Variant report

Variant	rs13299950
Chromosome Location	chr9:99906545-99906546
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10817135	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10817160	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10980597	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs10980622	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10980777	0.81[AMR][1000 genomes]
rs10980809	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11787964	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11794654	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12550854	0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13283681	0.88[CEU][hapmap];0.90[JPT][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs13290939	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13292867	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13295383	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13297375	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13301185	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13302714	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2001382	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34533733	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4545208	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4573384	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4645657	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7032933	0.88[AMR][1000 genomes];0.86[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:16 , 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	chr9:99901600-99907200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr9:99901600-99907400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
9	chr9:99901600-99907600	Weak transcription	Pancreas	Pancrea
10	chr9:99902200-99908800	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr9:99903400-99908200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
12	chr9:99904200-99908200	Strong transcription	HUES64 Cell Line	embryonic stem cell
13	chr9:99904600-99907600	Strong transcription	ES-I3 Cell Line	embryonic stem cell
14	chr9:99904600-99909400	Weak transcription	HepG2	liver
15	chr9:99905400-99907200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
16	chr9:99906200-99907200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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