Variant report

Variant	rs35257491
Chromosome Location	chr3:160587562-160587563
allele	-/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	FOXA1	chr3:160587416-160588037	T-47D	breast:	n/a	n/a
2	GATA3	chr3:160587367-160588107	T-47D	breast:	n/a	n/a
3	FOXM1	chr3:160587488-160588124	MCF-7	breast:	n/a	n/a
4	SIN3AK20	chr3:160587364-160588321	MCF-7	breast:	n/a	n/a
5	CEBPB	chr3:160587553-160588418	Hela-S3	cervix:	n/a	chr3:160587930-160587942
6	JUND	chr3:160587448-160588140	MCF-7	breast:	n/a	n/a
7	ZNF217	chr3:160587490-160588123	MCF-7	breast:	n/a	n/a
8	FOXA1	chr3:160587383-160587969	T-47D	breast:	n/a	n/a
9	SIN3AK20	chr3:160587447-160588225	MCF-7	breast:	n/a	n/a
10	EP300	chr3:160587558-160588071	MCF-7	breast:	n/a	n/a
11	ELF1	chr3:160587452-160588133	MCF-7	breast:	n/a	n/a
12	MAX	chr3:160587452-160588130	MCF-7	breast:	n/a	n/a
13	HDAC2	chr3:160587456-160588122	MCF-7	breast:	n/a	n/a
14	EP300	chr3:160587326-160588145	T-47D	breast:	n/a	n/a
15	EP300	chr3:160587478-160588188	SK-N-SH	brain:	n/a	n/a
16	GATA3	chr3:160587484-160588157	MCF-7	breast:	n/a	n/a
17	USF1	chr3:160587549-160587852	SK-N-SH_RA	brain:	n/a	chr3:160587733-160587742 chr3:160587731-160587742 chr3:160587733-160587742 chr3:160587727-160587748
18	TCF12	chr3:160587484-160588380	MCF-7	breast:	n/a	n/a
19	USF1	chr3:160587556-160587806	K562	blood:	n/a	chr3:160587733-160587742 chr3:160587731-160587742 chr3:160587733-160587742 chr3:160587727-160587748
20	MAX	chr3:160587558-160588048	Hela-S3	cervix:	n/a	n/a
21	MXI1	chr3:160587452-160588139	SK-N-SH	brain:	n/a	n/a
22	CEBPB	chr3:160587406-160588174	MCF-7	breast:	n/a	chr3:160587930-160587942
23	GATA3	chr3:160587411-160588085	T-47D	breast:	n/a	n/a
24	KAP1	chr3:160587482-160588485	U2OS	brain:	n/a	n/a
25	GATA3	chr3:160587313-160588259	MCF-7	breast:	n/a	n/a
26	CEBPB	chr3:160587468-160588090	MCF-7	breast:	n/a	chr3:160587930-160587942
27	TCF12	chr3:160587372-160588254	MCF-7	breast:	n/a	n/a
28	USF1	chr3:160587537-160587934	ECC-1	luminal epithelium:	n/a	chr3:160587733-160587742 chr3:160587731-160587742 chr3:160587733-160587742 chr3:160587727-160587748
29	MAX	chr3:160587547-160587981	Hela-S3	cervix:	n/a	n/a
30	REST	chr3:160587535-160587969	MCF-7	breast:	n/a	n/a
31	USF2	chr3:160587524-160588058	Hela-S3	cervix:	n/a	chr3:160587733-160587742 chr3:160587733-160587742 chr3:160587731-160587742 chr3:160587727-160587748
32	MAX	chr3:160587417-160588160	MCF-7	breast:	n/a	n/a
33	NR2F2	chr3:160587483-160588014	MCF-7	breast:	n/a	n/a
34	TFAP2C	chr3:160587559-160588156	Hela-S3	cervix:	n/a	chr3:160587826-160587841
35	TFAP2A	chr3:160587542-160588486	Hela-S3	cervix:	n/a	chr3:160587676-160587690 chr3:160587676-160587690 chr3:160587826-160587841
36	USF1	chr3:160587555-160587925	ECC-1	luminal epithelium:	n/a	chr3:160587733-160587742 chr3:160587731-160587742 chr3:160587733-160587742 chr3:160587727-160587748

Variant related genes	Relation type
PPM1L	TF binding region

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs11711152	0.85[EUR][1000 genomes]
rs11718966	0.85[EUR][1000 genomes]
rs1447610	0.89[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs1447622	0.86[EUR][1000 genomes]
rs16831563	0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1839016	0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1868107	0.84[EUR][1000 genomes]
rs2197700	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4679920	0.85[EUR][1000 genomes]
rs6441337	0.85[EUR][1000 genomes]
rs6441338	0.85[EUR][1000 genomes]
rs6768115	0.85[EUR][1000 genomes]
rs6774725	0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6801444	0.81[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs7641892	0.88[EUR][1000 genomes]
rs935497	0.86[AFR][1000 genomes];0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9844267	0.83[EUR][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	nsv532666	chr3:159777847-160703202	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	271 gene(s)	inside rSNPs	diseases
2	nsv1009249	chr3:160496237-160627378	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv536780	chr3:160496237-160627378	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	esv32963	chr3:160555238-160603116	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160569600-160587800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr3:160582400-160587600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
3	chr3:160582400-160587600	Weak transcription	Left Ventricle	heart
4	chr3:160582400-160587800	Weak transcription	Psoas Muscle	Psoas
5	chr3:160584200-160587800	Weak transcription	Colon Smooth Muscle	Colon
6	chr3:160586200-160587800	Weak transcription	Fetal Muscle Trunk	muscle
7	chr3:160586200-160587800	Weak transcription	Right Atrium	heart
8	chr3:160586400-160587800	Weak transcription	Fetal Muscle Leg	muscle
9	chr3:160586400-160587800	Weak transcription	Thymus	Thymus
10	chr3:160586600-160587800	Weak transcription	HUES64 Cell Line	embryonic stem cell
11	chr3:160587000-160588200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr3:160587200-160587800	Weak transcription	Skeletal Muscle Male	skeletal muscle
13	chr3:160587200-160587800	Enhancers	Hela-S3	cervix
14	chr3:160587400-160587600	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
15	chr3:160587400-160593000	Weak transcription	Pancreatic Islets	Pancreatic Islet

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