Variant report

Variant	rs189144879
Chromosome Location	chr15:56035248-56035249
allele	A/G
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	YY1	chr15:56035170-56035620	ECC-1	luminal epithelium:	n/a	chr15:56035587-56035596 chr15:56035392-56035401 chr15:56035372-56035381 chr15:56035393-56035407 chr15:56035369-56035378 chr15:56035373-56035384 chr15:56035392-56035403 chr15:56035363-56035377 chr15:56035186-56035200
2	CTCF	chr15:56035240-56035390	HUVEC	blood vessel:	n/a	chr15:56035334-56035347 chr15:56035360-56035373
3	SP1	chr15:56035101-56035724	A549	lung:	n/a	chr15:56035585-56035597 chr15:56035365-56035377 chr15:56035366-56035375 chr15:56035340-56035349 chr15:56035587-56035596 chr15:56035336-56035350 chr15:56035186-56035198 chr15:56035586-56035595 chr15:56035586-56035600 chr15:56035362-56035376 chr15:56035339-56035351 chr15:56035585-56035597 chr15:56035586-56035595 chr15:56035186-56035198 chr15:56035340-56035350 chr15:56035187-56035196 chr15:56035188-56035197 chr15:56035365-56035377
4	REST	chr15:56035174-56035657	PFSK-1	brain:	n/a	chr15:56035363-56035376 chr15:56035619-56035628 chr15:56035386-56035395
5	FOXA2	chr15:56035051-56035703	A549	lung:	n/a	n/a
6	ZBTB33	chr15:56035145-56035444	K562	blood:	n/a	chr15:56035301-56035316
7	EGR1	chr15:56035209-56035473	K562	blood:	n/a	chr15:56035367-56035380 chr15:56035366-56035381 chr15:56035367-56035380 chr15:56035367-56035380 chr15:56035370-56035380 chr15:56035367-56035381 chr15:56035367-56035380 chr15:56035370-56035379
8	POLR2A	chr15:56035090-56035729	SK-N-SH	brain:	n/a	n/a
9	POLR2A	chr15:56034304-56035650	Hela-S3	cervix:	n/a	n/a
10	YY1	chr15:56035003-56035294	H1-hESC	embryonic stem cell:	n/a	chr15:56035152-56035163 chr15:56035186-56035200
11	POLR2A	chr15:56034992-56035626	MCF10A-Er-Src	breast:	n/a	n/a
12	HA-E2F1	chr15:56034537-56035563	Hela-S3	cervix:	n/a	chr15:56035370-56035380 chr15:56035020-56035034 chr15:56035354-56035364 chr15:56034720-56034735 chr15:56034690-56034699
13	POLR2A	chr15:56034828-56035575	MCF-7	breast:	n/a	n/a
14	POLR2A	chr15:56035230-56035397	HepG2	liver:	n/a	n/a
15	POLR2A	chr15:56034368-56035590	HEK293	kidney:	n/a	n/a
16	TBP	chr15:56035139-56035486	H1-hESC	embryonic stem cell:	n/a	n/a
17	ZNF143	chr15:56035227-56035513	Hela-S3	cervix:	n/a	chr15:56035461-56035471
18	ZBTB33	chr15:56035141-56035478	HepG2	liver:	n/a	chr15:56035301-56035316
19	ZBTB7A	chr15:56035235-56035782	HepG2	liver:	n/a	chr15:56035663-56035671
20	TEAD4	chr15:56035129-56035672	ECC-1	luminal epithelium:	n/a	n/a
21	PBX3	chr15:56035051-56035826	A549	lung:	n/a	n/a
22	SP1	chr15:56035065-56035761	A549	lung:	n/a	chr15:56035585-56035597 chr15:56035365-56035377 chr15:56035366-56035375 chr15:56035340-56035349 chr15:56035587-56035596 chr15:56035336-56035350 chr15:56035186-56035198 chr15:56035586-56035595 chr15:56035586-56035600 chr15:56035362-56035376 chr15:56035339-56035351 chr15:56035585-56035597 chr15:56035586-56035595 chr15:56035186-56035198 chr15:56035340-56035350 chr15:56035187-56035196 chr15:56035188-56035197 chr15:56035365-56035377
23	POLR2A	chr15:56034985-56035697	HUVEC	blood vessel:	n/a	n/a
24	TBP	chr15:56035177-56035586	HepG2	liver:	n/a	n/a
25	TAF1	chr15:56034741-56035689	HepG2	liver:	n/a	n/a
26	CHD2	chr15:56034977-56035656	H1-hESC	embryonic stem cell:	n/a	n/a
27	GATA2	chr15:56035216-56036671	SH-SY5Y	brain:	n/a	n/a
28	SMARCB1	chr15:56033753-56036042	Hela-S3	cervix:	n/a	n/a
29	MEF2A	chr15:56035086-56035751	SK-N-SH	brain:	n/a	n/a
30	REST	chr15:56035172-56035651	A549	lung:	n/a	chr15:56035363-56035376 chr15:56035619-56035628 chr15:56035386-56035395
31	MXI1	chr15:56033962-56035723	IMR90	lung:	n/a	chr15:56034632-56034641
32	CHD2	chr15:56035023-56035769	HepG2	liver:	n/a	n/a
33	TAF1	chr15:56035188-56035612	PFSK-1	brain:	n/a	n/a
34	MAZ	chr15:56034299-56035653	Hela-S3	cervix:	n/a	chr15:56034634-56034641 chr15:56035588-56035598 chr15:56034633-56034642 chr15:56034631-56034639 chr15:56034632-56034642 chr15:56035366-56035376
35	TAF1	chr15:56034969-56035635	H1-hESC	embryonic stem cell:	n/a	n/a
36	POLR2A	chr15:56034870-56035668	MCF-7	breast:	n/a	n/a
37	TCF12	chr15:56035240-56035585	HepG2	liver:	n/a	n/a
38	POLR2A	chr15:56033776-56035901	HepG2	liver:	n/a	n/a
39	RAD21	chr15:56034820-56035979	SK-N-SH_RA	brain:	n/a	chr15:56035363-56035375 chr15:56035488-56035502 chr15:56035337-56035347 chr15:56035361-56035374
40	TEAD4	chr15:56035104-56035871	SK-N-SH	brain:	n/a	n/a
41	TCF12	chr15:56034254-56035751	ECC-1	luminal epithelium:	n/a	chr15:56034864-56034871
42	MYC	chr15:56033992-56035562	A549	lung:	n/a	chr15:56034634-56034641 chr15:56034633-56034642 chr15:56034631-56034639 chr15:56034632-56034642 chr15:56035366-56035376
43	SIN3AK20	chr15:56035130-56035594	A549	lung:	n/a	n/a
44	ETS1	chr15:56035203-56035633	A549	lung:	n/a	chr15:56035370-56035381 chr15:56035587-56035598 chr15:56035338-56035349 chr15:56035373-56035384
45	POLR2A	chr15:56035167-56035335	MCF-7	breast:	n/a	n/a
46	YY1	chr15:56034816-56035644	A549	lung:	n/a	chr15:56035587-56035596 chr15:56035392-56035401 chr15:56035152-56035163 chr15:56035372-56035381 chr15:56035393-56035407 chr15:56035369-56035378 chr15:56035373-56035384 chr15:56035392-56035403 chr15:56035363-56035377 chr15:56035186-56035200
47	BRCA1	chr15:56035120-56035522	Hela-S3	cervix:	n/a	chr15:56035306-56035315
48	MYC	chr15:56035216-56035534	HepG2	liver:	n/a	chr15:56035366-56035376
49	POLR2A	chr15:56035140-56035641	HepG2	liver:	n/a	n/a
50	REST	chr15:56035164-56035684	HepG2	liver:	n/a	chr15:56035363-56035376 chr15:56035619-56035628 chr15:56035386-56035395

No.	Distal block	Cell Line	Cell type
1	chr15:56033858..56036761-chr15:56051440..56053715,2	MCF-7	breast:
2	chr1:109645681..109648514-chr15:56034152..56035869,2	MCF-7	breast:
3	chr15:56034248..56036795-chr15:56038057..56039658,2	MCF-7	breast:
4	chr15:56031905..56035384-chr15:56036677..56038977,3	MCF-7	breast:

Variant related genes	Relation type
PRTG	TF binding region
ENSG00000259369	TF binding region
ENSG00000251484	Chromatin interaction
ENSG00000221218	Chromatin interaction
ENSG00000259369	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv917323	chr15:55290499-56041334	Genic enhancers Active TSS ZNF genes & repeats Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
2	nsv1043789	chr15:55400872-56092454	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
3	nsv457157	chr15:55722213-56255774	Flanking Active TSS Enhancers Active TSS Strong transcription Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
4	nsv569539	chr15:55722213-56255774	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
5	nsv1049774	chr15:55759573-56044600	Weak transcription Strong transcription Active TSS Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
6	nsv833017	chr15:55965957-56157912	Weak transcription Genic enhancers Strong transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
7	esv3366380	chr15:56003224-56141650	Weak transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Active TSS Strong transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
8	nsv1052495	chr15:56013617-56102164	Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
9	esv3390617	chr15:56034285-56036833	Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Weak transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:56031400-56036600	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr15:56032600-56035400	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr15:56032600-56036200	Active TSS	Fetal Kidney	kidney
4	chr15:56033200-56036000	Active TSS	Placenta Amnion	Placenta Amnion
5	chr15:56033400-56036200	Active TSS	Ovary	ovary
6	chr15:56033600-56035600	Bivalent/Poised TSS	NHDF-Ad	bronchial
7	chr15:56033600-56035800	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr15:56033600-56035800	Active TSS	Fetal Intestine Large	intestine
9	chr15:56033600-56035800	Bivalent/Poised TSS	Fetal Intestine Small	intestine
10	chr15:56033600-56035800	Active TSS	Lung	lung
11	chr15:56033600-56036000	Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr15:56033600-56036000	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
13	chr15:56033600-56036000	Active TSS	Aorta	Aorta
14	chr15:56033600-56036000	Active TSS	Right Ventricle	heart
15	chr15:56033600-56036200	Bivalent/Poised TSS	Duodenum Smooth Muscle	Duodenum
16	chr15:56033800-56035400	Flanking Bivalent TSS/Enh	Colonic Mucosa	Colon
17	chr15:56033800-56035600	Flanking Bivalent TSS/Enh	Primary T regulatory cells fromperipheralblood	blood
18	chr15:56033800-56035800	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr15:56033800-56035800	Active TSS	Gastric	stomach
20	chr15:56034000-56035600	Bivalent/Poised TSS	Primary mononuclear cells fromperipheralblood	Blood
21	chr15:56034000-56035600	Active TSS	Placenta	Placenta
22	chr15:56034000-56035800	Bivalent/Poised TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
23	chr15:56034000-56035800	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr15:56034000-56035800	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr15:56034000-56036000	Active TSS	A549	lung
26	chr15:56034000-56036200	Bivalent/Poised TSS	H1 Cell Line	embryonic stem cell
27	chr15:56034200-56035400	Active TSS	Sigmoid Colon	Sigmoid Colon
28	chr15:56034200-56035600	Flanking Bivalent TSS/Enh	Primary T helper cells fromperipheralblood	blood
29	chr15:56034200-56036000	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
30	chr15:56034200-56036000	Flanking Bivalent TSS/Enh	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr15:56034200-56036000	Active TSS	Left Ventricle	heart
32	chr15:56034200-56036200	Active TSS	Breast Myoepithelial Primary Cells	Breast
33	chr15:56034200-56036200	Bivalent/Poised TSS	Brain Hippocampus Middle	brain
34	chr15:56034200-56036200	Active TSS	Fetal Lung	lung
35	chr15:56034400-56035400	Flanking Bivalent TSS/Enh	Primary neutrophils fromperipheralblood	blood
36	chr15:56034400-56035400	Bivalent/Poised TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr15:56034400-56035600	Bivalent/Poised TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
38	chr15:56034400-56035600	Bivalent/Poised TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
39	chr15:56034400-56035600	Flanking Bivalent TSS/Enh	HMEC	breast
40	chr15:56034400-56035800	Flanking Bivalent TSS/Enh	iPS DF 19.11 Cell Line	embryonic stem cell
41	chr15:56034400-56035800	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr15:56034400-56035800	Bivalent/Poised TSS	Duodenum Mucosa	Duodenum
43	chr15:56034400-56035800	Active TSS	Fetal Adrenal Gland	Adrenal Gland
44	chr15:56034400-56035800	Active TSS	NHLF	lung
45	chr15:56034400-56036000	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
46	chr15:56034400-56036000	Bivalent/Poised TSS	iPS DF 6.9 Cell Line	embryonic stem cell
47	chr15:56034400-56036000	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
48	chr15:56034400-56036000	Active TSS	Hela-S3	cervix
49	chr15:56034400-56036000	Active TSS	HSMM	muscle
50	chr15:56034400-56036000	Active TSS	HSMMtube	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links