Variant report

Variant	rs3117297
Chromosome Location	chr6:29653824-29653825
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	RAD21	chr6:29653551-29653861	Hela-S3	cervix:	n/a	n/a
2	CTCF	chr6:29653498-29653963	MCF-7	breast:	n/a	chr6:29653634-29653641
3	SMC3	chr6:29653541-29653850	K562	blood:	n/a	n/a
4	CTCF	chr6:29653580-29653830	GM06990	blood:	n/a	chr6:29653634-29653641
5	RAD21	chr6:29653557-29653947	MCF-7	breast:	n/a	n/a
6	CTCF	chr6:29653510-29653925	MCF-7	breast:	n/a	chr6:29653634-29653641
7	RCOR1	chr6:29653595-29653902	K562	blood:	n/a	n/a
8	CTCF	chr6:29653595-29653839	MCF-7	breast:	n/a	chr6:29653634-29653641
9	CTCF	chr6:29653513-29653857	K562	blood:	n/a	chr6:29653634-29653641
10	CTCF	chr6:29653580-29653846	H1-hESC	embryonic stem cell:	n/a	chr6:29653634-29653641
11	CTCF	chr6:29653597-29653842	MCF-7	breast:	n/a	chr6:29653634-29653641
12	JUND	chr6:29653627-29653835	K562	blood:	n/a	n/a
13	RAD21	chr6:29653513-29653879	SK-N-SH_RA	brain:	n/a	n/a
14	CTCF	chr6:29653584-29653840	MCF-7	breast:	n/a	chr6:29653634-29653641
15	BACH1	chr6:29653483-29653888	H1-hESC	embryonic stem cell:	n/a	n/a
16	CTCF	chr6:29653476-29653961	H1-hESC	embryonic stem cell:	n/a	chr6:29653634-29653641
17	CTCF	chr6:29653539-29653888	K562	blood:	n/a	chr6:29653634-29653641
18	GTF2F1	chr6:29653647-29653847	H1-hESC	embryonic stem cell:	n/a	n/a
19	CTCF	chr6:29653585-29653839	NHEK	skin:	n/a	chr6:29653634-29653641
20	CTCF	chr6:29653680-29653830	AG09309	skin:	n/a	n/a
21	RAD21	chr6:29653475-29653850	MCF-7	breast:	n/a	n/a
22	CTCF	chr6:29653680-29653830	HPAF	blood vessel:	n/a	n/a
23	CTCF	chr6:29653595-29653826	MCF-7	breast:	n/a	chr6:29653634-29653641
24	CTCF	chr6:29653521-29653887	HepG2	liver:	n/a	chr6:29653634-29653641
25	RAD21	chr6:29653525-29653869	HepG2	liver:	n/a	n/a
26	ZNF143	chr6:29653540-29653871	H1-hESC	embryonic stem cell:	n/a	n/a
27	CTCF	chr6:29653580-29653887	K562	blood:	n/a	chr6:29653634-29653641
28	RAD21	chr6:29653605-29653871	ECC-1	luminal epithelium:	n/a	n/a
29	RAD21	chr6:29653398-29653914	H1-hESC	embryonic stem cell:	n/a	n/a
30	CTCF	chr6:29653348-29653946	SK-N-SH	brain:	n/a	chr6:29653634-29653641
31	CTCF	chr6:29653463-29653892	K562	blood:	n/a	chr6:29653634-29653641
32	MAZ	chr6:29653610-29653854	K562	blood:	n/a	n/a
33	REST	chr6:29653637-29653873	H1-hESC	embryonic stem cell:	n/a	n/a
34	RAD21	chr6:29653448-29653950	H1-hESC	embryonic stem cell:	n/a	n/a
35	CTCF	chr6:29653507-29653876	H1-hESC	embryonic stem cell:	n/a	chr6:29653634-29653641
36	RFX5	chr6:29653493-29653894	H1-hESC	embryonic stem cell:	n/a	chr6:29653567-29653583
37	CTCF	chr6:29653594-29653848	K562	blood:	n/a	chr6:29653634-29653641
38	CTCF	chr6:29653611-29653847	Gliobla	brain:	n/a	chr6:29653634-29653641
39	RAD21	chr6:29653339-29653960	H1-hESC	embryonic stem cell:	n/a	n/a
40	CTCF	chr6:29653604-29653828	Hela-S3	cervix:	n/a	chr6:29653634-29653641

No.	Distal block	Cell Line	Cell type
1	chr6:29617916..29618459-chr6:29653660..29654518,2	MCF-7	breast:
2	chr6:29617940..29618834-chr6:29653305..29654103,4	MCF-7	breast:
3	chr6:29619566..29622372-chr6:29653366..29655066,2	MCF-7	breast:
4	chr6:29619162..29620164-chr6:29653167..29654163,5	MCF-7	breast:

Variant related genes	Relation type
ZFP57	TF binding region

Extended variants
information (count: 110 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:107)

rs_ID	r²[population]
rs1059174	0.93[ASN][1000 genomes]
rs1610600	0.93[ASN][1000 genomes]
rs1610603	0.93[ASN][1000 genomes]
rs1610604	0.93[ASN][1000 genomes]
rs1610605	0.93[ASN][1000 genomes]
rs1610607	0.93[ASN][1000 genomes]
rs1610613	0.93[ASN][1000 genomes]
rs1610623	0.86[ASN][1000 genomes]
rs1610626	0.93[ASN][1000 genomes]
rs1610627	0.93[ASN][1000 genomes]
rs1610630	0.93[ASN][1000 genomes]
rs1610632	0.93[ASN][1000 genomes]
rs1610727	0.86[ASN][1000 genomes]
rs1610728	0.93[ASN][1000 genomes]
rs1610737	0.93[ASN][1000 genomes]
rs1610738	0.93[ASN][1000 genomes]
rs1610740	1.00[ASN][1000 genomes]
rs1611278	0.81[ASN][1000 genomes]
rs1611279	0.93[ASN][1000 genomes]
rs1611294	0.93[ASN][1000 genomes]
rs1611297	0.93[ASN][1000 genomes]
rs1611352	0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1625607	0.93[ASN][1000 genomes]
rs1625636	0.93[ASN][1000 genomes]
rs1626636	0.93[ASN][1000 genomes]
rs1632447	0.93[ASN][1000 genomes]
rs1632956	0.93[ASN][1000 genomes]
rs1632958	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1632959	0.93[ASN][1000 genomes]
rs1632984	0.85[ASN][1000 genomes]
rs1633012	0.85[ASN][1000 genomes]
rs1633025	1.00[ASN][1000 genomes]
rs1633026	1.00[ASN][1000 genomes]
rs1633036	1.00[ASN][1000 genomes]
rs1633038	1.00[ASN][1000 genomes]
rs1633042	0.93[ASN][1000 genomes]
rs1633043	0.93[ASN][1000 genomes]
rs1633045	0.93[ASN][1000 genomes]
rs1633046	0.93[ASN][1000 genomes]
rs1633048	0.93[ASN][1000 genomes]
rs1633049	0.93[ASN][1000 genomes]
rs1633050	0.93[ASN][1000 genomes]
rs1633051	0.93[ASN][1000 genomes]
rs1633052	0.93[ASN][1000 genomes]
rs1633055	0.93[ASN][1000 genomes]
rs1633056	0.93[ASN][1000 genomes]
rs1633057	0.93[ASN][1000 genomes]
rs1633058	0.93[ASN][1000 genomes]
rs1633060	0.93[ASN][1000 genomes]
rs1633061	0.93[ASN][1000 genomes]
rs1633062	0.93[ASN][1000 genomes]
rs1633064	0.93[ASN][1000 genomes]
rs1633069	0.93[ASN][1000 genomes]
rs1633070	0.86[ASN][1000 genomes]
rs1633071	0.93[ASN][1000 genomes]
rs1633074	0.86[ASN][1000 genomes]
rs1633076	0.93[ASN][1000 genomes]
rs1633091	0.93[ASN][1000 genomes]
rs1736910	0.93[ASN][1000 genomes]
rs1736911	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1736914	0.93[ASN][1000 genomes]
rs1736916	0.93[ASN][1000 genomes]
rs1736921	0.93[ASN][1000 genomes]
rs1736995	0.85[ASN][1000 genomes]
rs1737008	0.85[ASN][1000 genomes]
rs1737022	1.00[ASN][1000 genomes]
rs1737039	0.86[ASN][1000 genomes]
rs1737058	0.80[EUR][1000 genomes]
rs1737065	0.93[ASN][1000 genomes]
rs1737066	0.93[ASN][1000 genomes]
rs1737068	0.93[ASN][1000 genomes]
rs1737070	0.93[ASN][1000 genomes]
rs1737071	0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1737073	0.93[ASN][1000 genomes]
rs1737074	0.93[ASN][1000 genomes]
rs1737075	0.93[ASN][1000 genomes]
rs1737081	0.93[ASN][1000 genomes]
rs1737084	0.93[ASN][1000 genomes]
rs1737087	0.93[ASN][1000 genomes]
rs2248693	0.93[ASN][1000 genomes]
rs2735050	0.93[ASN][1000 genomes]
rs3095285	0.85[EUR][1000 genomes]
rs3117303	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3129029	0.82[EUR][1000 genomes]
rs3129043	0.85[EUR][1000 genomes]
rs3129081	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3129184	0.85[ASN][1000 genomes]
rs3130250	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3130252	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3131858	0.93[ASN][1000 genomes]
rs3131862	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3135049	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3135050	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6933762	0.93[ASN][1000 genomes]
rs733840	0.93[ASN][1000 genomes]
rs733841	0.93[ASN][1000 genomes]
rs909717	0.93[ASN][1000 genomes]
rs909723	0.93[ASN][1000 genomes]
rs909724	0.81[ASN][1000 genomes]
rs909725	0.86[ASN][1000 genomes]
rs909726	0.93[ASN][1000 genomes]
rs909727	0.93[ASN][1000 genomes]
rs909732	0.93[ASN][1000 genomes]
rs909735	0.93[ASN][1000 genomes]
rs9258243	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs932338	0.93[ASN][1000 genomes]
rs932341	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758039	chr6:29469101-29672665	Flanking Active TSS Active TSS Strong transcription Enhancers Weak transcription Bivalent Enhancer Genic 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	23 gene(s)	inside rSNPs	diseases
2	esv2759411	chr6:29469101-29672665	Active TSS Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
3	nsv883530	chr6:29645038-29677641	Weak transcription Bivalent/Poised TSS Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 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	chr6:29625000-29663600	Weak transcription	Right Atrium	heart
2	chr6:29648800-29662600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr6:29649200-29655000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr6:29652200-29656000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr6:29653400-29654000	Enhancers	HUES48 Cell Line	embryonic stem cell
6	chr6:29653400-29654000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr6:29653800-29654000	Enhancers	H1 Cell Line	embryonic stem cell

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