Variant report

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-GABPA-20	chr21:28430880-28431801	NONHSAT081555

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10222074	1.00[ASN][1000 genomes]
rs12329903	1.00[ASN][1000 genomes]
rs12627068	0.84[ASN][1000 genomes]
rs12627643	0.84[ASN][1000 genomes]
rs1888429	0.81[ASN][1000 genomes]
rs2088379	1.00[ASN][1000 genomes]
rs233589	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs233591	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs233592	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2830657	0.91[ASN][1000 genomes]
rs2830661	0.87[ASN][1000 genomes]
rs2830678	0.80[EUR][1000 genomes]
rs2830681	0.80[EUR][1000 genomes]
rs2830682	0.80[EUR][1000 genomes]
rs2830683	0.80[EUR][1000 genomes]
rs28544020	0.82[ASN][1000 genomes]
rs28597803	0.84[ASN][1000 genomes]
rs7276086	0.81[ASN][1000 genomes]
rs9305300	0.82[ASN][1000 genomes]
rs9647125	0.81[ASN][1000 genomes]
rs9647126	0.81[ASN][1000 genomes]
rs9647127	0.82[ASN][1000 genomes]
rs9974419	1.00[ASN][1000 genomes]
rs9974480	0.80[EUR][1000 genomes]
rs9977437	1.00[ASN][1000 genomes]
rs9981850	0.84[ASN][1000 genomes]
rs9984716	1.00[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	nsv1067475	chr21:28238746-29046707	Enhancers Weak transcription Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	esv2758532	chr21:28380230-28540443	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a
3	esv2758817	chr21:28380230-28540443	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs233596	FRMD4A	trans	lymphoblastoid	RTeQTL

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr21:28420600-28431400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr21:28430000-28431200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr21:28430000-28431200	Enhancers	NHEK	skin
4	chr21:28430200-28431200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr21:28430200-28433000	Enhancers	Hela-S3	cervix
6	chr21:28430800-28433200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr21:28430800-28433200	Enhancers	Osteobl	bone
8	chr21:28431000-28431200	Enhancers	NHDF-Ad	bronchial
9	chr21:28431000-28433200	Enhancers	Muscle Satellite Cultured Cells	--

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