Variant report

Variant	rs9738401
Chromosome Location	chr13:38809230-38809231
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 80 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:75)

rs_ID	r²[population]
rs10772207	0.82[EUR][1000 genomes]
rs10844950	0.83[AMR][1000 genomes]
rs10844958	0.80[EUR][1000 genomes]
rs10844959	0.80[EUR][1000 genomes]
rs10844967	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10844969	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10844971	0.82[AMR][1000 genomes]
rs10844981	0.86[AMR][1000 genomes]
rs10844982	0.90[AMR][1000 genomes]
rs11053397	0.83[AMR][1000 genomes]
rs11053413	0.80[EUR][1000 genomes]
rs11053451	0.84[EUR][1000 genomes]
rs11053459	0.88[AMR][1000 genomes]
rs11494902	0.85[EUR][1000 genomes]
rs11494905	0.86[EUR][1000 genomes]
rs11494906	0.86[EUR][1000 genomes]
rs11494907	0.87[EUR][1000 genomes]
rs11494908	0.87[EUR][1000 genomes]
rs11513301	0.80[AMR][1000 genomes]
rs11513564	0.83[AMR][1000 genomes]
rs11513565	0.81[AMR][1000 genomes]
rs11513567	0.80[AMR][1000 genomes]
rs11519142	0.84[EUR][1000 genomes]
rs11519461	0.84[EUR][1000 genomes]
rs11609335	0.81[AMR][1000 genomes]
rs11610276	0.81[EUR][1000 genomes]
rs11612415	0.85[EUR][1000 genomes]
rs12372031	0.86[EUR][1000 genomes]
rs12372042	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12821945	0.84[EUR][1000 genomes]
rs12831836	0.80[EUR][1000 genomes]
rs2068119	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs71459548	0.83[EUR][1000 genomes]
rs9668027	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9668321	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9668561	0.83[AMR][1000 genomes]
rs9668745	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9668857	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9668949	0.83[AMR][1000 genomes]
rs9668982	0.84[AMR][1000 genomes]
rs9669001	0.83[AMR][1000 genomes]
rs9669311	0.81[EUR][1000 genomes]
rs9669324	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9669691	0.83[AMR][1000 genomes]
rs9705387	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9705402	0.80[AMR][1000 genomes]
rs9705446	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9705474	0.81[EUR][1000 genomes]
rs9705501	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9705544	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9705598	0.86[EUR][1000 genomes]
rs9705614	0.84[EUR][1000 genomes]
rs9705665	0.87[EUR][1000 genomes]
rs9705687	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9705820	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9705910	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9705927	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9706006	0.80[AMR][1000 genomes]
rs9706112	0.86[AMR][1000 genomes]
rs9706124	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9706185	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9706235	0.84[AMR][1000 genomes]
rs9706284	0.86[EUR][1000 genomes]
rs9706309	0.84[AMR][1000 genomes]
rs9706316	0.87[EUR][1000 genomes]
rs9706357	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9706364	0.82[AMR][1000 genomes]
rs9706435	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9706437	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9706457	0.82[EUR][1000 genomes]
rs9706509	0.84[EUR][1000 genomes]
rs9738316	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9739411	0.80[EUR][1000 genomes]
rs9739958	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9971769	0.83[AMR][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	nsv915901	chr13:38199035-39032633	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv869125	chr13:38550449-39132813	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv949406	chr13:38561474-39033484	Transcr. at gene 5' and 3' Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	esv3401610	chr13:38797001-38829340	Enhancers Weak transcription ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv900004	chr13:38803974-38900435	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:38802000-38831200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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