Variant report

Variant	rs12235571
Chromosome Location	chr9:99903468-99903469
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10046794	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10046816	0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10114777	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10122964	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10759467	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10759470	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10759472	0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10759476	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10759479	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10759482	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10759483	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10817097	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10817100	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10817120	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10817131	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10980585	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10980590	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10980603	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10980615	0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10980643	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12235738	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28811401	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4367681	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4406536	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4484816	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4596750	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs60971320	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62556574	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62556579	0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][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	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	esv3376072	chr9:99899231-99905329	Weak transcription Strong transcription Genic enhancers Enhancers	lncRNA	n/a	inside rSNPs	diseases
6	esv3500611	chr9:99900481-99905279	Weak transcription Strong transcription Enhancers Genic enhancers	lncRNA	n/a	inside rSNPs	diseases
7	esv3500608	chr9:99900925-99904406	Weak transcription Strong transcription Enhancers Genic enhancers	lncRNA	n/a	inside rSNPs	diseases
8	esv3483157	chr9:99901060-99904388	Strong transcription Weak transcription Genic enhancers Enhancers	lncRNA	n/a	inside rSNPs	diseases
9	esv3500610	chr9:99901075-99904363	Enhancers Strong transcription Weak transcription Genic enhancers	lncRNA	n/a	inside rSNPs	diseases
10	esv3500609	chr9:99901107-99904336	Weak transcription Strong transcription Genic enhancers Enhancers	lncRNA	n/a	inside rSNPs	diseases
11	esv3500612	chr9:99901107-99904336	Strong transcription Genic enhancers Weak transcription Enhancers	lncRNA	n/a	inside rSNPs	diseases
12	esv3483158	chr9:99901144-99904300	Weak transcription Enhancers Strong transcription Genic enhancers	lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:99889400-99908200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr9:99897800-99907600	Strong transcription	HUES48 Cell Line	embryonic stem cell
3	chr9:99898400-99908600	Strong transcription	HUES6 Cell Line	embryonic stem cell
4	chr9:99898800-99908000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
5	chr9:99900600-99908800	Strong transcription	H1 Cell Line	embryonic stem cell
6	chr9:99901000-99921000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr9:99901600-99904400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr9:99901600-99907200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr9:99901600-99907400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr9:99901600-99907600	Weak transcription	Pancreas	Pancrea
11	chr9:99902200-99908800	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr9:99902400-99904200	Weak transcription	HUES64 Cell Line	embryonic stem cell
13	chr9:99902800-99904600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr9:99903200-99904600	Enhancers	HepG2	liver
15	chr9:99903400-99908200	Strong transcription	iPS-20b Cell Line	embryonic stem cell

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