Variant report

Variant	rs254142
Chromosome Location	chr5:52548545-52548546
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:52546931..52549678-chr5:52551322..52553331,2	K562	blood:
2	chr5:52541978..52544639-chr5:52547451..52550337,2	K562	blood:

Extended variants
information (count: 34 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs152975	0.88[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs152976	0.88[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs152978	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs153123	0.86[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs153127	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs153666	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs166215	0.85[ASN][1000 genomes]
rs166216	0.84[ASN][1000 genomes]
rs173844	0.84[ASN][1000 genomes]
rs181897	0.89[ASN][1000 genomes]
rs183682	0.82[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs251504	0.80[AFR][1000 genomes];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs251506	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs251508	0.95[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs251515	0.89[ASN][1000 genomes]
rs251581	0.95[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs251587	0.95[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs252048	0.80[AFR][1000 genomes];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs27319	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs27320	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs27321	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs27322	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs38054	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs443738	0.80[AFR][1000 genomes];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs58993230	0.95[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs61011254	0.95[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs62357428	0.87[ASN][1000 genomes]
rs774235	0.95[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs774236	0.92[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs812852	0.84[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	nsv949005	chr5:52188028-52808229	Flanking Bivalent TSS/Enh Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	esv2752745	chr5:52422063-53343529	Transcr. at gene 5' and 3' ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	nsv830297	chr5:52492494-52707758	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv522454	chr5:52492677-52571758	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:52541800-52559200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr5:52546200-52548600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr5:52546200-52548600	Weak transcription	Thymus	Thymus
4	chr5:52546200-52548600	Weak transcription	A549	lung
5	chr5:52546200-52548800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr5:52546200-52548800	Weak transcription	Hela-S3	cervix
7	chr5:52546200-52549200	Weak transcription	NH-A	brain
8	chr5:52546200-52549400	Weak transcription	Aorta	Aorta
9	chr5:52546400-52548600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr5:52546400-52548600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr5:52546400-52548600	Weak transcription	NHLF	lung
12	chr5:52546400-52548800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr5:52546400-52548800	Weak transcription	Osteobl	bone
14	chr5:52546400-52549000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr5:52546400-52549200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr5:52546600-52548600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr5:52546600-52548600	Weak transcription	HMEC	breast
18	chr5:52546600-52549000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr5:52546600-52549200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr5:52546800-52548600	Weak transcription	NHDF-Ad	bronchial
21	chr5:52546800-52548800	Weak transcription	Muscle Satellite Cultured Cells	--
22	chr5:52546800-52548800	Weak transcription	HSMM	muscle
23	chr5:52546800-52549400	Weak transcription	HSMMtube	muscle
24	chr5:52548200-52554400	Enhancers	NHEK	skin

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