Variant report

Variant	rs3792642
Chromosome Location	chr5:40933153-40933154
allele	C/T
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	TCF12	chr5:40932940-40933183	H1-hESC	embryonic stem cell:	n/a	n/a
2	YY1	chr5:40932963-40933195	H1-hESC	embryonic stem cell:	n/a	chr5:40933177-40933193

Variant related genes	Relation type
C7	TF binding region

Extended variants
information (count: 82 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs10035225	0.95[CEU][hapmap];0.87[EUR][1000 genomes]
rs10035592	0.88[EUR][1000 genomes]
rs10046046	0.84[JPT][hapmap]
rs10054948	0.85[CEU][hapmap]
rs10058274	0.85[CEU][hapmap];0.84[JPT][hapmap]
rs10060965	0.88[EUR][1000 genomes]
rs10073246	0.85[EUR][1000 genomes]
rs10076486	0.88[EUR][1000 genomes]
rs10077786	0.85[CEU][hapmap]
rs10080165	0.85[CEU][hapmap]
rs10472342	0.85[CEU][hapmap]
rs10473227	0.86[EUR][1000 genomes]
rs10473228	0.88[EUR][1000 genomes]
rs10512750	0.90[CEU][hapmap];0.89[JPT][hapmap];0.88[EUR][1000 genomes]
rs10941526	0.84[CEU][hapmap];0.89[JPT][hapmap]
rs10941527	0.88[EUR][1000 genomes]
rs1120308	0.88[EUR][1000 genomes]
rs11739731	0.88[EUR][1000 genomes]
rs11741315	0.88[EUR][1000 genomes]
rs11746650	0.85[CEU][hapmap];0.89[JPT][hapmap]
rs12109051	0.88[EUR][1000 genomes]
rs12657195	0.88[EUR][1000 genomes]
rs12658133	0.90[CEU][hapmap];0.88[JPT][hapmap];0.88[EUR][1000 genomes]
rs12659571	0.84[EUR][1000 genomes]
rs1393155	0.84[CEU][hapmap]
rs1615402	0.84[CEU][hapmap]
rs1645519	0.84[CEU][hapmap]
rs16870425	0.84[CEU][hapmap];0.84[JPT][hapmap]
rs16870434	0.84[JPT][hapmap]
rs16870491	0.85[EUR][1000 genomes]
rs188932	0.85[CEU][hapmap]
rs2081153	0.84[CEU][hapmap];0.84[JPT][hapmap]
rs2329430	0.88[EUR][1000 genomes]
rs2455303	0.88[EUR][1000 genomes]
rs2455307	0.90[CEU][hapmap];0.89[JPT][hapmap];0.88[EUR][1000 genomes]
rs2455308	0.90[CEU][hapmap];0.89[JPT][hapmap];0.88[EUR][1000 genomes]
rs2876848	0.86[EUR][1000 genomes]
rs28770573	0.88[EUR][1000 genomes]
rs28831497	0.88[EUR][1000 genomes]
rs28834109	0.87[EUR][1000 genomes]
rs28860325	0.88[EUR][1000 genomes]
rs28870511	0.88[EUR][1000 genomes]
rs323566	0.84[CEU][hapmap]
rs34888872	0.88[EUR][1000 genomes]
rs369331	0.84[CEU][hapmap]
rs3792640	0.90[CEU][hapmap];0.89[JPT][hapmap];0.88[EUR][1000 genomes]
rs3792641	0.90[CEU][hapmap];0.89[JPT][hapmap];0.88[EUR][1000 genomes]
rs4277953	0.88[EUR][1000 genomes]
rs4277954	0.88[EUR][1000 genomes]
rs439322	0.85[CEU][hapmap]
rs4461680	0.88[EUR][1000 genomes]
rs4559041	0.88[EUR][1000 genomes]
rs619491	0.84[CEU][hapmap]
rs62357063	0.88[EUR][1000 genomes]
rs62358575	0.85[EUR][1000 genomes]
rs62358580	0.88[EUR][1000 genomes]
rs72749521	0.85[EUR][1000 genomes]
rs7701643	0.86[EUR][1000 genomes]
rs7701662	0.88[EUR][1000 genomes]
rs7701871	0.88[EUR][1000 genomes]
rs7704691	0.88[EUR][1000 genomes]
rs7706776	0.88[EUR][1000 genomes]
rs7716062	0.88[EUR][1000 genomes]
rs7717388	0.85[CEU][hapmap]
rs7717391	0.85[CEU][hapmap]
rs7717457	0.84[CEU][hapmap]
rs7717794	0.88[EUR][1000 genomes]
rs7721703	0.88[EUR][1000 genomes]
rs7724262	0.88[EUR][1000 genomes]
rs9292788	0.82[CEU][hapmap]
rs9292793	0.87[EUR][1000 genomes]
rs9292795	0.88[EUR][1000 genomes]
rs9292798	0.88[EUR][1000 genomes]
rs972007	0.85[EUR][1000 genomes]
rs972008	0.85[EUR][1000 genomes]
rs9885543	0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv881467	chr5:40869802-41008650	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	esv2757114	chr5:40874078-41009282	Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	esv2759341	chr5:40874078-41009282	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv823055	chr5:40875708-41004839	Enhancers Strong transcription Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	esv35077	chr5:40875843-41000671	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv830268	chr5:40897361-41138366	Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:40926600-40936600	Weak transcription	Left Ventricle	heart
2	chr5:40929400-40933200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr5:40929800-40933200	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr5:40931200-40992200	Weak transcription	Stomach Smooth Muscle	stomach
5	chr5:40931800-40991000	Weak transcription	Duodenum Mucosa	Duodenum
6	chr5:40932600-40934800	Enhancers	HUES64 Cell Line	embryonic stem cell
7	chr5:40932600-40935000	Enhancers	iPS-18 Cell Line	embryonic stem cell
8	chr5:40932800-40933400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
9	chr5:40932800-40934800	Enhancers	HUES48 Cell Line	embryonic stem cell
10	chr5:40932800-40942000	Strong transcription	Fetal Lung	lung
11	chr5:40933000-40933400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
12	chr5:40933000-40933600	Enhancers	H9 Cell Line	embryonic stem cell
13	chr5:40933000-40934000	Enhancers	ES-I3 Cell Line	embryonic stem cell
14	chr5:40933000-40934800	Enhancers	H1 Cell Line	embryonic stem cell
15	chr5:40933000-40934800	Enhancers	iPS-20b Cell Line	embryonic stem cell
16	chr5:40933000-40935200	Enhancers	iPS-15b Cell Line	embryonic stem cell
17	chr5:40933000-40937000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr5:40933000-40937800	Strong transcription	Ovary	ovary

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links