Variant report

Variant	rs4679764
Chromosome Location	chr3:155897989-155897990
allele	A/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	JUND	chr3:155897697-155898455	SK-N-SH	brain:	n/a	n/a
2	EP300	chr3:155897703-155898276	SK-N-SH_RA	brain:	n/a	n/a
3	TEAD4	chr3:155897833-155898448	SK-N-SH	brain:	n/a	n/a
4	JUND	chr3:155897726-155898444	SK-N-SH	brain:	n/a	n/a
5	FOS	chr3:155897943-155898270	MCF10A-Er-Src	breast:	n/a	chr3:155898107-155898118
6	FOXM1	chr3:155897830-155898600	SK-N-SH	brain:	n/a	n/a
7	FOXM1	chr3:155897771-155898379	SK-N-SH	brain:	n/a	n/a
8	EP300	chr3:155897592-155898517	SK-N-SH	brain:	n/a	n/a
9	STAT3	chr3:155897932-155898434	MCF10A-Er-Src	breast:	n/a	chr3:155898247-155898258
10	PBX3	chr3:155897771-155898401	SK-N-SH	brain:	n/a	n/a
11	PBX3	chr3:155897749-155898434	SK-N-SH	brain:	n/a	n/a
12	FOS	chr3:155897855-155898293	HUVEC	blood vessel:	n/a	chr3:155898107-155898118
13	GATA3	chr3:155897517-155898711	SK-N-SH	brain:	n/a	chr3:155898234-155898242
14	FOSL2	chr3:155897762-155898363	SK-N-SH	brain:	n/a	n/a
15	EP300	chr3:155897638-155898417	SK-N-SH	brain:	n/a	n/a
16	NFIC	chr3:155897820-155898378	SK-N-SH	brain:	n/a	n/a
17	GATA3	chr3:155897630-155898547	SK-N-SH	brain:	n/a	chr3:155898234-155898242
18	RXRA	chr3:155897691-155898368	SK-N-SH	brain:	n/a	n/a
19	NFIC	chr3:155897648-155898454	SK-N-SH	brain:	n/a	n/a
20	TEAD4	chr3:155897683-155898474	SK-N-SH	brain:	n/a	n/a
21	GATA2	chr3:155897873-155898272	HUVEC	blood vessel:	n/a	chr3:155898234-155898242
22	TCF12	chr3:155897621-155898507	SK-N-SH	brain:	n/a	n/a
23	EP300	chr3:155897860-155898287	SK-N-SH_RA	brain:	n/a	n/a
24	TCF12	chr3:155897775-155898491	SK-N-SH	brain:	n/a	n/a
25	POLR2A	chr3:155897774-155898343	SK-N-SH	brain:	n/a	n/a

Variant related genes	Relation type
ENSG00000227709	TF binding region

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs1118418	0.93[ASN][1000 genomes]
rs1120745	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11713991	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11915771	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11915832	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11922447	0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1353812	0.89[ASN][1000 genomes]
rs1391889	0.80[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1391890	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1499051	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1499052	0.93[ASN][1000 genomes]
rs1499054	0.93[ASN][1000 genomes]
rs1499056	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1546229	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17170	0.81[EUR][1000 genomes]
rs1909372	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1909373	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1909374	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1909375	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1909376	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2173492	0.91[ASN][1000 genomes]
rs4234311	0.81[EUR][1000 genomes]
rs4271877	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4333049	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4355235	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4450760	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4453801	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4488791	0.93[ASN][1000 genomes]
rs4505650	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4530487	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4577423	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4634068	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4679763	0.98[ASN][1000 genomes]
rs4679765	0.95[ASN][1000 genomes]
rs4680239	0.87[EUR][1000 genomes]
rs4680249	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6441045	0.98[ASN][1000 genomes]
rs6441046	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6441047	0.93[ASN][1000 genomes]
rs6441049	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6441050	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6441051	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6775600	0.93[ASN][1000 genomes]
rs6788238	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6806129	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs728382	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7372394	0.93[ASN][1000 genomes]
rs7611194	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7612532	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7621586	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7625226	0.81[EUR][1000 genomes]
rs7633871	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7634800	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7638421	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7640712	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9818040	0.93[ASN][1000 genomes]
rs9857202	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9864967	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9866991	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[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	nsv592085	chr3:155827634-156012679	Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv1014755	chr3:155889430-156411894	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS Genic enhancers Bivalent Enhancer 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	40 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:155870400-155917800	Weak transcription	Aorta	Aorta
2	chr3:155892600-155898000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr3:155894400-155898000	Weak transcription	Hela-S3	cervix
4	chr3:155894400-155898400	Weak transcription	Gastric	stomach
5	chr3:155894400-155898600	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr3:155897400-155898000	Enhancers	HUVEC	blood vessel
7	chr3:155897800-155899200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr3:155897800-155899400	Enhancers	Muscle Satellite Cultured Cells	--
9	chr3:155897800-155899800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr3:155897800-155899800	Enhancers	NHEK	skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links