Variant report

Variant	rs253537
Chromosome Location	chr5:164600485-164600486
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:164598235..164600768-chr5:164600882..164603643,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-NUDCD2-11	chr5:164600256-164600866	l_3052_chr5:164595188-164600866_testes

Extended variants
information (count: 37 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10067676	0.90[ASN][1000 genomes]
rs10076780	0.90[ASN][1000 genomes]
rs10076821	0.90[ASN][1000 genomes]
rs10866752	0.92[CEU][hapmap];0.95[CHD][hapmap];0.93[JPT][hapmap];0.90[MEX][hapmap];0.91[TSI][hapmap]
rs11135358	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11747437	0.90[ASN][1000 genomes]
rs11747503	0.90[ASN][1000 genomes]
rs11748440	0.82[ASN][1000 genomes]
rs11748996	0.90[ASN][1000 genomes]
rs11749187	0.90[ASN][1000 genomes]
rs12519113	0.82[EUR][1000 genomes]
rs12519127	0.81[EUR][1000 genomes]
rs13186057	0.90[ASN][1000 genomes]
rs1469062	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17391889	0.90[ASN][1000 genomes]
rs1895292	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2052513	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2052514	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs253544	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3095951	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35203349	0.82[ASN][1000 genomes]
rs4291037	0.88[ASN][1000 genomes]
rs4868753	0.90[ASN][1000 genomes]
rs4868918	0.82[ASN][1000 genomes]
rs4868919	0.82[ASN][1000 genomes]
rs4868920	0.82[ASN][1000 genomes]
rs62385686	0.90[ASN][1000 genomes]
rs7715290	0.90[ASN][1000 genomes]
rs7720784	0.90[ASN][1000 genomes]
rs7731911	0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv995060	chr5:163660200-164620500	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv528624	chr5:164319435-164701201	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv1033866	chr5:164419608-164677758	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv1027138	chr5:164563093-164852655	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv537937	chr5:164563093-164852655	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv1028006	chr5:164563293-164852516	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv537938	chr5:164563293-164852516	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs253537	FLT3	trans	cerebellum	SCAN

Chromatin state (count:0 , 50 per page) page:

No data

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