[MKK][hapmap];0.80[YRI][hapmap];0.86[ASN][1000 genomes]
rs13112832	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1447045	0.85[CHD][hapmap]
rs2290014	0.86[ASN][1000 genomes]
rs2726736	0.81[CHD][hapmap]
rs28472524	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28507080	0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs28610174	0.86[ASN][1000 genomes]
rs3214045	0.82[CEU][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap]
rs34285861	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35003282	0.82[ASN][1000 genomes]
rs3806749	0.87[CEU][hapmap];0.85[CHB][hapmap];1.00[GIH][hapmap];0.80[EUR][1000 genomes]
rs62308565	0.81[EUR][1000 genomes]
rs6814923	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6815354	0.88[CEU][hapmap];1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];0.86[ASN][1000 genomes]
rs6823178	0.90[JPT][hapmap]
rs6830668	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6849999	0.86[ASN][1000 genomes]
rs7670026	0.88[CEU][hapmap];1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];0.92[MKK][hapmap];0.80[YRI][hapmap];0.86[ASN][1000 genomes]
rs9312668	0.88[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2755990	chr4:56317136-57143037	Strong transcription Weak transcription Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
2	nsv10496	chr4:56336946-56841137	Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
3	nsv1005845	chr4:56522075-56980357	Active TSS Bivalent Enhancer Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
4	esv3406311	chr4:56580578-56840877	ZNF genes & repeats Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
5	nsv427681	chr4:56651921-56908209	Strong transcription ZNF genes & repeats Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
6	nsv879025	chr4:56742205-56808607	Enhancers Strong transcription ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	nsv964348	chr4:56782802-56815653	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:56772800-56793200	Weak transcription	Left Ventricle	heart
2	chr4:56774000-56803200	Weak transcription	HUVEC	blood vessel
3	chr4:56787200-56791400	Weak transcription	NHLF	lung
4	chr4:56787800-56791000	Weak transcription	NHDF-Ad	bronchial
5	chr4:56787800-56791200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr4:56788400-56791000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr4:56790000-56794200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived

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