RP11-156P1.3

Species: Homo sapiens

Position: chr17: 46998699-47067537

Known as:

Transcript: ENST00000571901 , ENST00000575173 , ENST00000570379

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 TCCCTAAGGCCACAACGCAA 47067374-47067393(-) gene body (near 5') 20 GGG CRISPRi Partial validated iPSC NA [1]
sgRNA2 GAGTTGGAGGTGTCACTATG 47067271-47067290(-) gene body (near 5') 20 GGG CRISPRi Partial validated iPSC NA [1]
sgRNA3 GCCAGGCCGCCGCGTCCCCT 47067312-47067331(-) gene body (near 5') 20 AGG CRISPRi Partial validated iPSC NA [1]
sgRNA4 AGCACAACCGAACCCAACAC 47067465-47067484(-) gene body (near 5') 20 CGG CRISPRi Partial validated iPSC NA [1]
sgRNA5 TGGGCAGGAGCAAGGTCCGA 47067424-47067443(-) gene body (near 5') 20 GGG CRISPRi Partial validated iPSC NA [1]
sgRNA6 GGTTCGGTTGTGCTGTCTAA 47067471-47067490(+) gene body (near 5') 20 CGG CRISPRi Partial validated iPSC NA [1]
sgRNA7 CTGCCGTTGGGCCCCGGTGT 47067449-47067468(+) gene body (near 5') 20 TGG CRISPRi Partial validated iPSC NA [1]
sgRNA8 GTCCCCTAGGCAGCGCTCAG 47067299-47067318(-) gene body (near 5') 20 CGG CRISPRi Partial validated iPSC NA [1]
sgRNA9 AACCCAACACCGGGGCCCAA 47067455-47067474(-) gene body (near 5') 20 CGG CRISPRi Partial validated iPSC NA [1]
sgRNA10 GGGCCCAACGGCAGGGGCTT 47067443-47067462(-) 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).