Variant report

Variant	rs6882366
Chromosome Location	chr5:95864693-95864694
allele	C/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	TCF12	chr5:95864291-95865122	SK-N-SH	brain:	n/a	n/a
2	FOSL2	chr5:95864435-95865105	A549	lung:	n/a	chr5:95864685-95864695 chr5:95864685-95864695
3	POLR2A	chr5:95864413-95864908	H1-neurons	neurons:	n/a	n/a
4	NFIC	chr5:95864409-95864978	SK-N-SH	brain:	n/a	n/a
5	JUND	chr5:95864424-95864981	SK-N-SH	brain:	n/a	chr5:95864685-95864695 chr5:95864685-95864695
6	PBX3	chr5:95864307-95865152	SK-N-SH	brain:	n/a	n/a
7	STAT3	chr5:95864585-95864785	MCF10A-Er-Src	breast:	n/a	n/a
8	GATA3	chr5:95864307-95865123	SK-N-SH	brain:	n/a	chr5:95864994-95865004 chr5:95864874-95864895
9	SP1	chr5:95864503-95865015	A549	lung:	n/a	n/a
10	RAD21	chr5:95864408-95864898	SK-N-SH_RA	brain:	n/a	n/a
11	TCF12	chr5:95864341-95865144	A549	lung:	n/a	n/a
12	EP300	chr5:95864370-95864989	SK-N-SH_RA	brain:	n/a	n/a
13	GATA3	chr5:95864230-95865161	SK-N-SH	brain:	n/a	chr5:95864994-95865004 chr5:95864874-95864895
14	EP300	chr5:95863995-95865236	SK-N-SH	brain:	n/a	n/a
15	PBX3	chr5:95864404-95865041	SK-N-SH	brain:	n/a	n/a
16	EP300	chr5:95864368-95865037	SK-N-SH	brain:	n/a	n/a
17	RAD21	chr5:95864482-95864925	SK-N-SH_RA	brain:	n/a	n/a
18	GATA2	chr5:95864076-95864929	SH-SY5Y	brain:	n/a	chr5:95864874-95864895
19	NFIC	chr5:95864328-95865131	SK-N-SH	brain:	n/a	n/a
20	POLR2A	chr5:95864406-95864926	H1-neurons	neurons:	n/a	n/a
21	EP300	chr5:95864160-95865087	SK-N-SH_RA	brain:	n/a	n/a
22	GATA3	chr5:95864554-95865240	SH-SY5Y	brain:	n/a	chr5:95864994-95865004 chr5:95864874-95864895
23	TCF12	chr5:95864386-95865129	SK-N-SH	brain:	n/a	n/a
24	POLR2A	chr5:95864474-95864913	SK-N-SH	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:95860896..95864045-chr5:95864403..95867369,3	MCF-7	breast:

Variant related genes	Relation type
CAST	TF binding region
ENSG00000153113	Chromatin interaction

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

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

rs_ID	r²[population]
rs10062657	0.82[ASN][1000 genomes]
rs10077823	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1026534	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10476682	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11951673	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11955324	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11960326	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12514158	0.99[ASN][1000 genomes]
rs13161802	0.99[ASN][1000 genomes]
rs13164745	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13176161	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13186522	0.95[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs1459843	0.99[ASN][1000 genomes]
rs1837269	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs2611731	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2611732	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2611742	1.00[CHB][hapmap];0.98[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs261964	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs261966	0.95[ASN][1000 genomes]
rs261967	0.95[ASN][1000 genomes]
rs261982	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs261983	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs263349	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34215404	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34976806	0.99[ASN][1000 genomes]
rs3853211	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3853212	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4869139	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.97[TSI][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56026556	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62365719	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6556925	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6556926	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6889155	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7713143	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7737742	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1030444	chr5:95353620-95995619	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	16 gene(s)	inside rSNPs	diseases
2	nsv537810	chr5:95353620-95995619	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	16 gene(s)	inside rSNPs	diseases
3	nsv1024964	chr5:95742124-96065492	Enhancers Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
4	nsv537811	chr5:95742124-96065492	Transcr. at gene 5' and 3' Active TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
5	nsv1026484	chr5:95759910-95961518	Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:95863600-95867400	Enhancers	Hela-S3	cervix
2	chr5:95863800-95865800	Enhancers	HUVEC	blood vessel
3	chr5:95864000-95864800	Enhancers	Left Ventricle	heart
4	chr5:95864200-95865400	Enhancers	Pancreatic Islets	Pancreatic Islet
5	chr5:95864600-95864800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr5:95864600-95865000	Enhancers	A549	lung

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