Variant report

Variant	rs9704788
Chromosome Location	chr11:5381172-5381173
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	11:5250847-5268367..11:5380014-5384338	H1-hESC	embryonic stem cell:	embryo
2	11:4789513-4794705..11:5380014-5384338	H1-hESC	embryonic stem cell:	embryo

Variant related genes	Relation type
ENSG00000229988	Chromatin interaction
ENSG00000223609	Chromatin interaction
ENSG00000188069	Chromatin interaction
ENSG00000260629	Chromatin interaction

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs11036968	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11825642	0.84[AMR][1000 genomes]
rs11826532	0.83[EUR][1000 genomes]
rs11827244	0.83[AMR][1000 genomes]
rs12273734	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12287358	0.84[AMR][1000 genomes]
rs12794414	0.87[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs12794431	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs12796030	0.83[EUR][1000 genomes]
rs12801179	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12802814	0.83[EUR][1000 genomes]
rs12803469	0.81[EUR][1000 genomes]
rs17270517	0.84[EUR][1000 genomes]
rs17270776	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17270818	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17270832	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17270894	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs17355388	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17356445	0.83[EUR][1000 genomes]
rs2467229	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2467232	0.84[EUR][1000 genomes]
rs2647598	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2647599	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2647600	0.81[AMR][1000 genomes]
rs2647601	0.82[EUR][1000 genomes]
rs2647604	0.83[EUR][1000 genomes]
rs2647605	0.83[EUR][1000 genomes]
rs2647606	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2723380	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2736553	0.84[EUR][1000 genomes]
rs2736554	0.83[EUR][1000 genomes]
rs2736557	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2736560	0.81[EUR][1000 genomes]
rs2736561	0.81[AMR][1000 genomes]
rs2736564	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2736565	0.83[AMR][1000 genomes]
rs4910760	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4910762	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4910763	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4910765	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4910767	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4910768	0.84[EUR][1000 genomes]
rs4910770	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs715792	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs884222	0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv524400	chr11:5328361-5416622	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
2	nsv1048608	chr11:5328516-5645179	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	60 gene(s)	inside rSNPs	diseases
3	nsv1046068	chr11:5335943-6063742	Strong transcription Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Enhancers Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	89 gene(s)	inside rSNPs	diseases
4	nsv896931	chr11:5357881-5505149	Weak transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	41 gene(s)	inside rSNPs	diseases
5	esv18780	chr11:5372010-5384809	Weak transcription Enhancers ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
6	esv1829102	chr11:5373646-5383453	Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers	TF binding region Chromatin interactive region	12 gene(s)	inside rSNPs	diseases
7	esv1828484	chr11:5374268-5386668	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
8	esv1829886	chr11:5374268-5386668	Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
9	esv1826272	chr11:5375383-5383341	Weak transcription Enhancers Genic enhancers ZNF genes & repeats Strong transcription	TF binding region Chromatin interactive region	12 gene(s)	inside rSNPs	diseases
10	nsv832057	chr11:5375585-5576200	Weak transcription ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	51 gene(s)	inside rSNPs	diseases
11	esv1832580	chr11:5376038-5383707	Genic enhancers Enhancers Weak transcription Strong transcription ZNF genes & repeats	TF binding region Chromatin interactive region	11 gene(s)	inside rSNPs	diseases
12	nsv983147	chr11:5376861-5392760	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:5365600-5382600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr11:5376800-5382600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr11:5376800-5382600	Weak transcription	K562	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links