Variant report

Variant	rs35988269
Chromosome Location	chr9:99912861-99912862
allele	CA/TG
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10817170	0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10817171	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10817173	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10980874	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12003313	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1857083	0.84[EUR][1000 genomes]
rs2374923	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4014783	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4014789	0.82[EUR][1000 genomes]
rs4145255	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4452918	0.84[EUR][1000 genomes]
rs7031789	0.82[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	nsv831662	chr9:99752521-99939231	Bivalent Enhancer Strong transcription Active TSS Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv972432	chr9:99874607-99958095	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv973382	chr9:99894731-99916071	Weak transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3'	lncRNA	n/a	inside rSNPs	diseases
4	nsv931946	chr9:99895658-100005099	Bivalent/Poised TSS Strong transcription Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
5	nsv893607	chr9:99906545-99996548	Enhancers Bivalent/Poised TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh Weak transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv893608	chr9:99906545-100005128	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:99901000-99921000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr9:99907600-99913400	Genic enhancers	HUES48 Cell Line	embryonic stem cell
3	chr9:99908600-99913000	Genic enhancers	HUES6 Cell Line	embryonic stem cell
4	chr9:99908600-99913600	Enhancers	Fetal Intestine Large	intestine
5	chr9:99908800-99913200	Genic enhancers	ES-UCSF4 Cell Line	embryonic stem cell
6	chr9:99909800-99920200	Weak transcription	Brain Angular Gyrus	brain
7	chr9:99911200-99913400	Genic enhancers	iPS-20b Cell Line	embryonic stem cell
8	chr9:99911600-99913600	Enhancers	Fetal Intestine Small	intestine
9	chr9:99911600-99957600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr9:99912000-99913200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr9:99912000-99913400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr9:99912200-99915200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr9:99912200-99915400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr9:99912200-99921200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr9:99912200-99922800	Weak transcription	Brain Anterior Caudate	brain
16	chr9:99912200-99923800	Strong transcription	H1 Cell Line	embryonic stem cell
17	chr9:99912600-99913200	Enhancers	HepG2	liver
18	chr9:99912600-99913600	Genic enhancers	HUES64 Cell Line	embryonic stem cell
19	chr9:99912600-99913600	Genic enhancers	iPS-18 Cell Line	embryonic stem cell
20	chr9:99912800-99913000	Weak transcription	H9 Cell Line	embryonic stem cell
21	chr9:99912800-99915000	Strong transcription	ES-I3 Cell Line	embryonic stem cell

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