Variant report

Variant	rs2405809
Chromosome Location	chr8:35107454-35107455
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10091394	0.94[ASN][1000 genomes]
rs12679885	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1554859	0.85[ASN][1000 genomes]
rs1819087	0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2056761	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs2056769	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2405810	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2897246	0.95[ASN][1000 genomes]
rs2950903	0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2950904	0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2950905	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3108622	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3108625	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3115002	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs3115003	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3115004	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34376566	0.95[ASN][1000 genomes]
rs7014149	0.91[ASN][1000 genomes]
rs7831684	1.00[ASN][1000 genomes]
rs9649889	0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1017085	chr8:34742896-35594241	Enhancers Weak transcription ZNF genes & repeats Bivalent/Poised TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv539546	chr8:34742896-35594241	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv831284	chr8:35018419-35193084	Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Weak transcription Flanking Active TSS Active TSS Enhancers ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv429910	chr8:35021411-35257445	Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	esv3392436	chr8:35104710-35107808	Weak transcription Strong transcription	n/a	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	chr8:35096000-35135400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr8:35096400-35117400	Weak transcription	HUES6 Cell Line	embryonic stem cell
3	chr8:35097200-35108400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
4	chr8:35097600-35124000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr8:35098800-35117600	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr8:35100800-35123800	Weak transcription	Fetal Brain Female	brain
7	chr8:35101200-35111400	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chr8:35101200-35116600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr8:35101200-35120200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr8:35101400-35108200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr8:35101400-35111400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
12	chr8:35103800-35116400	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr8:35104400-35124000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr8:35104600-35117600	Weak transcription	H9 Cell Line	embryonic stem cell
15	chr8:35107200-35109400	Strong transcription	HUES64 Cell Line	embryonic stem cell

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