RP13-726E6.2

Species: Homo sapiens

Position: chr11: 3481519-3581211

Known as:

Transcript: ENST00000527970

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 GTCCCGGGGGCGCAGGGTAG 3580878-3580897(-) gene body (near 5') 20 GGG CRISPRi Partial validated iPSC NA [1]
sgRNA2 AGAAGGGGCAGCTGGCGTCT 3580763-3580782(+) gene body (near 5') 20 CGG CRISPRi Partial validated iPSC NA [1]
sgRNA3 AATTGAGCGGCAACTCAGGC 3580815-3580834(-) gene body (near 5') 20 GGG CRISPRi Partial validated iPSC NA [1]
sgRNA4 GGCGCGTCCTCCCCGTCCTC 3580979-3580998(+) gene body (near 5') 20 GGG CRISPRi Partial validated iPSC NA [1]
sgRNA5 CGCACAGCCCGAGGACGGGG 3580989-3581008(-) gene body (near 5') 20 AGG CRISPRi Partial validated iPSC NA [1]
sgRNA6 AGGGACGTCGTGGGAGAATC 3580720-3580739(+) gene body (near 5') 20 AGG CRISPRi Partial validated iPSC NA [1]
sgRNA7 CGCCCCTACCCTGCGCCCCC 3580873-3580892(+) gene body (near 5') 20 GGG CRISPRi Partial validated iPSC NA [1]
sgRNA8 GAAGCGCACAGCCCGAGGAC 3580993-3581012(-) gene body (near 5') 20 GGG CRISPRi Partial validated iPSC NA [1]
sgRNA9 CCAGGTGCAGGCAGAACCCC 3581144-3581163(-) gene body (near 5') 20 CGG CRISPRi Partial validated iPSC NA [1]
sgRNA10 GCTGGGGTCCGGGGGTCCCG 3580892-3580911(-) 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).