Variant report

Variant	rs13290939
Chromosome Location	chr9:99884789-99884790
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10817135	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10817160	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10980597	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10980622	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10980777	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10980809	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11787964	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11794654	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12550854	0.86[EUR][1000 genomes]
rs13283681	0.99[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13292867	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13295383	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13297375	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13299950	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13301185	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13302714	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2001382	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34533733	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4545208	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4573384	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4645657	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7032933	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 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

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:99867800-99887600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr9:99872000-99890200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr9:99875800-99895800	Strong transcription	HUES48 Cell Line	embryonic stem cell
4	chr9:99876400-99885600	Strong transcription	HUES6 Cell Line	embryonic stem cell
5	chr9:99876800-99888200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
6	chr9:99880400-99890600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr9:99882000-99885200	Strong transcription	HUES64 Cell Line	embryonic stem cell
8	chr9:99882000-99896600	Weak transcription	Right Atrium	heart
9	chr9:99882000-99897400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr9:99882800-99885200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr9:99883200-99886000	Weak transcription	Brain Anterior Caudate	brain
12	chr9:99883400-99885200	Strong transcription	H1 Cell Line	embryonic stem cell
13	chr9:99883800-99885200	Strong transcription	H9 Cell Line	embryonic stem cell
14	chr9:99884000-99897000	Weak transcription	Dnd41	blood
15	chr9:99884600-99885200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
16	chr9:99884600-99890600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr9:99884600-99892600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr9:99884600-99892800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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