Variant report

Variant	rs7704413
Chromosome Location	chr5:29854177-29854178
allele	G/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	GATA3	chr5:29853762-29854393	MCF-7	breast:	n/a	n/a
2	EP300	chr5:29853904-29854311	MCF-7	breast:	n/a	n/a
3	TEAD4	chr5:29853891-29854291	MCF-7	breast:	n/a	n/a
4	GATA3	chr5:29853742-29854320	MCF-7	breast:	n/a	n/a
5	CEBPB	chr5:29853910-29854303	MCF-7	breast:	n/a	chr5:29854144-29854155
6	GATA3	chr5:29853685-29854434	MCF-7	breast:	n/a	n/a
7	SIN3AK20	chr5:29853731-29854382	MCF-7	breast:	n/a	n/a
8	TCF7L2	chr5:29853712-29854263	Hela-S3	cervix:	n/a	n/a
9	MAFK	chr5:29854066-29854306	Hela-S3	cervix:	n/a	chr5:29854288-29854302 chr5:29854285-29854305 chr5:29854287-29854303
10	BRCA1	chr5:29854000-29854275	Hela-S3	cervix:	n/a	n/a
11	FOS	chr5:29853783-29854198	MCF10A-Er-Src	breast:	n/a	n/a
12	CEBPB	chr5:29853667-29854342	Hela-S3	cervix:	n/a	chr5:29854144-29854155
13	RCOR1	chr5:29853884-29854268	Hela-S3	cervix:	n/a	n/a
14	STAT3	chr5:29853816-29854295	Hela-S3	cervix:	n/a	chr5:29853868-29853879
15	HDAC2	chr5:29853932-29854242	MCF-7	breast:	n/a	chr5:29853967-29853975
16	FOS	chr5:29853814-29854274	MCF10A-Er-Src	breast:	n/a	n/a
17	STAT3	chr5:29854110-29854302	MCF10A-Er-Src	breast:	n/a	n/a
18	CEBPB	chr5:29853931-29854345	MCF-7	breast:	n/a	chr5:29854144-29854155
19	RFX5	chr5:29853966-29854250	Hela-S3	cervix:	n/a	n/a
20	EP300	chr5:29853670-29854325	Hela-S3	cervix:	n/a	n/a
21	GATA3	chr5:29853775-29854337	MCF-7	breast:	n/a	n/a
22	CEBPB	chr5:29853970-29854296	ECC-1	luminal epithelium:	n/a	chr5:29854144-29854155
23	CEBPB	chr5:29853961-29854296	HepG2	liver:	n/a	chr5:29854144-29854155
24	ZNF217	chr5:29853780-29854290	MCF-7	breast:	n/a	n/a
25	CEBPB	chr5:29854000-29854297	A549	lung:	n/a	chr5:29854144-29854155

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:29852340..29854743-chr5:29859491..29862426,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000249744	TF binding region

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs10940826	0.82[AMR][1000 genomes]
rs11748565	0.89[AMR][1000 genomes]
rs11956675	0.82[AMR][1000 genomes]
rs13153010	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1428312	0.91[AMR][1000 genomes]
rs1428314	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16899572	0.91[AMR][1000 genomes]
rs2288448	0.80[AFR][1000 genomes]
rs72745293	0.91[AMR][1000 genomes]
rs7724158	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	esv3385368	chr5:29548608-29910057	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv821268	chr5:29854143-29855882	Enhancers	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:29853800-29854400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr5:29853800-29854400	Enhancers	Hela-S3	cervix

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links