Variant report

Variant	rs28628620
Chromosome Location	chr4:90053135-90053136
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs12640018	0.82[ASN][1000 genomes]
rs1398944	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17015027	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17015052	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2018779	0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2090031	0.82[ASN][1000 genomes]
rs3927227	0.83[ASN][1000 genomes]
rs4285052	0.84[ASN][1000 genomes]
rs4491985	0.87[ASN][1000 genomes]
rs59924504	0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs60618725	0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62306363	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62306364	0.84[ASN][1000 genomes]
rs62306390	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62306391	0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62306397	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62306424	0.87[ASN][1000 genomes]
rs6821678	0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6853480	0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72877642	0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs756345	0.87[ASN][1000 genomes]
rs7658455	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7692291	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[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	nsv470051	chr4:89644931-90643144	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv1007025	chr4:89837734-90098046	Enhancers Flanking Active TSS Strong transcription Active TSS Weak transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv537176	chr4:89837734-90098046	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv1002448	chr4:89933385-90128133	Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Genic enhancers Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:90044800-90056000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
2	chr4:90046000-90056200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr4:90047600-90055800	Weak transcription	Fetal Intestine Large	intestine
4	chr4:90050800-90059000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr4:90051000-90056000	Weak transcription	Muscle Satellite Cultured Cells	--
6	chr4:90051200-90056000	Weak transcription	NHLF	lung
7	chr4:90051400-90055800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr4:90051400-90056000	Weak transcription	Osteobl	bone
9	chr4:90052400-90056000	Weak transcription	A549	lung
10	chr4:90052800-90056000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr4:90053000-90053200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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