RP11-304L19.4

Species: Homo sapiens

Position: chr16: 2112334-2113342

Known as:

Transcript: ENST00000568795

Sequence: Download

Description:

We developed a CRISPR interference (CRISPRi) platform targeting 16,401 lncRNA loci in seven diverse cell lines, including six transformed cell lines and human induced pluripotent stem cells (iPSCs). We classified lncRNA genes as hits if their combined phenotype effect size and P value (referred to here as “screen score”) exceeded a consistent threshold applied to each screen corresponding to an empirical FDR of 5%. Large-scale screening identified 499 lncRNA loci required for robust cellular growth, of which 89% showed growth modifying function exclusively in one cell type.



sgRNAs

sgRNA_ID Sequence Position (Chr) Position (Lnc) Length PAM Type Validity Cell line Note Ref.
sgRNA1 GCTCAGAGCCTGAAAGGCAG 2112293-2112312(+) up stream 20 TGG CRISPRi Partial validated iPSC NA [1]
sgRNA2 GCCGAGGGACCCCCACATCA 2112707-2112726(-) gene body (near 5') 20 CGG CRISPRi Partial validated iPSC NA [1]
sgRNA3 GGGCAGCTTGACTGGGGAGC 2112259-2112278(+) up stream 20 TGG CRISPRi Partial validated iPSC NA [1]
sgRNA4 TGCCCCAGGTGAGGGATGAG 2112328-2112347(-) gene body (near 5') 20 GGG CRISPRi Partial validated iPSC NA [1]
sgRNA5 CCCCGTGCTCAGAGCCTGAA 2112287-2112306(+) up stream 20 AGG CRISPRi Partial validated iPSC NA [1]
sgRNA6 ACCTACGCTGCCCCAGGTGA 2112336-2112355(-) gene body (near 5') 20 GGG CRISPRi Partial validated iPSC NA [1]
sgRNA7 AAAGCAACCCCGTGATGTGG 2112695-2112714(+) gene body (near 5') 20 GGG CRISPRi Partial validated iPSC NA [1]
sgRNA8 GAGTGAACCGGGACAGGGGT 2112497-2112516(+) gene body (near 5') 20 GGG CRISPRi Partial validated iPSC NA [1]
sgRNA9 TGGGAGGTAACTGGGTGCAC 2112650-2112669(-) gene body (near 5') 20 AGG CRISPRi Partial validated iPSC NA [1]
sgRNA10 ACCCCCTCATCCCTCACCTG 2112323-2112342(+) gene body (near 5') 20 GGG CRISPRi Partial validated iPSC NA [1]

GBrowser


Links

lncRNA Function:

sgRNA Design Tool:

Reference

1. Liu SJ, Horlbeck MA, Cho SW, Birk HS, Malatesta M, et al. (2017). CRISPRi-based genome-scale identification of functional long noncoding RNA loci in human cells. Science 355(6320).