RP11-17J14.2

Species: Homo sapiens

Position: chr18: 23257163-23260354

Known as:

Transcript: ENST00000585184

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 CCCACACTCAGAGATCTGTG 23259903-23259922(+) gene body (near 5') 20 GGG CRISPRi Partial validated iPSC NA [1]
sgRNA2 TTATCCCAAGGAGTGTGGCT 23259937-23259956(-) gene body (near 5') 20 GGG CRISPRi Partial validated iPSC NA [1]
sgRNA3 TCTCTGAGTGTGGGGAGGAC 23259897-23259916(-) gene body (near 5') 20 TGG CRISPRi Partial validated iPSC NA [1]
sgRNA4 GCCCCTGGAGGGGTACAGTG 23260125-23260144(-) gene body (near 5') 20 GGG CRISPRi Partial validated iPSC NA [1]
sgRNA5 TGCTGCCCGTTTCCTCCTGG 23260086-23260105(-) gene body (near 5') 20 GGG CRISPRi Partial validated iPSC NA [1]
sgRNA6 TGTCTGTGGTTATCAGCTGC 23260301-23260320(+) gene body (near 5') 20 AGG CRISPRi Partial validated iPSC NA [1]
sgRNA7 CAGCTGCCCCCAGGAGGAAA 23260077-23260096(+) gene body (near 5') 20 CGG CRISPRi Partial validated iPSC NA [1]
sgRNA8 AGGCTCACTAGAGGAGTCCC 23260010-23260029(-) gene body (near 5') 20 GGG CRISPRi Partial validated iPSC NA [1]
sgRNA9 ACAGAGTGGCTTGTGTGAAG 23260342-23260361(-) gene body (near 5') 20 CGG CRISPRi Partial validated iPSC NA [1]
sgRNA10 GATCACAGATTTCCCTGCCA 23260278-23260297(+) 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).