Variant report

Variant	rs11825598
Chromosome Location	chr11:85634734-85634735
allele	A/C
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	HDAC2	chr11:85634375-85634914	HepG2	liver:	n/a	n/a
2	MYBL2	chr11:85634330-85634997	HepG2	liver:	n/a	n/a
3	SIN3AK20	chr11:85634464-85634970	MCF-7	breast:	n/a	n/a
4	EP300	chr11:85634671-85634815	HepG2	liver:	n/a	n/a
5	RCOR1	chr11:85634713-85634772	HepG2	liver:	n/a	n/a
6	SP1	chr11:85634366-85634985	HepG2	liver:	n/a	n/a
7	FOXA2	chr11:85634500-85634847	HepG2	liver:	n/a	n/a
8	GATA3	chr11:85634511-85634860	T-47D	breast:	n/a	n/a
9	EP300	chr11:85634356-85634932	HepG2	liver:	n/a	n/a
10	HNF4G	chr11:85634566-85634853	HepG2	liver:	n/a	chr11:85634706-85634721
11	HDAC2	chr11:85634511-85634893	HepG2	liver:	n/a	n/a
12	FOXA1	chr11:85634402-85634974	HepG2	liver:	n/a	n/a
13	ZEB1	chr11:85634352-85635066	HepG2	liver:	n/a	chr11:85634846-85634857
14	RXRA	chr11:85634506-85634936	HepG2	liver:	n/a	n/a
15	MYBL2	chr11:85634381-85634969	HepG2	liver:	n/a	n/a
16	FOXA2	chr11:85634359-85635236	HepG2	liver:	n/a	n/a
17	TCF12	chr11:85634440-85634830	HepG2	liver:	n/a	n/a
18	NR2F2	chr11:85634450-85635023	HepG2	liver:	n/a	n/a
19	JUND	chr11:85634471-85634769	HepG2	liver:	n/a	n/a
20	FOXA1	chr11:85634371-85634969	HepG2	liver:	n/a	n/a
21	ARID3A	chr11:85634528-85634954	HepG2	liver:	n/a	n/a
22	EP300	chr11:85634391-85634950	HepG2	liver:	n/a	n/a
23	FOXA1	chr11:85634335-85635024	HepG2	liver:	n/a	n/a
24	NR2F2	chr11:85634321-85635075	HepG2	liver:	n/a	n/a
25	FOXA1	chr11:85634382-85634951	HepG2	liver:	n/a	n/a
26	HNF4A	chr11:85634592-85634831	HepG2	liver:	n/a	chr11:85634705-85634720
27	NFIC	chr11:85634366-85634997	HepG2	liver:	n/a	n/a
28	HNF4A	chr11:85634489-85634871	HepG2	liver:	n/a	chr11:85634705-85634720
29	ZEB1	chr11:85634345-85635057	HepG2	liver:	n/a	chr11:85634846-85634857

Variant related genes	Relation type
ENSG00000255005	TF binding region

Extended variants
information (count: 11 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs10898425	0.89[ASN][1000 genomes]
rs12285109	0.83[CHB][hapmap];0.85[CHD][hapmap]
rs1445496	0.87[CHB][hapmap];0.85[CHD][hapmap]
rs4943931	0.97[ASN][1000 genomes]
rs7107881	0.81[CHD][hapmap]

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	nsv1051155	chr11:85006564-85721261	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
2	nsv541110	chr11:85006564-85721261	Enhancers Strong transcription Weak transcription Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
3	nsv1035489	chr11:85502953-85778229	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
4	nsv1048818	chr11:85524635-85746473	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats 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 target site	18 gene(s)	inside rSNPs	diseases
5	nsv541116	chr11:85524635-85746473	Enhancers Weak transcription Strong transcription Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
6	nsv1053808	chr11:85588919-85757693	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11825598	SYTL2	cis	cerebellum	SCAN

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:85630600-85637600	Enhancers	HepG2	liver
2	chr11:85633400-85635200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
3	chr11:85634000-85635400	Enhancers	Breast Myoepithelial Primary Cells	Breast
4	chr11:85634000-85635400	Enhancers	Stomach Mucosa	stomach
5	chr11:85634000-85635600	Enhancers	Rectal Mucosa Donor 31	rectum
6	chr11:85634400-85635400	Enhancers	Rectal Mucosa Donor 29	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links