Variant report

Variant	rs28696797
Chromosome Location	chr15:35370685-35370686
allele	C/G
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	CTCF	chr15:35370647-35371106	H1-hESC	embryonic stem cell:	n/a	chr15:35370871-35370892 chr15:35370869-35370887
2	SMC3	chr15:35370632-35371162	Hela-S3	cervix:	n/a	chr15:35370871-35370885
3	CTCF	chr15:35370367-35371297	A549	lung:	n/a	chr15:35370871-35370892 chr15:35370869-35370887
4	MYC	chr15:35370562-35371048	H1-hESC	embryonic stem cell:	n/a	n/a
5	RAD21	chr15:35370577-35371063	H1-hESC	embryonic stem cell:	n/a	chr15:35370872-35370879 chr15:35370870-35370889
6	CTCF	chr15:35370591-35371144	A549	lung:	n/a	chr15:35370871-35370892 chr15:35370869-35370887
7	CTCF	chr15:35370666-35371085	IMR90	lung:	n/a	chr15:35370871-35370892 chr15:35370869-35370887
8	CTCF	chr15:35370292-35371150	SK-N-SH	brain:	n/a	chr15:35370871-35370892 chr15:35370869-35370887
9	RAD21	chr15:35370682-35371047	GM12878	blood:	n/a	chr15:35370872-35370879 chr15:35370870-35370889
10	CHD1	chr15:35370341-35371217	IMR90	lung:	n/a	n/a
11	YY1	chr15:35370681-35371080	GM12878	blood:	n/a	n/a
12	RFX5	chr15:35370198-35371172	SK-N-SH	brain:	n/a	n/a
13	RAD21	chr15:35370644-35371121	Hela-S3	cervix:	n/a	chr15:35370872-35370879 chr15:35370870-35370889
14	CTCF	chr15:35370601-35371104	K562	blood:	n/a	chr15:35370871-35370892 chr15:35370869-35370887
15	CTCF	chr15:35370628-35371088	T-47D	breast:	n/a	chr15:35370871-35370892 chr15:35370869-35370887
16	RAD21	chr15:35370665-35371232	HepG2	liver:	n/a	chr15:35370872-35370879 chr15:35370870-35370889
17	MEF2A	chr15:35370663-35371148	GM12878	blood:	n/a	n/a
18	FOXM1	chr15:35370664-35371080	GM12878	blood:	n/a	n/a
19	RAD21	chr15:35370474-35371266	SK-N-SH	brain:	n/a	chr15:35370872-35370879 chr15:35370870-35370889
20	RAD21	chr15:35370675-35371110	GM12878	blood:	n/a	chr15:35370872-35370879 chr15:35370870-35370889
21	RAD21	chr15:35370620-35371126	ECC-1	luminal epithelium:	n/a	chr15:35370872-35370879 chr15:35370870-35370889
22	RAD21	chr15:35370372-35371145	IMR90	lung:	n/a	chr15:35370872-35370879 chr15:35370870-35370889
23	RAD21	chr15:35370635-35371168	ECC-1	luminal epithelium:	n/a	chr15:35370872-35370879 chr15:35370870-35370889
24	RAD21	chr15:35370671-35371123	SK-N-SH_RA	brain:	n/a	chr15:35370872-35370879 chr15:35370870-35370889
25	SMC3	chr15:35370683-35371131	K562	blood:	n/a	chr15:35370871-35370885
26	RAD21	chr15:35370597-35371139	MCF-7	breast:	n/a	chr15:35370872-35370879 chr15:35370870-35370889
27	SMC3	chr15:35370553-35371102	GM12878	blood:	n/a	chr15:35370871-35370885
28	RAD21	chr15:35370598-35371202	A549	lung:	n/a	chr15:35370872-35370879 chr15:35370870-35370889
29	RAD21	chr15:35370611-35371159	MCF-7	breast:	n/a	chr15:35370872-35370879 chr15:35370870-35370889
30	SMC3	chr15:35370335-35371219	SK-N-SH	brain:	n/a	chr15:35370871-35370885
31	RAD21	chr15:35370414-35371158	H1-hESC	embryonic stem cell:	n/a	chr15:35370872-35370879 chr15:35370870-35370889
32	RAD21	chr15:35370630-35371210	A549	lung:	n/a	chr15:35370872-35370879 chr15:35370870-35370889
33	CTCF	chr15:35370645-35371108	HCT-116	colon:	n/a	chr15:35370871-35370892 chr15:35370869-35370887
34	RAD21	chr15:35370660-35371089	GM12878	blood:	n/a	chr15:35370872-35370879 chr15:35370870-35370889
35	RAD21	chr15:35370545-35371156	HCT-116	colon:	n/a	chr15:35370872-35370879 chr15:35370870-35370889
36	MXI1	chr15:35370419-35371074	SK-N-SH	brain:	n/a	n/a
37	RAD21	chr15:35370596-35371231	H1-hESC	embryonic stem cell:	n/a	chr15:35370872-35370879 chr15:35370870-35370889
38	SMC3	chr15:35370659-35371105	HepG2	liver:	n/a	chr15:35370871-35370885
39	RAD21	chr15:35370606-35371162	SK-N-SH_RA	brain:	n/a	chr15:35370872-35370879 chr15:35370870-35370889
40	RAD21	chr15:35370576-35371112	HCT-116	colon:	n/a	chr15:35370872-35370879 chr15:35370870-35370889
41	RAD21	chr15:35370618-35371099	HepG2	liver:	n/a	chr15:35370872-35370879 chr15:35370870-35370889
42	CTCF	chr15:35370625-35371095	GM12878	blood:	n/a	chr15:35370871-35370892 chr15:35370869-35370887

No.	Distal block	Cell Line	Cell type
1	chr15:35370420..35371365-chr15:35581191..35581855,3	MCF-7	breast:
2	chr15:35370339..35371410-chr15:35736203..35737471,9	K562	blood:
3	chr15:35370163..35370973-chr15:35736756..35737635,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000259665	TF binding region

Extended variants
information (count: 6 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs12908723	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12914998	0.85[ASN][1000 genomes]
rs2279069	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28479394	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3350109	chr15:34668106-35534229	Strong transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
2	nsv522411	chr15:34953986-35462981	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:35357000-35379400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr15:35370400-35370800	Enhancers	HUES6 Cell Line	embryonic stem cell
3	chr15:35370600-35372800	Weak transcription	HUES64 Cell Line	embryonic stem cell
4	chr15:35370600-35373600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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