Variant report

Variant	rs7759515
Chromosome Location	chr6:11415176-11415177
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:44)
CpG islands
(count:0)
Chromatin interactive
region (count:7)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:44 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	SP1	chr6:11414713-11415424	HCT-116	colon:	n/a	n/a
2	CBX3	chr6:11414677-11415325	HCT-116	colon:	n/a	n/a
3	SRF	chr6:11414697-11415338	MCF-7	breast:	n/a	n/a
4	GATA3	chr6:11414711-11415298	T-47D	breast:	n/a	n/a
5	POLR2A	chr6:11413990-11415487	MCF10A-Er-Src	breast:	n/a	n/a
6	RFX5	chr6:11414777-11415211	HepG2	liver:	n/a	n/a
7	RFX5	chr6:11414845-11415200	Hela-S3	cervix:	n/a	n/a
8	CREB1	chr6:11414799-11415346	HepG2	liver:	n/a	n/a
9	FOXA2	chr6:11414815-11415389	A549	lung:	n/a	n/a
10	FOXA1	chr6:11414732-11415443	HepG2	liver:	n/a	n/a
11	FOXM1	chr6:11414611-11415460	ECC-1	luminal epithelium:	n/a	n/a
12	SP1	chr6:11414794-11415359	A549	lung:	n/a	n/a
13	EP300	chr6:11414727-11415300	HepG2	liver:	n/a	n/a
14	EP300	chr6:11414773-11415291	A549	lung:	n/a	n/a
15	E2F4	chr6:11414870-11415245	MCF10A-Er-Src	breast:	n/a	n/a
16	SP1	chr6:11414700-11415391	A549	lung:	n/a	n/a
17	SRF	chr6:11414761-11415375	HCT-116	colon:	n/a	n/a
18	ARID3A	chr6:11414799-11415198	HepG2	liver:	n/a	n/a
19	FOXA1	chr6:11414786-11415257	HepG2	liver:	n/a	n/a
20	MYC	chr6:11414675-11415198	MCF10A-Er-Src	breast:	n/a	n/a
21	TCF12	chr6:11414789-11415386	A549	lung:	n/a	n/a
22	FOS	chr6:11414931-11415179	MCF10A-Er-Src	breast:	n/a	n/a
23	MYBL2	chr6:11414635-11415360	HepG2	liver:	n/a	n/a
24	JUN	chr6:11415082-11415200	HepG2	liver:	n/a	n/a
25	POLR2A	chr6:11414693-11415292	MCF10A-Er-Src	breast:	n/a	n/a
26	FOXA1	chr6:11414766-11415318	HepG2	liver:	n/a	n/a
27	EP300	chr6:11414848-11415315	T-47D	breast:	n/a	n/a
28	CREB1	chr6:11414786-11415323	HepG2	liver:	n/a	n/a
29	NFYB	chr6:11414757-11415210	GM12878	blood:	n/a	chr6:11415057-11415072
30	TEAD4	chr6:11414787-11415406	HepG2	liver:	n/a	n/a
31	STAT3	chr6:11414895-11415194	MCF10A-Er-Src	breast:	n/a	n/a
32	FOS	chr6:11414893-11415222	MCF10A-Er-Src	breast:	n/a	n/a
33	FOXM1	chr6:11414779-11415266	MCF-7	breast:	n/a	n/a
34	FOXA1	chr6:11414846-11415306	HepG2	liver:	n/a	n/a
35	SMC3	chr6:11414918-11415215	HepG2	liver:	n/a	n/a
36	CREB1	chr6:11414799-11415271	GM12878	blood:	n/a	n/a
37	FOS	chr6:11414894-11415229	MCF10A-Er-Src	breast:	n/a	n/a
38	NFYA	chr6:11414835-11415221	Hela-S3	cervix:	n/a	n/a
39	FOXA1	chr6:11414902-11415211	T-47D	breast:	n/a	n/a
40	FOXA1	chr6:11414891-11415329	T-47D	breast:	n/a	n/a
41	STAT1	chr6:11414814-11415189	Hela-S3	cervix:	n/a	n/a
42	EP300	chr6:11414736-11415408	A549	lung:	n/a	n/a
43	FOXA2	chr6:11414861-11415316	HepG2	liver:	n/a	n/a
44	SRF	chr6:11414783-11415272	ECC-1	luminal epithelium:	n/a	n/a

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:11228618..11230806-chr6:11414420..11416664,2	MCF-7	breast:
2	chr6:11229922..11234167-chr6:11411662..11415515,7	MCF-7	breast:
3	chr6:11387321..11394874-chr6:11409302..11416244,8	MCF-7	breast:
4	chr6:11413490..11417171-chr6:11433636..11437714,3	MCF-7	breast:
5	chr6:11415142..11417104-chr6:11428067..11431006,2	MCF-7	breast:
6	chr6:11394123..11395903-chr6:11413687..11415867,2	MCF-7	breast:
7	chr6:11388874..11392122-chr6:11413409..11415866,5	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000233656	TF binding region
ENSG00000111859	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs35041358	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4074960	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4075603	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4076120	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4285312	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4518488	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6457459	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9296006	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9296007	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9296008	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9368702	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9368703	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9380273	0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9380274	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9380275	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9394080	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021078	chr6:10819083-11558560	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv538135	chr6:10819083-11558560	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
3	nsv432848	chr6:11371614-11560114	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:11405400-11419400	Weak transcription	Aorta	Aorta
2	chr6:11411000-11415200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr6:11411200-11415600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
4	chr6:11411600-11417000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr6:11412200-11415400	Enhancers	Primary T helper cells PMA-I stimulated	--
6	chr6:11412400-11415200	Enhancers	Primary monocytes fromperipheralblood	blood
7	chr6:11412400-11415200	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr6:11412400-11415400	Enhancers	Primary T helper cells fromperipheralblood	blood
9	chr6:11412400-11416400	Weak transcription	Fetal Kidney	kidney
10	chr6:11412600-11416000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr6:11412600-11416200	Weak transcription	Placenta Amnion	Placenta Amnion
12	chr6:11412600-11416400	Weak transcription	NH-A	brain
13	chr6:11412600-11425600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr6:11412600-11425600	Weak transcription	NHLF	lung
15	chr6:11412800-11415200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr6:11412800-11416400	Weak transcription	HSMM	muscle
17	chr6:11413400-11415600	Enhancers	Hela-S3	cervix
18	chr6:11413600-11415600	Enhancers	Monocytes-CD14+_RO01746	blood
19	chr6:11413600-11416800	Enhancers	NHEK	skin
20	chr6:11413800-11415800	Enhancers	Primary neutrophils fromperipheralblood	blood
21	chr6:11413800-11416600	Enhancers	HepG2	liver
22	chr6:11414200-11415200	Enhancers	HUVEC	blood vessel
23	chr6:11414600-11415200	Enhancers	Primary B cells from cord blood	blood
24	chr6:11414600-11415400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr6:11414600-11415400	Flanking Active TSS	A549	lung
26	chr6:11414800-11415200	Enhancers	HUES6 Cell Line	embryonic stem cell
27	chr6:11414800-11415200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr6:11414800-11415200	Enhancers	iPS-18 Cell Line	embryonic stem cell
29	chr6:11414800-11415200	Enhancers	Breast Myoepithelial Primary Cells	Breast
30	chr6:11414800-11415200	Enhancers	Primary B cells from peripheral blood	blood
31	chr6:11414800-11415400	Enhancers	HUES48 Cell Line	embryonic stem cell
32	chr6:11414800-11415400	Enhancers	Primary T cells fromperipheralblood	blood
33	chr6:11414800-11415400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr6:11414800-11415400	ZNF genes & repeats	GM12878-XiMat	blood
35	chr6:11414800-11415600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
36	chr6:11415000-11415200	Enhancers	NHDF-Ad	bronchial
37	chr6:11415000-11415400	Enhancers	HUES64 Cell Line	embryonic stem cell
38	chr6:11415000-11415400	Enhancers	iPS-20b Cell Line	embryonic stem cell
39	chr6:11415000-11415400	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
40	chr6:11415000-11415400	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
41	chr6:11415000-11415400	Active TSS	HMEC	breast
42	chr6:11415000-11425800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links