Variant report

Variant	rs4701195
Chromosome Location	chr5:179125398-179125399
allele	C/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	FOS	chr5:179125281-179126096	MCF10A-Er-Src	breast:	n/a	n/a
2	POLR2A	chr5:179124762-179125709	GM12892	blood:	n/a	n/a
3	POLR2A	chr5:179124743-179127945	GM12878	blood:	n/a	n/a
4	TFAP2C	chr5:179125183-179126264	Hela-S3	cervix:	n/a	n/a
5	USF2	chr5:179125071-179126199	GM12878	blood:	n/a	chr5:179125994-179126007 chr5:179125996-179126005 chr5:179125964-179125980 chr5:179125995-179126006 chr5:179125997-179126006 chr5:179125956-179125972 chr5:179125996-179126005 chr5:179125995-179126004
6	ETS1	chr5:179125288-179125737	K562	blood:	n/a	n/a
7	TCF7L2	chr5:179125284-179126290	HCT-116	colon:	n/a	n/a
8	CREB1	chr5:179125174-179126316	H1-hESC	embryonic stem cell:	n/a	n/a
9	POLR2A	chr5:179124762-179127291	U87	brain:	n/a	n/a
10	ETS1	chr5:179125198-179126284	A549	lung:	n/a	chr5:179125753-179125767 chr5:179125730-179125743 chr5:179125855-179125864 chr5:179125755-179125766 chr5:179125755-179125768 chr5:179126014-179126025
11	ZNF384	chr5:179125131-179125611	K562	blood:	n/a	n/a
12	GATA3	chr5:179125294-179125769	T-47D	breast:	n/a	chr5:179125757-179125767
13	CHD2	chr5:179125317-179126223	HepG2	liver:	n/a	chr5:179125736-179125746
14	YY1	chr5:179124923-179125636	K562	blood:	n/a	chr5:179125348-179125362
15	TBL1XR1	chr5:179124963-179126913	GM12878	blood:	n/a	n/a
16	POLR2A	chr5:179124942-179127184	GM18951	blood:	n/a	n/a
17	CTCF	chr5:179125387-179125921	K562	blood:	n/a	n/a
18	MXI1	chr5:179125029-179127865	K562	blood:	n/a	n/a
19	TAF1	chr5:179125233-179125706	GM12891	blood:	n/a	n/a
20	POLR2A	chr5:179125291-179125719	A549	lung:	n/a	n/a
21	BACH1	chr5:179124999-179125553	K562	blood:	n/a	n/a
22	MAX	chr5:179125221-179126523	K562	blood:	n/a	chr5:179125996-179126005
23	JUND	chr5:179125184-179126821	K562	blood:	n/a	n/a
24	POLR2A	chr5:179124985-179127227	GM19193	blood:	n/a	n/a
25	MAFF	chr5:179124990-179125555	K562	blood:	n/a	n/a
26	E2F6	chr5:179125283-179126266	H1-hESC	embryonic stem cell:	n/a	chr5:179125391-179125401
27	POLR2A	chr5:179125085-179126448	HUVEC	blood vessel:	n/a	n/a
28	HDAC2	chr5:179125219-179125475	K562	blood:	n/a	n/a
29	POLR2A	chr5:179125239-179126372	GM10847	blood:	n/a	n/a
30	IRF1	chr5:179124983-179126202	K562	blood:	n/a	chr5:179125678-179125692 chr5:179125877-179125891
31	CEBPB	chr5:179125325-179126026	Hela-S3	cervix:	n/a	n/a
32	CTCF	chr5:179125320-179125470	AG04449	skin:	n/a	n/a
33	SP1	chr5:179124922-179126257	A549	lung:	n/a	chr5:179125874-179125888 chr5:179125681-179125690 chr5:179125877-179125889 chr5:179125681-179125690 chr5:179125680-179125692 chr5:179125724-179125735 chr5:179125682-179125691 chr5:179125680-179125692 chr5:179125725-179125734
34	POLR2A	chr5:179124912-179127286	Hela-S3	cervix:	n/a	n/a
35	MAX	chr5:179125289-179126413	HUVEC	blood vessel:	n/a	chr5:179125996-179126005
36	POLR2A	chr5:179124768-179127291	U87	brain:	n/a	n/a
37	ZMIZ1	chr5:179125009-179127175	K562	blood:	n/a	n/a
38	ELF1	chr5:179125119-179126309	HCT-116	colon:	n/a	chr5:179125962-179125971 chr5:179126014-179126023 chr5:179126010-179126022
39	TAF1	chr5:179125130-179126502	H1-hESC	embryonic stem cell:	n/a	n/a
40	YY1	chr5:179124863-179125729	K562	blood:	n/a	chr5:179125348-179125362
41	STAT5A	chr5:179124894-179125698	GM12878	blood:	n/a	n/a
42	PML	chr5:179124897-179127985	K562	blood:	n/a	n/a
43	POU2F2	chr5:179125118-179126322	GM12878	blood:	n/a	chr5:179125730-179125742
44	NFIC	chr5:179125296-179125973	HepG2	liver:	n/a	n/a
45	ELF1	chr5:179125148-179126244	SK-N-SH	brain:	n/a	chr5:179125962-179125971 chr5:179126014-179126023 chr5:179126010-179126022
46	ZEB1	chr5:179125326-179126118	GM12878	blood:	n/a	n/a
47	YY1	chr5:179124894-179125667	HepG2	liver:	n/a	chr5:179125348-179125362
48	TAF1	chr5:179125310-179126308	HepG2	liver:	n/a	n/a
49	TAF1	chr5:179125167-179126438	GM12878	blood:	n/a	n/a
50	MAZ	chr5:179125232-179126072	HepG2	liver:	n/a	chr5:179125996-179126005

No.	Distal block	Cell Line	Cell type
1	chr5:179125105..179126720-chr5:179232704..179234457,2	MCF-7	breast:
2	chr5:179123586..179129079-chr5:179129217..179136579,19	MCF-7	breast:
3	chr5:179123960..179129281-chr5:179231995..179235216,8	K562	blood:
4	chr5:179101962..179108661-chr5:179122383..179128408,19	MCF-7	breast:
5	chr5:172753236..172756194-chr5:179125387..179127082,2	MCF-7	breast:
6	chr5:179125392..179128992-chr5:179244423..179246560,4	K562	blood:
7	chr5:179123960..179129252-chr5:179231413..179236095,7	K562	blood:
8	chr5:179034167..179038139-chr5:179125249..179127406,3	MCF-7	breast:
9	chr5:179040431..179043437-chr5:179125236..179127869,3	K562	blood:
10	chr5:179122850..179128148-chr5:179246584..179249342,5	K562	blood:
11	chr5:179047558..179053114-chr5:179123905..179129187,22	K562	blood:
12	chr5:178985235..178987908-chr5:179124412..179127341,2	MCF-7	breast:
13	chr5:179123896..179127851-chr5:179243560..179246560,5	K562	blood:
14	chr5:178976329..178981059-chr5:179123787..179127407,6	K562	blood:
15	chr5:179124990..179127718-chr5:179220717..179222385,2	K562	blood:
16	chr16:14723522..14724284-chr5:179125253..179126188,2	Hela-S3	cervix:
17	chr5:179124684..179126939-chr5:179285490..179289046,3	MCF-7	breast:
18	chr10:96122596..96123346-chr5:179125101..179125792,2	Hela-S3	cervix:
19	chr5:179123572..179126776-chr5:179221240..179224069,3	MCF-7	breast:
20	chr5:178976850..178979581-chr5:179125172..179127163,2	K562	blood:
21	chr5:179125060..179125706-chrX:122866619..122867152,2	Hela-S3	cervix:
22	chr5:179124597..179127055-chr5:179246139..179249577,4	MCF-7	breast:
23	chr5:179125158..179125707-chr9:127623504..127624399,2	Hela-S3	cervix:
24	chr5:179101603..179111989-chr5:179122927..179129527,32	MCF-7	breast:
25	chr5:179100838..179108153-chr5:179124449..179130181,22	K562	blood:
26	chr5:179122873..179128898-chr5:179155888..179164921,20	K562	blood:
27	chr5:179100989..179111182-chr5:179122076..179128627,19	K562	blood:
28	chr5:179124982..179127073-chr5:179245665..179248620,3	MCF-7	breast:
29	chr5:179121400..179128828-chr5:179157984..179161377,21	K562	blood:
30	chr5:179123632..179128657-chr5:179156913..179163491,14	MCF-7	breast:
31	chr5:179124533..179126912-chr5:179247842..179250922,3	K562	blood:
32	chr5:179124035..179127505-chr5:179157238..179162405,12	MCF-7	breast:
33	chr5:179045239..179052804-chr5:179123707..179130726,40	K562	blood:
34	chr5:179049048..179052854-chr5:179122221..179127718,16	MCF-7	breast:
35	chr5:179123773..179127716-chr5:179220848..179225521,8	MCF-7	breast:
36	chr5:179125142..179127664-chr5:179134818..179137175,2	MCF-7	breast:
37	chr5:179125163..179127622-chr5:179228110..179231035,2	K562	blood:

Variant related genes	Relation type
CANX	TF binding region
ENSG00000213316	Chromatin interaction
ENSG00000127022	Chromatin interaction
ENSG00000173145	Chromatin interaction
ENSG00000136942	Chromatin interaction
ENSG00000161013	Chromatin interaction
ENSG00000113739	Chromatin interaction
ENSG00000169045	Chromatin interaction
ENSG00000176783	Chromatin interaction
ENSG00000140694	Chromatin interaction
ENSG00000225051	Chromatin interaction
ENSG00000161021	Chromatin interaction
ENSG00000245317	Chromatin interaction
ENSG00000161011	Chromatin interaction
ENSG00000161010	Chromatin interaction
ENSG00000221394	Chromatin interaction
ENSG00000204659	Chromatin interaction
ENSG00000125676	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs11749841	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4701196	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs57551480	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62406694	0.82[ASN][1000 genomes]
rs62406695	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6601065	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs66902084	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72662129	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72662130	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs72662131	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949554	chr5:178832325-179309513	Transcr. at gene 5' and 3' Weak transcription Strong transcription Active TSS Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	312 gene(s)	inside rSNPs	diseases
2	nsv883270	chr5:178951106-179350387	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	312 gene(s)	inside rSNPs	diseases
3	nsv830560	chr5:179039212-179175758	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	132 gene(s)	inside rSNPs	diseases
4	nsv531997	chr5:179107599-179588082	Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	339 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:179123800-179125400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr5:179124200-179125400	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
3	chr5:179124200-179125800	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr5:179124200-179127800	Active TSS	ES-I3 Cell Line	embryonic stem cell
5	chr5:179124400-179125400	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
6	chr5:179124400-179125400	Flanking Active TSS	K562	blood
7	chr5:179124400-179125400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
8	chr5:179124400-179127800	Active TSS	iPS-15b Cell Line	embryonic stem cell
9	chr5:179124600-179125400	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
10	chr5:179124600-179125400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr5:179124600-179125600	Flanking Active TSS	Primary B cells from cord blood	blood
12	chr5:179124600-179125600	Flanking Active TSS	Primary hematopoietic stem cells	blood
13	chr5:179124600-179126600	Active TSS	Primary T cells from cord blood	blood
14	chr5:179124600-179126800	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr5:179124600-179127400	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr5:179124600-179127600	Active TSS	HSMM	muscle
17	chr5:179124800-179125400	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
18	chr5:179124800-179125400	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
19	chr5:179124800-179125400	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
20	chr5:179124800-179125400	Flanking Active TSS	Muscle Satellite Cultured Cells	--
21	chr5:179124800-179125400	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
22	chr5:179124800-179125400	Flanking Active TSS	HMEC	breast
23	chr5:179124800-179125400	Flanking Active TSS	HSMMtube	muscle
24	chr5:179124800-179125400	Flanking Active TSS	HUVEC	blood vessel
25	chr5:179124800-179125600	Flanking Active TSS	Adipose Nuclei	Adipose
26	chr5:179124800-179125600	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
27	chr5:179124800-179126200	Active TSS	Brain Germinal Matrix	brain
28	chr5:179124800-179126600	Active TSS	Fetal Brain Female	brain
29	chr5:179124800-179127000	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr5:179124800-179127000	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr5:179124800-179127000	Active TSS	iPS-20b Cell Line	embryonic stem cell
32	chr5:179124800-179127000	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
33	chr5:179124800-179127200	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr5:179124800-179127400	Active TSS	H1 Cell Line	embryonic stem cell
35	chr5:179124800-179127400	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr5:179124800-179127400	Active TSS	HUES48 Cell Line	embryonic stem cell
37	chr5:179124800-179127400	Active TSS	HUES64 Cell Line	embryonic stem cell
38	chr5:179124800-179127400	Active TSS	iPS-18 Cell Line	embryonic stem cell
39	chr5:179124800-179127400	Active TSS	Psoas Muscle	Psoas
40	chr5:179124800-179127400	Active TSS	NHEK	skin
41	chr5:179124800-179127600	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr5:179124800-179127600	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
43	chr5:179124800-179127600	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
44	chr5:179124800-179127800	Active TSS	Pancreatic Islets	Pancreatic Islet
45	chr5:179125000-179125400	Flanking Active TSS	Primary B cells from peripheral blood	blood
46	chr5:179125000-179125400	Flanking Active TSS	Primary T cells fromperipheralblood	blood
47	chr5:179125000-179125400	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
48	chr5:179125000-179125400	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
49	chr5:179125000-179125400	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
50	chr5:179125000-179125400	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links