Variant report

Variant	rs17556421
Chromosome Location	chr5:90225486-90225487
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:90224688..90232317-chr5:90673389..90680405,10	MCF-7	breast:
2	chr5:90225232..90227674-chr5:90676781..90680591,4	K562	blood:
3	chr5:90225005..90226944-chr5:90678568..90680591,3	K562	blood:

Variant related genes	Relation type
ENSG00000113369	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10035662	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10052015	0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10052314	0.87[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs10053303	0.97[ASN][1000 genomes]
rs10060641	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10078496	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10078568	0.90[EUR][1000 genomes]
rs10474336	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10514340	0.96[ASN][1000 genomes]
rs10942620	0.81[ASN][1000 genomes]
rs12054681	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12055217	0.91[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs12513628	0.91[AFR][1000 genomes];0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12515473	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12515481	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12520956	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12522395	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13355731	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs16869247	0.86[ASN][1000 genomes]
rs28597697	0.96[ASN][1000 genomes]
rs4916698	0.97[ASN][1000 genomes]
rs55977992	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56908576	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs57954532	0.90[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs58201771	0.91[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs6878896	0.85[AFR][1000 genomes];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73185149	0.90[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs73185150	0.90[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs7724016	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[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:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:90185000-90226600	Weak transcription	K562	blood
2	chr5:90208000-90231000	Weak transcription	Brain Anterior Caudate	brain
3	chr5:90225000-90225600	Active TSS	H9 Cell Line	embryonic stem cell
4	chr5:90225000-90225600	Active TSS	HUES48 Cell Line	embryonic stem cell
5	chr5:90225000-90225600	Active TSS	iPS-15b Cell Line	embryonic stem cell
6	chr5:90225000-90225600	Active TSS	iPS-20b Cell Line	embryonic stem cell
7	chr5:90225000-90225600	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr5:90225000-90225600	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr5:90225000-90225600	Active TSS	Placenta	Placenta
10	chr5:90225000-90225800	Active TSS	H1 Cell Line	embryonic stem cell
11	chr5:90225000-90225800	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr5:90225000-90225800	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr5:90225000-90226000	Active TSS	ES-I3 Cell Line	embryonic stem cell
14	chr5:90225000-90226000	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr5:90225000-90226000	Active TSS	iPS-18 Cell Line	embryonic stem cell
16	chr5:90225200-90225600	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr5:90225200-90225800	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr5:90225200-90225800	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
19	chr5:90225400-90225600	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
20	chr5:90225400-90225800	Active TSS	ES-WA7 Cell Line	embryonic stem cell
21	chr5:90225400-90226000	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell

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