Variant report

Variant	rs56908576
Chromosome Location	chr5:90223854-90223855
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10035662	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10052015	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10052314	0.87[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs10053303	0.91[ASN][1000 genomes]
rs10060641	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10078496	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10078568	0.89[EUR][1000 genomes]
rs10474336	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10514340	0.90[ASN][1000 genomes]
rs12054681	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12055217	0.91[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs12513628	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12515473	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12515481	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12520956	0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12522395	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13355731	0.87[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs16869247	0.80[ASN][1000 genomes]
rs17556421	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28597697	0.90[ASN][1000 genomes]
rs4916698	0.91[ASN][1000 genomes]
rs55977992	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs57954532	0.90[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs58201771	0.91[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs6878896	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73185149	0.90[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs73185150	0.90[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs7724016	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529544	chr5:89523963-90412409	Weak transcription Enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
2	nsv517049	chr5:90003131-90262475	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases
3	esv2754394	chr5:90181320-90225796	Active TSS Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:90185000-90226600	Weak transcription	K562	blood
2	chr5:90205000-90225000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
3	chr5:90208000-90231000	Weak transcription	Brain Anterior Caudate	brain
4	chr5:90211600-90225000	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr5:90211600-90225000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
6	chr5:90215800-90225000	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr5:90216000-90225000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr5:90218600-90225000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr5:90218800-90225000	Weak transcription	HUES48 Cell Line	embryonic stem cell
10	chr5:90218800-90225200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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