Variant report

Variant	rs1409458
Chromosome Location	chr13:89415966-89415967
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1326435	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1326440	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1326441	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1336938	1.00[ASN][1000 genomes]
rs1336940	1.00[ASN][1000 genomes]
rs1359656	1.00[ASN][1000 genomes]
rs1409459	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1415172	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17546413	1.00[ASN][1000 genomes]
rs17628718	1.00[ASN][1000 genomes]
rs1889998	1.00[ASN][1000 genomes]
rs1952188	1.00[ASN][1000 genomes]
rs2808807	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2808808	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4144008	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72638594	1.00[ASN][1000 genomes]
rs72640007	1.00[ASN][1000 genomes]
rs72640009	1.00[ASN][1000 genomes]
rs72640048	1.00[ASN][1000 genomes]
rs72640095	1.00[ASN][1000 genomes]
rs72640098	1.00[ASN][1000 genomes]
rs72641203	1.00[ASN][1000 genomes]
rs72641204	1.00[ASN][1000 genomes]
rs72641205	1.00[ASN][1000 genomes]
rs72641211	1.00[ASN][1000 genomes]
rs7323097	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7326906	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9301495	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1043206	chr13:89296779-89417347	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
2	nsv900820	chr13:89302824-89686507	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv900821	chr13:89302824-89941209	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv1037296	chr13:89355045-89461651	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv1112	chr13:89364975-89417543	Bivalent Enhancer Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv900822	chr13:89397027-89488821	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
7	esv3429946	chr13:89408000-89434631	Enhancers Bivalent Enhancer Flanking Active TSS	n/a	n/a	inside rSNPs	n/a
8	nsv915862	chr13:89408920-90118030	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
9	esv2758339	chr13:89411081-89875974	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
10	esv2759957	chr13:89411081-89875974	ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:89415800-89416600	Enhancers	HUES64 Cell Line	embryonic stem cell
2	chr13:89415800-89416600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
3	chr13:89415800-89417200	Enhancers	iPS-15b Cell Line	embryonic stem cell

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