Variant report

Variant	rs540326927
Chromosome Location	chr7:110174913-110174914
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	EP300	chr7:110174524-110175166	A549	lung:	n/a	chr7:110174606-110174620 chr7:110174608-110174622 chr7:110174615-110174629
2	TEAD4	chr7:110174658-110175035	A549	lung:	n/a	n/a
3	SP1	chr7:110174147-110175150	A549	lung:	n/a	n/a
4	CTCF	chr7:110174752-110174933	NHEK	skin:	n/a	chr7:110174856-110174869 chr7:110174858-110174868
5	REST	chr7:110174448-110175204	MCF-7	breast:	n/a	n/a
6	HDAC2	chr7:110174614-110175273	MCF-7	breast:	n/a	chr7:110174618-110174632 chr7:110174614-110174628 chr7:110174615-110174629 chr7:110174619-110174633
7	CTCF	chr7:110174767-110174933	LNCaP	prostate:	n/a	chr7:110174856-110174869 chr7:110174858-110174868
8	GATA3	chr7:110174172-110175257	SK-N-SH	brain:	n/a	chr7:110174196-110174204
9	GATA3	chr7:110174435-110175391	MCF-7	breast:	n/a	n/a
10	CTCF	chr7:110174820-110174970	MCF-7	breast:	n/a	chr7:110174856-110174869 chr7:110174858-110174868
11	ESR1	chr7:110174581-110175207	T-47D	breast:	n/a	n/a
12	CTCF	chr7:110174780-110174930	SAEC	small airway:	n/a	chr7:110174856-110174869 chr7:110174858-110174868
13	TCF7L2	chr7:110174747-110175108	MCF-7	breast:	n/a	chr7:110174912-110174926
14	EP300	chr7:110174569-110175297	T-47D	breast:	n/a	chr7:110174606-110174620 chr7:110174608-110174622 chr7:110174615-110174629
15	HDAC2	chr7:110174578-110175249	MCF-7	breast:	n/a	chr7:110174618-110174632 chr7:110174606-110174620 chr7:110174614-110174628 chr7:110174615-110174629 chr7:110174611-110174625 chr7:110174609-110174623 chr7:110174619-110174633 chr7:110174610-110174624 chr7:110174605-110174619
16	REST	chr7:110174584-110175115	MCF-7	breast:	n/a	n/a
17	ESR1	chr7:110174641-110175239	T-47D	breast:	n/a	n/a
18	FOS	chr7:110174366-110174985	MCF10A-Er-Src	breast:	n/a	n/a
19	CTCF	chr7:110174780-110174930	NHEK	skin:	n/a	chr7:110174856-110174869 chr7:110174858-110174868
20	CTCF	chr7:110174777-110174948	MCF-7	breast:	n/a	chr7:110174856-110174869 chr7:110174858-110174868
21	FOXA1	chr7:110174598-110175209	T-47D	breast:	n/a	n/a
22	EP300	chr7:110174292-110174979	SK-N-SH_RA	brain:	n/a	chr7:110174606-110174620 chr7:110174608-110174622 chr7:110174615-110174629
23	GATA3	chr7:110174370-110175068	SH-SY5Y	brain:	n/a	n/a
24	SMC3	chr7:110174785-110175000	Hela-S3	cervix:	n/a	chr7:110174858-110174866 chr7:110174859-110174869
25	STAT3	chr7:110174491-110174968	MCF10A-Er-Src	breast:	n/a	n/a
26	FOS	chr7:110174396-110175029	MCF10A-Er-Src	breast:	n/a	n/a
27	CTCF	chr7:110174653-110175102	MCF-7	breast:	n/a	chr7:110174856-110174869 chr7:110174858-110174868
28	FOXA1	chr7:110174612-110175192	T-47D	breast:	n/a	n/a
29	GATA3	chr7:110174595-110175281	T-47D	breast:	n/a	n/a
30	SIN3AK20	chr7:110174432-110175340	MCF-7	breast:	n/a	n/a
31	EP300	chr7:110174810-110174944	Hela-S3	cervix:	n/a	n/a
32	CTCF	chr7:110174780-110174930	A549	lung:	n/a	chr7:110174856-110174869 chr7:110174858-110174868
33	CTCF	chr7:110174800-110174950	HMEC	breast:	n/a	chr7:110174856-110174869 chr7:110174858-110174868
34	RAD21	chr7:110174662-110175143	A549	lung:	n/a	n/a
35	FOS	chr7:110174430-110174928	MCF10A-Er-Src	breast:	n/a	n/a
36	MAX	chr7:110174164-110175149	A549	lung:	n/a	n/a
37	CTCF	chr7:110174780-110174930	AG04449	skin:	n/a	chr7:110174856-110174869 chr7:110174858-110174868
38	CTCF	chr7:110174780-110174930	HEEpiC	esophagus:	n/a	chr7:110174856-110174869 chr7:110174858-110174868
39	FOXA2	chr7:110174487-110175179	A549	lung:	n/a	n/a
40	NFIC	chr7:110174139-110175152	SK-N-SH	brain:	n/a	n/a
41	GATA1	chr7:110174193-110175134	PBDE	blood:	n/a	chr7:110174196-110174204
42	RAD21	chr7:110174519-110175123	MCF-7	breast:	n/a	n/a
43	JUND	chr7:110174634-110174991	A549	lung:	n/a	n/a
44	MYC	chr7:110174428-110175032	MCF10A-Er-Src	breast:	n/a	n/a
45	CTCF	chr7:110174660-110174950	NHEK	skin:	n/a	chr7:110174856-110174869 chr7:110174858-110174868
46	GATA3	chr7:110174228-110175381	MCF-7	breast:	n/a	n/a
47	FOXA2	chr7:110174648-110175096	HepG2	liver:	n/a	n/a
48	ESR1	chr7:110174660-110175215	T-47D	breast:	n/a	n/a
49	SP1	chr7:110174435-110175218	A549	lung:	n/a	n/a
50	CTCF	chr7:110174780-110174930	BE2_C	brain:	n/a	chr7:110174856-110174869 chr7:110174858-110174868

Variant related genes	Relation type
ENSG00000226965	TF binding region

Extended variants
information (count: 20 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:20 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023428	chr7:109451842-110185072	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv1016758	chr7:109834827-110549197	ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv539059	chr7:109834827-110549197	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv1028635	chr7:109896582-110417137	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
5	nsv539060	chr7:109896582-110417137	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
6	nsv427800	chr7:109949176-110257457	Enhancers Weak transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
7	nsv1023596	chr7:109984459-110708071	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
8	nsv539061	chr7:109984459-110708071	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
9	nsv888966	chr7:110127814-110183622	Enhancers ZNF genes & repeats Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
10	nsv888967	chr7:110133558-110183622	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
11	nsv888968	chr7:110144415-110204292	Genic enhancers Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Transcr. at gene 5' and 3' Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
12	nsv888969	chr7:110147378-110334465	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
13	nsv1032498	chr7:110151471-110508283	Enhancers Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
14	nsv1018254	chr7:110152875-110195366	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
15	nsv1028190	chr7:110152875-110197412	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
16	nsv1032748	chr7:110157227-110195366	Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
17	nsv1021693	chr7:110157227-110197412	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
18	nsv1022043	chr7:110158246-110191057	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
19	nsv5897	chr7:110160821-110208234	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
20	nsv437997	chr7:110174844-110185231	Weak transcription Enhancers Flanking Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:110172600-110175400	Flanking Active TSS	Dnd41	blood
2	chr7:110173600-110175200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr7:110173800-110175200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr7:110174000-110175000	Enhancers	Placenta	Placenta
5	chr7:110174000-110175200	Enhancers	HepG2	liver
6	chr7:110174000-110175400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr7:110174000-110176000	Enhancers	Fetal Heart	heart
8	chr7:110174200-110175000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr7:110174200-110175200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
10	chr7:110174400-110175000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr7:110174400-110175000	Enhancers	NH-A	brain
12	chr7:110174400-110175200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr7:110174400-110175200	Enhancers	Breast Myoepithelial Primary Cells	Breast
14	chr7:110174400-110175400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr7:110174600-110175400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr7:110174600-110176000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr7:110174800-110175000	Enhancers	Right Atrium	heart
18	chr7:110174800-110175200	Flanking Active TSS	A549	lung
19	chr7:110174800-110176200	Enhancers	HMEC	breast
20	chr7:110174800-110176200	Enhancers	NHEK	skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links