RP4-798A10.7

Species: Homo sapiens

Position: chr1: 16514644-16515754

Known as:

Transcript: ENST00000562878

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 GAATATAAAAAACTAACATG 16667787-16667806(-) down stream 20 AGG CRISPRi Partial validated iPSC NA [1]
sgRNA2 CTAACATGAGGTAAGCACTA 16515111-16515130(-) gene body (near 5') 20 AGG CRISPRi Partial validated iPSC NA [1]
sgRNA3 TGTGTTAAGGAGCAATCTTT 16514682-16514701(+) gene body (near 5') 20 CGG CRISPRi Partial validated iPSC NA [1]
sgRNA4 GCTGTCCCAGAAGAGATGAT 16515031-16515050(+) gene body (near 5') 20 TGG CRISPRi Partial validated iPSC NA [1]
sgRNA5 ATGAGGTAAGCACTAAGGTG 16515106-16515125(-) gene body (near 5') 20 TGG CRISPRi Partial validated iPSC NA [1]
sgRNA6 AGTGTCCAATCATCTCTTCT 16515039-16515058(-) gene body (near 5') 20 GGG CRISPRi Partial validated iPSC NA [1]
sgRNA7 CAGCATATTTTTCTACAATA 16515015-16515034(-) gene body (near 5') 20 CGG CRISPRi Partial validated iPSC NA [1]
sgRNA8 TGATTGGACACTCTCAAGCG 16515047-16515066(+) gene body (near 5') 20 TGG CRISPRi Partial validated iPSC NA [1]
sgRNA9 GACACTCTCAAGCGTGGTGC 16515053-16515072(+) gene body (near 5') 20 TGG CRISPRi Partial validated iPSC NA [1]
sgRNA10 TAAGCACTAAGGTGTGGAGA 16515100-16515119(-) gene body (near 5') 20 TGG 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).