Variant report

Variant	rs12658466
Chromosome Location	chr5:90206466-90206467
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:90205148..90207152-chr5:90211659..90214340,2	MCF-7	breast:
2	chr5:90205974..90208499-chr5:90214592..90217001,3	K562	blood:

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

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10942617	0.96[EUR][1000 genomes]
rs11948100	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11956677	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs16869291	0.85[EUR][1000 genomes]
rs1818350	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1828175	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs36088173	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4362971	0.96[EUR][1000 genomes]
rs4382198	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4916825	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4916830	0.96[EUR][1000 genomes]
rs56851353	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs58258039	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs59665236	0.85[EUR][1000 genomes]
rs61006221	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs61130831	0.85[EUR][1000 genomes]
rs6863794	0.85[EUR][1000 genomes]
rs6886778	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6889598	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72656679	0.82[EUR][1000 genomes]
rs73771110	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs73771113	0.96[EUR][1000 genomes]
rs73771115	0.96[EUR][1000 genomes]
rs73771117	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs73771118	0.96[EUR][1000 genomes]
rs73771119	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7709355	0.80[EUR][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	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	nsv882367	chr5:89956991-90209824	Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
3	nsv1015449	chr5:89968626-90219398	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
4	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
5	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	chr5:90186400-90218000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr5:90195800-90207000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr5:90204600-90208200	Enhancers	HepG2	liver
5	chr5:90204800-90208800	Enhancers	A549	lung
6	chr5:90205000-90225000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
7	chr5:90205200-90210200	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chr5:90205200-90210600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
9	chr5:90205200-90217600	Weak transcription	HUES64 Cell Line	embryonic stem cell
10	chr5:90205200-90219200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr5:90205400-90207800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr5:90205600-90206800	Weak transcription	Brain Anterior Caudate	brain
13	chr5:90205600-90207000	Weak transcription	Ovary	ovary
14	chr5:90206000-90207000	Weak transcription	HUES6 Cell Line	embryonic stem cell
15	chr5:90206000-90207600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
16	chr5:90206000-90208200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
17	chr5:90206200-90206600	Weak transcription	Liver	Liver
18	chr5:90206200-90207200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
19	chr5:90206200-90211200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr5:90206200-90211200	Weak transcription	Fetal Kidney	kidney
21	chr5:90206400-90207000	Weak transcription	ES-I3 Cell Line	embryonic stem cell

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