Variant report

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-MSL2-5	chr3:135527258-135528059	l_2480_chr3:135527257-135528916_breast

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs16843365	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1878993	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2176666	0.86[EUR][1000 genomes]
rs2176668	0.84[ASN][1000 genomes]
rs3920305	0.84[ASN][1000 genomes]
rs56380708	0.88[EUR][1000 genomes]
rs57767257	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57895104	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59165430	0.85[EUR][1000 genomes]
rs59933266	0.84[ASN][1000 genomes]
rs60349283	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs61789012	0.85[EUR][1000 genomes]
rs61789017	0.89[EUR][1000 genomes]
rs61789025	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs61789026	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6786217	0.86[EUR][1000 genomes]
rs6796653	0.84[ASN][1000 genomes]
rs72975639	0.83[ASN][1000 genomes]
rs73863014	0.89[EUR][1000 genomes]
rs7627163	0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv460860	chr3:135107678-135769006	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv591829	chr3:135107678-135769006	Flanking Active TSS Strong transcription Active TSS Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:135524800-135527800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr3:135525600-135528000	Weak transcription	Fetal Brain Female	brain
3	chr3:135526400-135527800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr3:135526400-135528200	Enhancers	Cortex derived primary cultured neurospheres	brain
5	chr3:135526600-135527400	Enhancers	H1 Cell Line	embryonic stem cell
6	chr3:135526600-135527400	Enhancers	iPS-18 Cell Line	embryonic stem cell
7	chr3:135526600-135527600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr3:135526800-135527400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr3:135526800-135527600	Enhancers	iPS-20b Cell Line	embryonic stem cell
10	chr3:135527000-135527800	Enhancers	iPS-15b Cell Line	embryonic stem cell
11	chr3:135527200-135527400	Enhancers	Fetal Brain Male	brain
12	chr3:135527200-135529400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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