Variant report

Variant	rs552956138
Chromosome Location	chr3:134069895-134069896
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:74)
CpG islands
(count:61)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:74 , 50 per page) page: 1 2

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	TEAD4	chr3:134069580-134070283	ECC-1	luminal epithelium:	n/a	n/a
2	NFIC	chr3:134069556-134070320	ECC-1	luminal epithelium:	n/a	chr3:134070094-134070111
3	POLR2A	chr3:134069831-134070066	H1-hESC	embryonic stem cell:	n/a	n/a
4	ESR1	chr3:134069763-134070326	T-47D	breast:	n/a	n/a
5	POLR2A	chr3:134069330-134070156	ECC-1	luminal epithelium:	n/a	n/a
6	HDAC2	chr3:134069707-134070357	MCF-7	breast:	n/a	chr3:134070195-134070204
7	FOSL2	chr3:134069580-134070242	MCF-7	breast:	n/a	n/a
8	TCF7L2	chr3:134069788-134070344	MCF-7	breast:	n/a	chr3:134070042-134070056
9	FOS	chr3:134069764-134070050	MCF10A-Er-Src	breast:	n/a	n/a
10	MYC	chr3:134069782-134070066	MCF10A-Er-Src	breast:	n/a	chr3:134069852-134069861
11	NFIC	chr3:134069578-134070506	ECC-1	luminal epithelium:	n/a	chr3:134070094-134070111
12	MAX	chr3:134069634-134070243	ECC-1	luminal epithelium:	n/a	chr3:134069852-134069861
13	RAD21	chr3:134069674-134070382	MCF-7	breast:	n/a	n/a
14	SP1	chr3:134069500-134070311	HCT-116	colon:	n/a	chr3:134069739-134069753 chr3:134070106-134070120
15	MYC	chr3:134069791-134070021	MCF-7	breast:	n/a	chr3:134069852-134069861
16	NR2F2	chr3:134069662-134070462	MCF-7	breast:	n/a	n/a
17	ZNF217	chr3:134069744-134070400	MCF-7	breast:	n/a	n/a
18	TCF12	chr3:134069386-134070624	MCF-7	breast:	n/a	chr3:134069806-134069813 chr3:134069732-134069742 chr3:134070314-134070324
19	MAX	chr3:134069551-134070304	HCT-116	colon:	n/a	chr3:134069852-134069861
20	ELF1	chr3:134069177-134070324	MCF-7	breast:	n/a	n/a
21	FOS	chr3:134069840-134070030	MCF10A-Er-Src	breast:	n/a	n/a
22	POLR2A	chr3:134069439-134070162	MCF-7	breast:	n/a	n/a
23	FOSL2	chr3:134069580-134070235	MCF-7	breast:	n/a	n/a
24	POLR2A	chr3:134069604-134070121	MCF-7	breast:	n/a	n/a
25	MAX	chr3:134069617-134070317	ECC-1	luminal epithelium:	n/a	chr3:134069852-134069861
26	MAX	chr3:134069542-134070379	HCT-116	colon:	n/a	chr3:134069852-134069861
27	JUND	chr3:134069592-134070358	MCF-7	breast:	n/a	n/a
28	MYC	chr3:134069722-134070064	MCF-7	breast:	n/a	chr3:134069852-134069861
29	TCF12	chr3:134069540-134070380	ECC-1	luminal epithelium:	n/a	chr3:134069806-134069813 chr3:134069732-134069742 chr3:134070314-134070324
30	POLR2A	chr3:134069682-134070124	HCT-116	colon:	n/a	n/a
31	CEBPB	chr3:134069582-134070253	MCF-7	breast:	n/a	n/a
32	SIN3AK20	chr3:134069593-134070439	MCF-7	breast:	n/a	n/a
33	CTCF	chr3:134069800-134069950	NHEK	skin:	n/a	n/a
34	MAX	chr3:134069228-134070274	MCF-7	breast:	n/a	chr3:134069852-134069861
35	RAD21	chr3:134069609-134070221	ECC-1	luminal epithelium:	n/a	n/a
36	FOXA1	chr3:134069750-134070314	T-47D	breast:	n/a	n/a
37	TCF12	chr3:134069464-134070399	ECC-1	luminal epithelium:	n/a	chr3:134069806-134069813 chr3:134069732-134069742 chr3:134070314-134070324
38	GATA3	chr3:134069707-134070342	T-47D	breast:	n/a	n/a
39	JUND	chr3:134069590-134070320	MCF-7	breast:	n/a	n/a
40	POLR2A	chr3:134069635-134070133	MCF-7	breast:	n/a	n/a
41	MYC	chr3:134069807-134070041	MCF10A-Er-Src	breast:	n/a	chr3:134069852-134069861
42	EP300	chr3:134069652-134070263	T-47D	breast:	n/a	chr3:134070194-134070204
43	ELF1	chr3:134069576-134070459	MCF-7	breast:	n/a	n/a
44	JUND	chr3:134069558-134070232	HCT-116	colon:	n/a	n/a
45	EP300	chr3:134069604-134070435	MCF-7	breast:	n/a	chr3:134070194-134070204 chr3:134070406-134070420
46	TEAD4	chr3:134069717-134070252	ECC-1	luminal epithelium:	n/a	n/a
47	MAX	chr3:134069576-134070432	MCF-7	breast:	n/a	chr3:134069852-134069861
48	YY1	chr3:134069811-134069998	HCT-116	colon:	n/a	n/a
49	FOXA1	chr3:134069769-134070376	T-47D	breast:	n/a	n/a
50	ESR1	chr3:134069876-134070369	T-47D	breast:	n/a	n/a

(count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr3:134069894-134069944	HCF	heart:	n/a
2	chr3:134069894-134069944	Hepatocyte	liver:	n/a
3	chr3:134069894-134069944	AG04450	lung:	fetal
4	chr3:134069894-134069944	PrEC	prostate:	n/a
5	chr3:134069894-134069944	HepG2	liver:	n/a
6	chr3:134069894-134069944	HCPEpiC	choroid plexus:	n/a
7	chr3:134069894-134069944	HRPEpiC	eye:	n/a
8	chr3:134069894-134069944	AG09319	gingival:	n/a
9	chr3:134069894-134069944	HNPCEpiC	eye:	n/a
10	chr3:134069894-134069944	NT2-D1	testis:	n/a
11	chr3:134069894-134069944	H1-hESC	embryonic stem cell:	embryo
12	chr3:134069894-134069944	HEK293	kidney:	embryo
13	chr3:134069894-134069944	ECC-1	luminal epithelium:	n/a
14	chr3:134069894-134069944	HPAEpiC	pulmonary alveolar:	n/a
15	chr3:134069894-134069944	A549	lung:	n/a
16	chr3:134069894-134069944	HMEC	breast:	n/a
17	chr3:134069894-134069944	PFSK-1	brain:	n/a
18	chr3:134069894-134069944	AG10803	skin:	n/a
19	chr3:134069894-134069944	GM12892	blood:	n/a
20	chr3:134069894-134069944	ovcar-3	ovarian:	n/a
21	chr3:134069894-134069944	HRCEpiC	kidney:	n/a
22	chr3:134069894-134069944	SK-N-SH	brain:	n/a
23	chr3:134069894-134069944	MCF10A-Er-Src	breast:	n/a
24	chr3:134069894-134069944	BE2_C	brain:	n/a
25	chr3:134069894-134069944	T-47D	breast:	n/a
26	chr3:134069894-134069944	HCT-116	colon:	n/a
27	chr3:134069894-134069944	PANC-1	pancreas:	n/a
28	chr3:134069894-134069944	AG09309	skin:	n/a
29	chr3:134069894-134069944	LNCaP	prostate:	n/a
30	chr3:134069894-134069944	BJ	skin:	n/a
31	chr3:134069894-134069944	U87	brain:	n/a
32	chr3:134069894-134069944	GM12891	blood:	n/a
33	chr3:134069894-134069944	SK-N-MC	brain:	n/a
34	chr3:134069894-134069944	HAEpiC	amniotic membrane:	n/a
35	chr3:134069894-134069944	IMR90	lung:	fetal
36	chr3:134069894-134069944	ProgFib	skin:	n/a
37	chr3:134069894-134069944	NHBE	bronchial:	n/a
38	chr3:134069894-134069944	NHDF-neo	bronchial:	n/a
39	chr3:134069894-134069944	NB4	blood:	n/a
40	chr3:134069894-134069944	SK-N-SH_RA	brain:	n/a
41	chr3:134069894-134069944	RPTEC	kidney:	n/a
42	chr3:134069894-134069944	HRE	kidney:	n/a
43	chr3:134069894-134069944	Caco-2	colon:	n/a
44	chr3:134069894-134069944	Jurkat	blood:	n/a
45	chr3:134069894-134069944	GM19239	blood:	n/a
46	chr3:134069894-134069944	Hela-S3	cervix:	n/a
47	chr3:134069894-134069944	HEEpiC	esophagus:	n/a
48	chr3:134069894-134069944	SKMC	muscle:	n/a
49	chr3:134069894-134069944	HUVEC	blood vessel:	n/a
50	chr3:134069894-134069944	NH-A	brain:	n/a

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:134068339..134071562-chr3:134203031..134205941,6	MCF-7	breast:
2	chr3:134019644..134021494-chr3:134068815..134070339,2	MCF-7	breast:
3	chr3:134024378..134037377-chr3:134063304..134080412,83	MCF-7	breast:
4	chr3:134066447..134072766-chr3:134202428..134206376,9	MCF-7	breast:
5	chr3:134031725..134032254-chr3:134069181..134070038,2	MCF-7	breast:
6	chr3:134046187..134047077-chr3:134069663..134070556,4	MCF-7	breast:
7	chr3:133967562..133971327-chr3:134067822..134072418,4	MCF-7	breast:
8	chr3:134046045..134047071-chr3:134069689..134070482,4	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000260633	TF binding region
ENSG00000260633	CpG island
ENSG00000182923	Chromatin interaction
ENSG00000240006	Chromatin interaction
ENSG00000163785	Chromatin interaction
ENSG00000129055	Chromatin interaction

Extended variants
information (count: 3 )
Associated
traits (count: 0)

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	esv3522171	chr3:133889405-134156571	Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
2	esv3522172	chr3:133889405-134156571	Weak transcription Flanking Active TSS Strong transcription Enhancers Bivalent/Poised TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	nsv967066	chr3:134069560-134071258	Enhancers Weak transcription Genic enhancers Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:86 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:134055800-134071000	Weak transcription	Rectal Smooth Muscle	rectum
2	chr3:134060600-134070000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr3:134060800-134072200	Weak transcription	Fetal Kidney	kidney
4	chr3:134061400-134073000	Weak transcription	Fetal Brain Male	brain
5	chr3:134065800-134071400	Weak transcription	Brain Hippocampus Middle	brain
6	chr3:134065800-134071400	Enhancers	Fetal Intestine Large	intestine
7	chr3:134065800-134071600	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr3:134065800-134072400	Weak transcription	Spleen	Spleen
9	chr3:134066000-134072800	Enhancers	Duodenum Mucosa	Duodenum
10	chr3:134066200-134071000	Weak transcription	Brain Substantia Nigra	brain
11	chr3:134066400-134071400	Enhancers	Skeletal Muscle Male	skeletal muscle
12	chr3:134066400-134071600	Weak transcription	Fetal Lung	lung
13	chr3:134066400-134071600	Enhancers	Placenta	Placenta
14	chr3:134066400-134073000	Enhancers	Skeletal Muscle Female	skeletal muscle
15	chr3:134066600-134071800	Enhancers	Placenta Amnion	Placenta Amnion
16	chr3:134066600-134076200	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
17	chr3:134066800-134073000	Weak transcription	Ovary	ovary
18	chr3:134067000-134073400	Enhancers	Pancreas	Pancrea
19	chr3:134067200-134071600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr3:134067200-134071800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr3:134067200-134072000	Enhancers	HMEC	breast
22	chr3:134067200-134072800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr3:134067200-134073000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr3:134067400-134073200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
25	chr3:134067400-134073200	Enhancers	Esophagus	oesophagus
26	chr3:134067600-134072800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr3:134067600-134073200	Weak transcription	Brain Angular Gyrus	brain
28	chr3:134067600-134076200	Strong transcription	Brain Germinal Matrix	brain
29	chr3:134067800-134072400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
30	chr3:134067800-134073000	Weak transcription	Brain Anterior Caudate	brain
31	chr3:134067800-134073200	Weak transcription	NH-A	brain
32	chr3:134068200-134070200	Weak transcription	Osteobl	bone
33	chr3:134068200-134071000	Weak transcription	NHLF	lung
34	chr3:134068400-134070200	Weak transcription	NHDF-Ad	bronchial
35	chr3:134068400-134070400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr3:134068400-134071200	Weak transcription	Fetal Heart	heart
37	chr3:134068400-134072800	Weak transcription	Muscle Satellite Cultured Cells	--
38	chr3:134068400-134073200	Weak transcription	HUES64 Cell Line	embryonic stem cell
39	chr3:134068400-134074200	Genic enhancers	Fetal Intestine Small	intestine
40	chr3:134068400-134076000	Strong transcription	Fetal Stomach	stomach
41	chr3:134068800-134071800	Enhancers	NHEK	skin
42	chr3:134068800-134073200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr3:134069000-134072200	Strong transcription	Stomach Smooth Muscle	stomach
44	chr3:134069000-134074000	Strong transcription	Fetal Brain Female	brain
45	chr3:134069000-134074600	Enhancers	Psoas Muscle	Psoas
46	chr3:134069000-134076000	Genic enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
47	chr3:134069200-134070400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
48	chr3:134069200-134070400	Enhancers	Sigmoid Colon	Sigmoid Colon
49	chr3:134069200-134070600	Enhancers	HSMM	muscle
50	chr3:134069200-134071800	Enhancers	HSMMtube	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links