Variant report

Variant	rs7280599
Chromosome Location	chr21:28740507-28740508
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ADAMTS5-5	chr21:28740482-28740664	NONHSAT081570
2	lnc-ADAMTS5-5	chr21:28740482-28740664	NONHSAT081571
3	lnc-ADAMTS5-5	chr21:28739620-28740664	l_2188_chr21:28733501-28920917_placenta

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs11908996	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11909025	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11909091	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11910396	1.00[AMR][1000 genomes]
rs11910835	1.00[AMR][1000 genomes]
rs11911965	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16980399	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16980453	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16997563	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16997565	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4306780	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58245320	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61137573	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7275570	0.87[AFR][1000 genomes]
rs7280962	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7281874	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73383398	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8133836	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8133867	1.00[AMR][1000 genomes]
rs8133939	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8134381	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8134884	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 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	nsv459229	chr21:28543456-29482488	Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
3	nsv587342	chr21:28543456-29482488	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
4	nsv913666	chr21:28687650-28810976	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv1061112	chr21:28738028-28775601	Enhancers Active TSS Weak transcription Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv965979	chr21:28739398-28743541	Enhancers Weak transcription Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr21:28738000-28742600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
2	chr21:28738000-28743400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr21:28738400-28742600	Weak transcription	HSMMtube	muscle
4	chr21:28738600-28741600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr21:28739200-28741600	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr21:28739600-28741200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr21:28739600-28743400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr21:28740000-28741600	Weak transcription	Ovary	ovary
9	chr21:28740200-28742600	Weak transcription	Fetal Intestine Small	intestine

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