Variant report

Variant	rs533294454
Chromosome Location	chr15:45459310-45459311
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:291)
CpG islands
(count:61)
Chromatin interactive
region (count:26)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:291 , 50 per page) page: 1 2 3 4 5 6

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr15:45458747-45459875	GM15510	blood:	n/a	n/a
2	EP300	chr15:45459030-45459805	SK-N-SH_RA	brain:	n/a	chr15:45459122-45459138 chr15:45459156-45459172 chr15:45459123-45459132
3	HDAC2	chr15:45459054-45459387	H1-hESC	embryonic stem cell:	n/a	n/a
4	POLR2A	chr15:45458718-45459969	HepG2	liver:	n/a	n/a
5	POLR2A	chr15:45458955-45459802	GM12891	blood:	n/a	n/a
6	POLR2A	chr15:45458818-45459769	GM10847	blood:	n/a	n/a
7	E2F6	chr15:45458849-45459462	K562	blood:	n/a	chr15:45459229-45459238 chr15:45458905-45458914 chr15:45459148-45459160 chr15:45459147-45459158
8	POLR2A	chr15:45458843-45459910	HL-60	blood:	n/a	n/a
9	POLR2A	chr15:45458757-45459889	GM12892	blood:	n/a	n/a
10	POLR2A	chr15:45458774-45459931	K562	blood:	n/a	n/a
11	ELF1	chr15:45458898-45459334	HepG2	liver:	n/a	chr15:45459154-45459163 chr15:45459120-45459132
12	MYC	chr15:45458943-45459955	K562	blood:	n/a	chr15:45459166-45459182
13	POLR2A	chr15:45458673-45459854	GM19193	blood:	n/a	n/a
14	TAF1	chr15:45459068-45459327	H1-neurons	neurons:	n/a	n/a
15	MAX	chr15:45458676-45459965	K562	blood:	n/a	chr15:45459166-45459182
16	POLR2A	chr15:45456792-45459932	H1-hESC	embryonic stem cell:	n/a	n/a
17	PAX5	chr15:45458711-45459823	GM12892	blood:	n/a	n/a
18	ZNF143	chr15:45459027-45459978	GM12878	blood:	n/a	chr15:45459156-45459166
19	TEAD4	chr15:45459005-45459354	ECC-1	luminal epithelium:	n/a	n/a
20	GTF2F1	chr15:45458725-45459854	H1-hESC	embryonic stem cell:	n/a	n/a
21	POLR2A	chr15:45458970-45459885	HCT-116	colon:	n/a	n/a
22	CTCF	chr15:45459302-45460007	K562	blood:	n/a	n/a
23	ELF1	chr15:45458985-45459395	HepG2	liver:	n/a	chr15:45459154-45459163 chr15:45459120-45459132
24	TAF1	chr15:45458710-45459921	H1-hESC	embryonic stem cell:	n/a	n/a
25	E2F1	chr15:45458798-45459678	Hela-S3	cervix:	n/a	chr15:45459148-45459159 chr15:45459229-45459238 chr15:45458905-45458914 chr15:45459148-45459160
26	YY1	chr15:45459040-45459352	GM12892	blood:	n/a	chr15:45459152-45459166 chr15:45459127-45459136 chr15:45459122-45459136 chr15:45459121-45459135 chr15:45459154-45459163
27	GTF2F1	chr15:45459292-45459950	Hela-S3	cervix:	n/a	n/a
28	POLR2A	chr15:45458825-45459951	PBDE	blood:	n/a	n/a
29	MYC	chr15:45458942-45459958	NB4	blood:	n/a	chr15:45459166-45459182
30	MAX	chr15:45458696-45459980	HepG2	liver:	n/a	chr15:45459166-45459182
31	POLR2A	chr15:45458586-45459995	Hela-S3	cervix:	n/a	n/a
32	CREB1	chr15:45458622-45459982	HepG2	liver:	n/a	n/a
33	RUNX3	chr15:45458850-45459967	GM12878	blood:	n/a	n/a
34	POLR2A	chr15:45458894-45459615	A549	lung:	n/a	n/a
35	MAZ	chr15:45458538-45460756	IMR90	lung:	n/a	chr15:45459166-45459182 chr15:45460742-45460751
36	TAF1	chr15:45459105-45459359	GM12878	blood:	n/a	n/a
37	EP300	chr15:45459214-45459450	HepG2	liver:	n/a	n/a
38	E2F6	chr15:45458955-45459341	K562	blood:	n/a	chr15:45459229-45459238 chr15:45459148-45459160 chr15:45459147-45459158
39	POLR2A	chr15:45458927-45459839	U87	brain:	n/a	n/a
40	BHLHE40	chr15:45459057-45459957	GM12878	blood:	n/a	n/a
41	RAD21	chr15:45459040-45459416	SK-N-SH_RA	brain:	n/a	n/a
42	CTCF	chr15:45459256-45459341	GM10248	blood:	n/a	n/a
43	YY1	chr15:45458698-45459585	HepG2	liver:	n/a	chr15:45459152-45459166 chr15:45459127-45459136 chr15:45459122-45459136 chr15:45459121-45459135 chr15:45459154-45459163
44	CCNT2	chr15:45458624-45459873	K562	blood:	n/a	n/a
45	UBTF	chr15:45458802-45459960	K562	blood:	n/a	n/a
46	PBX3	chr15:45458961-45459756	SK-N-SH	brain:	n/a	n/a
47	CTCF	chr15:45459218-45459327	Pancreas_OC	pancreas:	n/a	n/a
48	HCFC1	chr15:45458524-45460283	Hela-S3	cervix:	n/a	n/a
49	TBP	chr15:45458641-45459913	H1-hESC	embryonic stem cell:	n/a	n/a
50	POLR2A	chr15:45458618-45459807	H1-hESC	embryonic stem cell:	n/a	n/a

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

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr15:45459300-45459350	SK-N-SH_RA	brain:	n/a
2	chr15:45459300-45459350	NHBE	bronchial:	n/a
3	chr15:45459300-45459350	HRE	kidney:	n/a
4	chr15:45459300-45459350	MCF-7	breast:	n/a
5	chr15:45459300-45459350	NH-A	brain:	n/a
6	chr15:45459300-45459350	HL-60	blood:	n/a
7	chr15:45459300-45459350	ECC-1	luminal epithelium:	n/a
8	chr15:45459300-45459350	U87	brain:	n/a
9	chr15:45459300-45459350	NHDF-neo	bronchial:	n/a
10	chr15:45459300-45459350	AG04450	lung:	fetal
11	chr15:45459300-45459350	AoSMC	blood vessel:	n/a
12	chr15:45459300-45459350	HUVEC	blood vessel:	n/a
13	chr15:45459300-45459350	IMR90	lung:	fetal
14	chr15:45459300-45459350	HRCEpiC	kidney:	n/a
15	chr15:45459300-45459350	BJ	skin:	n/a
16	chr15:45459300-45459350	Hela-S3	cervix:	n/a
17	chr15:45459300-45459350	A549	lung:	n/a
18	chr15:45459300-45459350	SK-N-SH	brain:	n/a
19	chr15:45459300-45459350	PrEC	prostate:	n/a
20	chr15:45459300-45459350	HCM	heart:	n/a
21	chr15:45459300-45459350	ProgFib	skin:	n/a
22	chr15:45459300-45459350	LNCaP	prostate:	n/a
23	chr15:45459300-45459350	HEK293	kidney:	embryo
24	chr15:45459300-45459350	ovcar-3	ovarian:	n/a
25	chr15:45459300-45459350	HCT-116	colon:	n/a
26	chr15:45459300-45459350	PANC-1	pancreas:	n/a
27	chr15:45459300-45459350	AG10803	skin:	n/a
28	chr15:45459300-45459350	H1-hESC	embryonic stem cell:	embryo
29	chr15:45459300-45459350	PFSK-1	brain:	n/a
30	chr15:45459300-45459350	HAEpiC	amniotic membrane:	n/a
31	chr15:45459300-45459350	SK-N-MC	brain:	n/a
32	chr15:45459300-45459350	GM06990	blood:	n/a
33	chr15:45459300-45459350	SKMC	muscle:	n/a
34	chr15:45459300-45459350	K562	blood:	n/a
35	chr15:45459300-45459350	GM12878	blood:	n/a
36	chr15:45459300-45459350	RPTEC	kidney:	n/a
37	chr15:45459300-45459350	HNPCEpiC	eye:	n/a
38	chr15:45459300-45459350	CMK	blood:	n/a
39	chr15:45459300-45459350	NT2-D1	testis:	n/a
40	chr15:45459300-45459350	GM12891	blood:	n/a
41	chr15:45459300-45459350	T-47D	breast:	n/a
42	chr15:45459300-45459350	GM12892	blood:	n/a
43	chr15:45459300-45459350	AG09309	skin:	n/a
44	chr15:45459300-45459350	Jurkat	blood:	n/a
45	chr15:45459300-45459350	AG04449	skin:	fetal
46	chr15:45459300-45459350	HPAEpiC	pulmonary alveolar:	n/a
47	chr15:45459300-45459350	Caco-2	colon:	n/a
48	chr15:45459300-45459350	BE2_C	brain:	n/a
49	chr15:45459300-45459350	HEEpiC	esophagus:	n/a
50	chr15:45459300-45459350	HCPEpiC	choroid plexus:	n/a

(count:26 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:45457899..45460285-chr15:45489261..45492223,4	MCF-7	breast:
2	chr15:45458146..45462463-chr15:45465556..45468797,6	MCF-7	breast:
3	chr15:45458222..45460718-chr15:45477355..45481212,4	K562	blood:
4	chr15:45459088..45459735-chr5:134240707..134241290,2	Hela-S3	cervix:
5	chr15:45459070..45459878-chr15:65588119..65588621,2	Hela-S3	cervix:
6	chr11:62608445..62609565-chr15:45458977..45459729,4	Hela-S3	cervix:
7	chr15:45458776..45462841-chr15:45467209..45473486,10	K562	blood:
8	chr15:45457275..45460718-chr15:45477484..45481344,4	K562	blood:
9	chr15:45459071..45462844-chr15:45693635..45696532,4	K562	blood:
10	chr15:45458863..45459698-chr16:30076064..30076687,2	Hela-S3	cervix:
11	chr15:45449920..45453086-chr15:45456416..45459415,4	K562	blood:
12	chr15:45458639..45462602-chr15:45463163..45466877,10	K562	blood:
13	chr15:45457925..45460364-chr15:45492288..45495049,4	MCF-7	breast:
14	chr15:45459092..45459965-chr15:75134556..75135332,2	Hela-S3	cervix:
15	chr15:45458639..45463256-chr15:45489443..45493548,9	K562	blood:
16	chr1:28974918..28975657-chr15:45458791..45459483,2	Hela-S3	cervix:
17	chr15:45458882..45460694-chr15:45692968..45695992,3	MCF-7	breast:
18	chr15:45457813..45459796-chr15:45472458..45474302,2	MCF-7	breast:
19	chr1:151254368..151255147-chr15:45459225..45460088,2	Hela-S3	cervix:
20	chr15:45457999..45463256-chr15:45488727..45493013,8	K562	blood:
21	chr15:45458782..45460452-chr15:45469150..45471146,2	MCF-7	breast:
22	chr15:45458745..45459668-chr6:33393132..33393783,2	NB4	blood:
23	chr15:45457736..45460170-chr15:45478587..45480947,2	MCF-7	breast:
24	chr15:45457610..45461525-chr15:45477333..45480560,5	MCF-7	breast:
25	chr15:45457346..45461990-chr15:45488766..45494297,11	MCF-7	breast:
26	chr15:45458064..45460777-chr15:45570184..45573179,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000259519	TF binding region
ENSG00000259519	CpG island
ENSG00000149925	Chromatin interaction
ENSG00000171766	Chromatin interaction
ENSG00000270103	Chromatin interaction
ENSG00000132570	Chromatin interaction
ENSG00000199568	Chromatin interaction
ENSG00000143373	Chromatin interaction
ENSG00000232671	Chromatin interaction
ENSG00000138606	Chromatin interaction
ENSG00000259932	Chromatin interaction
ENSG00000133316	Chromatin interaction
ENSG00000140474	Chromatin interaction
ENSG00000260035	Chromatin interaction
ENSG00000259520	Chromatin interaction
ENSG00000171763	Chromatin interaction

Extended variants
information (count: 11 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916374	chr15:45058112-45769052	Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	104 gene(s)	inside rSNPs	diseases
2	nsv932147	chr15:45319178-45872076	Bivalent/Poised TSS Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
3	nsv427961	chr15:45338381-45491634	Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Genic enhancers Bivalent Enhancer Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
4	nsv457124	chr15:45381998-45460422	Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
5	nsv569312	chr15:45381998-45460422	Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
6	esv1823029	chr15:45387102-45482245	Bivalent Enhancer Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
7	nsv869616	chr15:45401411-45736209	Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
8	nsv518213	chr15:45421758-45464768	Flanking Bivalent TSS/Enh Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
9	nsv904187	chr15:45438537-45507738	Enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS Weak transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
10	nsv569315	chr15:45446156-45772448	Flanking Active TSS Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	75 gene(s)	inside rSNPs	diseases
11	esv3323980	chr15:45458085-45460633	Flanking Active TSS Active TSS Weak transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:45458200-45459400	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
2	chr15:45458200-45459600	Active TSS	ES-I3 Cell Line	embryonic stem cell
3	chr15:45458400-45459800	Active TSS	HUES6 Cell Line	embryonic stem cell
4	chr15:45458400-45459800	Active TSS	HUES64 Cell Line	embryonic stem cell
5	chr15:45458400-45459800	Active TSS	iPS-20b Cell Line	embryonic stem cell
6	chr15:45458400-45459800	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr15:45458400-45459800	Active TSS	Primary T cells from cord blood	blood
8	chr15:45458400-45459800	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr15:45458400-45459800	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
10	chr15:45458400-45460000	Active TSS	H1 Cell Line	embryonic stem cell
11	chr15:45458400-45460000	Active TSS	H9 Cell Line	embryonic stem cell
12	chr15:45458400-45460200	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr15:45458400-45460200	Active TSS	Duodenum Smooth Muscle	Duodenum
14	chr15:45458600-45459400	Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr15:45458600-45459600	Active TSS	ES-WA7 Cell Line	embryonic stem cell
16	chr15:45458600-45459600	Active TSS	Brain Anterior Caudate	brain
17	chr15:45458600-45459600	Active TSS	Placenta	Placenta
18	chr15:45458600-45459600	Flanking Active TSS	NHEK	skin
19	chr15:45458600-45459800	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr15:45458600-45459800	Active TSS	HUES48 Cell Line	embryonic stem cell
21	chr15:45458600-45459800	Active TSS	iPS-15b Cell Line	embryonic stem cell
22	chr15:45458600-45459800	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
23	chr15:45458600-45459800	Active TSS	Breast Myoepithelial Primary Cells	Breast
24	chr15:45458600-45459800	Active TSS	Aorta	Aorta
25	chr15:45458600-45459800	Active TSS	Liver	Liver
26	chr15:45458600-45459800	Active TSS	Brain Inferior Temporal Lobe	brain
27	chr15:45458600-45459800	Active TSS	Colon Smooth Muscle	Colon
28	chr15:45458600-45459800	Active TSS	Left Ventricle	heart
29	chr15:45458600-45459800	Active TSS	Lung	lung
30	chr15:45458600-45459800	Active TSS	Ovary	ovary
31	chr15:45458600-45459800	Active TSS	Rectal Mucosa Donor 31	rectum
32	chr15:45458600-45459800	Active TSS	Right Ventricle	heart
33	chr15:45458600-45459800	Active TSS	Sigmoid Colon	Sigmoid Colon
34	chr15:45458600-45459800	Active TSS	Skeletal Muscle Male	skeletal muscle
35	chr15:45458600-45459800	Active TSS	A549	lung
36	chr15:45458600-45459800	Flanking Active TSS	HMEC	breast
37	chr15:45458600-45459800	Active TSS	HSMMtube	muscle
38	chr15:45458600-45459800	Active TSS	NHLF	lung
39	chr15:45458600-45460000	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
40	chr15:45458600-45460000	Active TSS	iPS-18 Cell Line	embryonic stem cell
41	chr15:45458600-45460000	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
42	chr15:45458600-45460000	Active TSS	Primary neutrophils fromperipheralblood	blood
43	chr15:45458600-45460000	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
44	chr15:45458600-45460000	Active TSS	Brain Cingulate Gyrus	brain
45	chr15:45458600-45460000	Active TSS	Esophagus	oesophagus
46	chr15:45458600-45460000	Active TSS	Fetal Kidney	kidney
47	chr15:45458600-45460000	Active TSS	Pancreatic Islets	Pancreatic Islet
48	chr15:45458600-45460000	Active TSS	Psoas Muscle	Psoas
49	chr15:45458600-45460000	Active TSS	Right Atrium	heart
50	chr15:45458600-45460000	Active TSS	HSMM	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links