Variant report

Variant	rs1576224
Chromosome Location	chr1:179447651-179447652
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:179445378..179447823-chr1:179449930..179453030,3	MCF-7	breast:

Extended variants
information (count: 59 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10913755	0.80[ASN][1000 genomes]
rs10913760	0.80[ASN][1000 genomes]
rs10913761	0.80[ASN][1000 genomes]
rs10913762	0.80[ASN][1000 genomes]
rs10913766	0.80[ASN][1000 genomes]
rs10913767	0.80[ASN][1000 genomes]
rs10913768	0.80[ASN][1000 genomes]
rs10913769	0.80[ASN][1000 genomes]
rs10913770	0.80[ASN][1000 genomes]
rs10913771	0.80[ASN][1000 genomes]
rs10913809	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11577579	0.80[ASN][1000 genomes]
rs11578241	0.80[ASN][1000 genomes]
rs11582158	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11582255	0.80[ASN][1000 genomes]
rs11582293	0.80[ASN][1000 genomes]
rs11582754	0.80[ASN][1000 genomes]
rs11802624	0.80[ASN][1000 genomes]
rs11802625	0.80[ASN][1000 genomes]
rs11802637	0.80[ASN][1000 genomes]
rs12401957	0.80[ASN][1000 genomes]
rs12403885	0.84[ASN][1000 genomes]
rs12722736	0.80[ASN][1000 genomes]
rs12724496	0.80[ASN][1000 genomes]
rs12724634	0.80[ASN][1000 genomes]
rs12724901	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12729067	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12729775	0.80[ASN][1000 genomes]
rs12736279	0.93[ASN][1000 genomes]
rs12736545	0.93[ASN][1000 genomes]
rs12738929	0.80[ASN][1000 genomes]
rs12739116	0.80[ASN][1000 genomes]
rs12744251	0.80[ASN][1000 genomes]
rs12750591	0.80[ASN][1000 genomes]
rs1328597	0.93[ASN][1000 genomes]
rs1328598	0.93[ASN][1000 genomes]
rs1410589	0.93[ASN][1000 genomes]
rs2209919	0.93[ASN][1000 genomes]
rs34291276	0.93[ASN][1000 genomes]
rs34463289	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35401719	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35427395	0.93[ASN][1000 genomes]
rs36057553	0.87[ASN][1000 genomes]
rs3754133	0.86[ASN][1000 genomes]
rs3765548	0.83[ASN][1000 genomes]
rs4130266	0.80[ASN][1000 genomes]
rs4360491	0.80[EUR][1000 genomes]
rs4454499	0.80[ASN][1000 genomes]
rs4651028	0.80[ASN][1000 genomes]
rs4651037	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61821011	0.80[ASN][1000 genomes]
rs61826364	0.93[ASN][1000 genomes]
rs61826365	0.93[ASN][1000 genomes]
rs7532155	0.80[ASN][1000 genomes]
rs9699789	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv466217	chr1:179371973-179477921	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv548297	chr1:179371973-179477921	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv1009624	chr1:179423063-179459676	Enhancers ZNF genes & repeats Weak transcription	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	n/a
4	nsv1011557	chr1:179426390-179459460	Enhancers Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1576224	AXDND1	cis	Thyroid	GTEx

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:179447000-179448000	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
2	chr1:179447000-179448600	ZNF genes & repeats	iPS DF 19.11 Cell Line	embryonic stem cell

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