Variant report

Variant	rs55654502
Chromosome Location	chr1:152231877-152231878
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10788831	0.81[AMR][1000 genomes]
rs10888476	0.80[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs10888478	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10888483	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11204949	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11204978	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11584427	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11586114	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11588170	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12405241	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12405278	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12405678	0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12406105	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12407156	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12407748	0.83[EUR][1000 genomes]
rs12407807	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12409802	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12566867	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1858482	0.83[EUR][1000 genomes]
rs2065956	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2338555	0.82[EUR][1000 genomes]
rs2338556	0.82[EUR][1000 genomes]
rs3120662	0.82[EUR][1000 genomes]
rs3126066	0.81[EUR][1000 genomes]
rs3126067	0.80[EUR][1000 genomes]
rs3126085	0.83[EUR][1000 genomes]
rs3126088	0.83[EUR][1000 genomes]
rs3126089	0.83[EUR][1000 genomes]
rs3126092	0.83[EUR][1000 genomes]
rs3126095	0.83[EUR][1000 genomes]
rs3126098	0.81[EUR][1000 genomes]
rs4256811	0.80[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs4341364	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4369233	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4511111	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4582793	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs55957623	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs58832908	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6668499	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6676012	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6683653	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs72696969	0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs72697000	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72698906	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7540844	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7543541	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv547853	chr1:152008671-152236760	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	83 gene(s)	inside rSNPs	diseases
2	nsv1014095	chr1:152104486-152454591	Active TSS Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
3	nsv946325	chr1:152221751-152240196	Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Active TSS	lncRNA	1 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:152225400-152232200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr1:152225600-152232200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr1:152230400-152235800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr1:152231200-152236400	Weak transcription	Fetal Kidney	kidney

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