Variant report

Variant	rs12874844
Chromosome Location	chr13:90172076-90172077
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs1113478	0.81[EUR][1000 genomes]
rs1158015	0.83[EUR][1000 genomes]
rs1158016	0.83[EUR][1000 genomes]
rs1199479	0.81[EUR][1000 genomes]
rs12584227	0.83[EUR][1000 genomes]
rs1394321	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1504437	0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1504438	0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1504439	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17395268	0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2047905	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34294912	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35003959	0.91[EUR][1000 genomes]
rs3736408	0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4773474	0.81[EUR][1000 genomes]
rs572497	0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs574402	0.81[EUR][1000 genomes]
rs620909	0.81[EUR][1000 genomes]
rs633976	0.82[AFR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs657998	0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs669093	0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs671140	0.80[EUR][1000 genomes]
rs7318774	0.82[EUR][1000 genomes]
rs7332656	0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7996556	0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8001088	0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8001305	0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9555901	0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9555902	0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9555906	0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9560339	0.83[EUR][1000 genomes]
rs9560340	0.82[EUR][1000 genomes]
rs9560341	0.90[EUR][1000 genomes]
rs9560355	0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9560356	0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9560374	0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1048574	chr13:89650680-90232894	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv1044807	chr13:89991827-90263328	Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv1039775	chr13:89995537-90260944	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv900860	chr13:90008941-90259291	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv533455	chr13:90041897-90255725	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv1053657	chr13:90100510-90578568	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
7	nsv900864	chr13:90110725-90173515	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
8	esv3433367	chr13:90162000-90184090	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	n/a

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:90167800-90172400	Weak transcription	HMEC	breast
2	chr13:90168000-90172400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr13:90168000-90172800	Weak transcription	A549	lung
4	chr13:90171600-90174600	Weak transcription	HUES64 Cell Line	embryonic stem cell

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