Variant report

Variant	rs17140133
Chromosome Location	chr7:18886177-18886178
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	EP300	chr7:18886145-18886903	SK-N-SH_RA	brain:	n/a	chr7:18886154-18886162
2	JUND	chr7:18886114-18886833	SK-N-SH	brain:	n/a	chr7:18886619-18886631
3	TCF12	chr7:18885475-18887137	SK-N-SH	brain:	n/a	n/a
4	GATA3	chr7:18886156-18886746	T-47D	breast:	n/a	chr7:18886496-18886512 chr7:18886501-18886508 chr7:18886499-18886509 chr7:18886501-18886508 chr7:18886736-18886746 chr7:18886500-18886508 chr7:18886499-18886508 chr7:18886501-18886508 chr7:18886494-18886515
5	EP300	chr7:18885809-18886762	T-47D	breast:	n/a	chr7:18886154-18886162
6	PBX3	chr7:18886126-18886879	SK-N-SH	brain:	n/a	n/a
7	POLR2A	chr7:18885656-18887256	SK-N-MC	brain:	n/a	n/a
8	EP300	chr7:18885710-18886857	SK-N-SH_RA	brain:	n/a	chr7:18886154-18886162
9	FOXA1	chr7:18885888-18886631	T-47D	breast:	n/a	n/a
10	TEAD4	chr7:18886047-18886914	SK-N-SH	brain:	n/a	n/a
11	PBX3	chr7:18886145-18887026	SK-N-SH	brain:	n/a	n/a
12	EP300	chr7:18882736-18890371	SK-N-SH	brain:	n/a	chr7:18888945-18888959 chr7:18884622-18884636 chr7:18888951-18888965 chr7:18889014-18889023 chr7:18886968-18886982 chr7:18889169-18889176 chr7:18882929-18882943 chr7:18886154-18886162 chr7:18889734-18889744 chr7:18885175-18885185
13	EP300	chr7:18885999-18886960	SK-N-SH	brain:	n/a	chr7:18886154-18886162
14	TCF12	chr7:18886005-18886999	SK-N-SH	brain:	n/a	n/a
15	GATA3	chr7:18885553-18886795	SH-SY5Y	brain:	n/a	chr7:18886496-18886512 chr7:18886501-18886508 chr7:18886499-18886509 chr7:18886501-18886508 chr7:18886736-18886746 chr7:18886500-18886508 chr7:18886499-18886508 chr7:18886501-18886508 chr7:18886494-18886515
16	TEAD4	chr7:18886070-18886821	SK-N-SH	brain:	n/a	n/a
17	POLR2A	chr7:18886083-18887034	PFSK-1	brain:	n/a	n/a
18	POLR2A	chr7:18886158-18887112	SK-N-MC	brain:	n/a	n/a
19	GATA3	chr7:18885781-18886783	T-47D	breast:	n/a	chr7:18886496-18886512 chr7:18886501-18886508 chr7:18886499-18886509 chr7:18886501-18886508 chr7:18886736-18886746 chr7:18886500-18886508 chr7:18886499-18886508 chr7:18886501-18886508 chr7:18886494-18886515
20	EP300	chr7:18886151-18886703	T-47D	breast:	n/a	chr7:18886154-18886162
21	JUND	chr7:18885974-18886734	T-47D	breast:	n/a	chr7:18886619-18886631
22	GATA3	chr7:18885366-18887014	SK-N-SH	brain:	n/a	chr7:18886496-18886512 chr7:18886501-18886508 chr7:18886499-18886509 chr7:18886501-18886508 chr7:18886736-18886746 chr7:18886500-18886508 chr7:18886499-18886508 chr7:18886501-18886508 chr7:18886494-18886515
23	RXRA	chr7:18886164-18886942	SK-N-SH	brain:	n/a	chr7:18886784-18886798 chr7:18886798-18886811 chr7:18886798-18886811 chr7:18886797-18886813 chr7:18886798-18886811
24	ESR1	chr7:18886175-18886688	T-47D	breast:	n/a	n/a
25	POLR2A	chr7:18886091-18886822	SK-N-SH	brain:	n/a	n/a
26	GATA2	chr7:18885417-18887473	SH-SY5Y	brain:	n/a	chr7:18886496-18886512 chr7:18886501-18886508 chr7:18886499-18886509 chr7:18886501-18886508 chr7:18886736-18886746 chr7:18886499-18886508 chr7:18886501-18886508 chr7:18886494-18886515
27	NFIC	chr7:18886108-18886958	SK-N-SH	brain:	n/a	n/a
28	RAD21	chr7:18886144-18886834	SK-N-SH_RA	brain:	n/a	n/a
29	ESR1	chr7:18885897-18886729	T-47D	breast:	n/a	n/a
30	JUND	chr7:18886011-18886211	HepG2	liver:	n/a	n/a
31	GATA3	chr7:18885480-18886938	SK-N-SH	brain:	n/a	chr7:18886496-18886512 chr7:18886501-18886508 chr7:18886499-18886509 chr7:18886501-18886508 chr7:18886736-18886746 chr7:18886500-18886508 chr7:18886499-18886508 chr7:18886501-18886508 chr7:18886494-18886515

Variant related genes	Relation type
HDAC9	TF binding region

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10228341	1.00[CHB][hapmap];0.89[JPT][hapmap];0.87[ASN][1000 genomes]
rs10247184	1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs10441039	1.00[CHB][hapmap];0.90[JPT][hapmap];0.87[ASN][1000 genomes]
rs12056184	0.81[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs12056282	0.81[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs12113191	1.00[CHB][hapmap];0.90[JPT][hapmap];0.87[ASN][1000 genomes]
rs13230142	1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs13234562	0.87[ASN][1000 genomes]
rs17140086	0.81[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs17140138	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs34707237	0.87[ASN][1000 genomes]
rs35024729	0.82[ASN][1000 genomes]
rs35936891	0.93[ASN][1000 genomes]
rs3852253	1.00[JPT][hapmap]
rs3852254	0.82[CEU][hapmap]
rs3852255	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs55885016	0.95[ASN][1000 genomes]
rs55930836	0.93[ASN][1000 genomes]
rs59593404	0.84[ASN][1000 genomes]
rs59618106	0.82[ASN][1000 genomes]
rs73312680	0.83[ASN][1000 genomes]

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	nsv498112	chr7:18677922-18991946	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv887813	chr7:18720135-18995552	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv887814	chr7:18751998-18886177	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:18868800-18887400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr7:18875600-18888000	Weak transcription	Aorta	Aorta
3	chr7:18884000-18888800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr7:18884800-18887400	Enhancers	Breast Myoepithelial Primary Cells	Breast
5	chr7:18885400-18887600	Enhancers	NHDF-Ad	bronchial
6	chr7:18885600-18888400	Weak transcription	HUVEC	blood vessel
7	chr7:18885800-18887600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr7:18886000-18887000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links