RP11-746M1.1

Species: Homo sapiens

Position: chr17: 20999746-21000323

Known as:

Transcript: ENST00000580962

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 TCTTCCTGGGAGGCACTGAA 21000064-21000083(+) gene body (near 3') 20 AGG CRISPRi Partial validated iPSC NA [1]
sgRNA2 GCCTAGTAATCACCCCATGT 21000195-21000214(-) gene body (near 3') 20 AGG CRISPRi Partial validated iPSC NA [1]
sgRNA3 GCTGGAGGGAATGCCCAGGG 20999893-20999912(+) gene body (near 5') 20 AGG CRISPRi Partial validated iPSC NA [1]
sgRNA4 CAGGTCCACGGAGGGAGCCA 20999938-20999957(+) gene body (near 5') 20 AGG CRISPRi Partial validated iPSC NA [1]
sgRNA5 CACGAAGCCCAGGTCCACGG 20999929-20999948(+) gene body (near 5') 20 AGG CRISPRi Partial validated iPSC NA [1]
sgRNA6 GAATGTGCTGGGGTCACCAA 21000130-21000149(+) gene body (near 3') 20 GGG CRISPRi Partial validated iPSC NA [1]
sgRNA7 TGCCTGAAGGGAGTGCTTTG 21000021-21000040(-) gene body (near 5') 20 AGG CRISPRi Partial validated iPSC NA [1]
sgRNA8 GGTGATTACTAGGCAACGGG 21000201-21000220(+) gene body (near 3') 20 AGG CRISPRi Partial validated iPSC NA [1]
sgRNA9 GAGTGTGGGCGGCCTCCCTC 20999983-21000002(-) gene body (near 5') 20 TGG CRISPRi Partial validated iPSC NA [1]
sgRNA10 TCACCAAGGGGGCCCCTTAG 21000143-21000162(+) gene body (near 3') 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).