Variant report

Variant	rs9502191
Chromosome Location	chr6:4488175-4488176
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	FOS	chr6:4487785-4488241	MCF10A-Er-Src	breast:	n/a	n/a
2	ATF3	chr6:4487812-4488213	HCT-116	colon:	n/a	n/a
3	TCF12	chr6:4487839-4488254	ECC-1	luminal epithelium:	n/a	n/a
4	BACH1	chr6:4487858-4488185	H1-hESC	embryonic stem cell:	n/a	n/a
5	USF1	chr6:4487809-4488187	H1-hESC	embryonic stem cell:	n/a	chr6:4487990-4488001 chr6:4487961-4487972
6	FOSL2	chr6:4487772-4488228	HepG2	liver:	n/a	chr6:4488006-4488017 chr6:4488026-4488037 chr6:4487977-4487988
7	FOSL1	chr6:4487616-4488658	HCT-116	colon:	n/a	chr6:4488565-4488572
8	SETDB1	chr6:4488049-4489394	U2OS	brain:	n/a	n/a
9	FOSL1	chr6:4487657-4488275	HCT-116	colon:	n/a	n/a
10	JUND	chr6:4487610-4488296	HCT-116	colon:	n/a	chr6:4487976-4487987 chr6:4488015-4488026
11	FOS	chr6:4487850-4488195	MCF10A-Er-Src	breast:	n/a	n/a
12	JUN	chr6:4487851-4488193	Hela-S3	cervix:	n/a	n/a
13	FOSL1	chr6:4487878-4488201	K562	blood:	n/a	n/a
14	FOS	chr6:4487837-4488202	MCF10A-Er-Src	breast:	n/a	n/a
15	JUND	chr6:4487613-4488321	HCT-116	colon:	n/a	chr6:4487976-4487987 chr6:4488015-4488026
16	SRF	chr6:4487801-4488340	HCT-116	colon:	n/a	n/a
17	CEBPB	chr6:4487818-4488219	HCT-116	colon:	n/a	n/a
18	JUND	chr6:4487845-4488194	Hela-S3	cervix:	n/a	chr6:4487976-4487987 chr6:4488015-4488026
19	SRF	chr6:4487613-4488354	HCT-116	colon:	n/a	n/a
20	JUN	chr6:4487776-4488213	K562	blood:	n/a	n/a
21	FOSL2	chr6:4487808-4488219	HepG2	liver:	n/a	chr6:4488006-4488017 chr6:4488026-4488037 chr6:4487977-4487988
22	EP300	chr6:4487663-4488291	ECC-1	luminal epithelium:	n/a	chr6:4487741-4487750
23	SP1	chr6:4487679-4488375	HCT-116	colon:	n/a	n/a
24	SP1	chr6:4487623-4488283	HCT-116	colon:	n/a	n/a
25	FOSL2	chr6:4487720-4488255	A549	lung:	n/a	chr6:4488006-4488017 chr6:4488026-4488037 chr6:4487977-4487988
26	USF1	chr6:4487663-4488283	HCT-116	colon:	n/a	chr6:4487990-4488001 chr6:4487961-4487972
27	MAFK	chr6:4487887-4488186	H1-hESC	embryonic stem cell:	n/a	n/a
28	USF1	chr6:4487659-4488321	HCT-116	colon:	n/a	chr6:4487990-4488001 chr6:4487961-4487972
29	FOSL2	chr6:4487803-4488203	MCF-7	breast:	n/a	chr6:4488006-4488017 chr6:4488026-4488037 chr6:4487977-4487988
30	CBX3	chr6:4487668-4488356	HCT-116	colon:	n/a	n/a

Variant related genes	Relation type
ENSG00000260239	TF binding region

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs1265248	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13203027	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2150232	0.98[EUR][1000 genomes]
rs2181017	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35280607	0.87[AMR][1000 genomes]
rs7743833	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7764381	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9328254	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9504126	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9504130	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9504131	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9504132	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021743	chr6:4382308-4494308	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv538111	chr6:4382308-4494308	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	esv3421990	chr6:4446933-4659639	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv830576	chr6:4447554-4610604	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	esv3366530	chr6:4471528-4865322	ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv970369	chr6:4481968-4554947	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 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	chr6:4487600-4488400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr6:4487800-4489000	ZNF genes & repeats	Placenta	Placenta
3	chr6:4487800-4489400	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links