Variant report

Variant	rs7515573
Chromosome Location	chr1:152371996-152371997
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	RAD21	chr1:152371419-152372234	MCF-7	breast:	n/a	chr1:152371728-152371738 chr1:152371723-152371742
2	RAD21	chr1:152371628-152371999	SK-N-SH	brain:	n/a	chr1:152371728-152371738 chr1:152371723-152371742
3	CTCF	chr1:152371604-152372101	MCF-7	breast:	n/a	chr1:152371724-152371745 chr1:152371722-152371740 chr1:152371725-152371734
4	CTCF	chr1:152371940-152372065	ProgFib	skin:	n/a	n/a
5	CTCF	chr1:152371939-152372073	Gliobla	brain:	n/a	n/a
6	RAD21	chr1:152371464-152372020	A549	lung:	n/a	chr1:152371728-152371738 chr1:152371723-152371742
7	CTCF	chr1:152371467-152372005	A549	lung:	n/a	chr1:152371724-152371745 chr1:152371722-152371740 chr1:152371725-152371734
8	POLR2A	chr1:152371908-152372000	GM12878	blood:	n/a	n/a
9	CTCF	chr1:152371422-152372339	HCT-116	colon:	n/a	chr1:152371724-152371745 chr1:152371722-152371740 chr1:152371725-152371734
10	RAD21	chr1:152371396-152372188	HCT-116	colon:	n/a	chr1:152371728-152371738 chr1:152371723-152371742
11	CTCF	chr1:152371882-152372094	MCF-7	breast:	n/a	n/a
12	RAD21	chr1:152371511-152372116	HCT-116	colon:	n/a	chr1:152371728-152371738 chr1:152371723-152371742
13	ZNF217	chr1:152371556-152372114	MCF-7	breast:	n/a	n/a
14	CTCF	chr1:152371935-152372036	HepG2	liver:	n/a	n/a
15	RAD21	chr1:152371495-152372019	A549	lung:	n/a	chr1:152371728-152371738 chr1:152371723-152371742
16	CTCF	chr1:152371587-152372097	MCF-7	breast:	n/a	chr1:152371724-152371745 chr1:152371722-152371740 chr1:152371725-152371734
17	POLR2A	chr1:152371922-152372023	A549	lung:	n/a	n/a
18	CTCF	chr1:152371940-152372090	HRE	kidney:	n/a	n/a
19	CTCF	chr1:152371871-152372100	MCF-7	breast:	n/a	n/a
20	RAD21	chr1:152371502-152372155	MCF-7	breast:	n/a	chr1:152371728-152371738 chr1:152371723-152371742
21	CTCF	chr1:152371521-152372080	T-47D	breast:	n/a	chr1:152371724-152371745 chr1:152371722-152371740 chr1:152371725-152371734
22	POLR2A	chr1:152371907-152372073	GM12878	blood:	n/a	n/a
23	CTCF	chr1:152371934-152372050	Fibrobl	skin:	n/a	n/a
24	CTCF	chr1:152371533-152372113	HepG2	liver:	n/a	chr1:152371724-152371745 chr1:152371722-152371740 chr1:152371725-152371734
25	CTCF	chr1:152371565-152372111	MCF-7	breast:	n/a	chr1:152371724-152371745 chr1:152371722-152371740 chr1:152371725-152371734
26	CTCF	chr1:152371323-152372314	A549	lung:	n/a	chr1:152371724-152371745 chr1:152371722-152371740 chr1:152371725-152371734
27	POLR2A	chr1:152371913-152371998	A549	lung:	n/a	n/a
28	POLR2A	chr1:152371957-152372055	K562	blood:	n/a	n/a
29	CTCF	chr1:152371495-152372250	MCF-7	breast:	n/a	chr1:152371724-152371745 chr1:152371722-152371740 chr1:152371725-152371734
30	CTCF	chr1:152371414-152372053	SK-N-SH	brain:	n/a	chr1:152371724-152371745 chr1:152371722-152371740 chr1:152371725-152371734
31	CTCF	chr1:152371900-152372050	HBMEC	blood vessel:	n/a	n/a
32	POLR2A	chr1:152371909-152372009	HepG2	liver:	n/a	n/a
33	POLR2A	chr1:152371900-152372012	Hela-S3	cervix:	n/a	n/a
34	CTCF	chr1:152371589-152372084	A549	lung:	n/a	chr1:152371724-152371745 chr1:152371722-152371740 chr1:152371725-152371734
35	CTCF	chr1:152371338-152372275	HCT-116	colon:	n/a	chr1:152371724-152371745 chr1:152371722-152371740 chr1:152371725-152371734
36	SMC3	chr1:152371316-152372124	SK-N-SH	brain:	n/a	chr1:152371724-152371738 chr1:152371724-152371731
37	CTCF	chr1:152371352-152372247	MCF-7	breast:	n/a	chr1:152371724-152371745 chr1:152371722-152371740 chr1:152371725-152371734
38	CTCF	chr1:152371905-152372041	HepG2	liver:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:152371466..152372490-chr6:79944096..79944688,3	NB4	blood:
2	chr1:152371971..152372478-chr6:79943574..79944555,2	MCF-7	breast:

Variant related genes	Relation type
HMGN3P1	TF binding region
ENSG00000118418	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs6673073	1.00[AMR][1000 genomes]
rs7549175	1.00[YRI][hapmap];0.87[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014095	chr1:152104486-152454591	Active TSS Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
2	nsv1005472	chr1:152247763-152443448	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
3	nsv535161	chr1:152247763-152443448	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
4	nsv916016	chr1:152337775-152590520	Weak transcription Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:152371400-152372000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr1:152371800-152372000	Enhancers	ES-I3 Cell Line	embryonic stem cell
3	chr1:152371800-152372000	Bivalent Enhancer	Primary T cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links