RP11-983P16.4

Species: Homo sapiens

Position: chr12: 53014595-53018959

Known as:

Transcript: ENST00000549388

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 AAGTGGGGGTTCAGTAATAA 53018656-53018675(+) gene body (near 5') 20 GGG CRISPRi Partial validated K562 NA [1]
sgRNA2 AGTGGTCGAAACTAGGATAG 53018789-53018808(-) gene body (near 5') 20 AGG CRISPRi Partial validated K562 NA [1]
sgRNA3 GACTGTTAAAAAGATAAGAT 53018499-53018518(+) gene body (near 5') 20 GGG CRISPRi Partial validated K562 NA [1]
sgRNA4 AGAATGGGGGACAACCTCAC 53018477-53018496(+) gene body (near 5') 20 AGG CRISPRi Partial validated K562 NA [1]
sgRNA5 TACTGAACCCCCACTTTTTT 53018660-53018679(+) gene body (near 5') 20 TGG CRISPRi Partial validated K562 NA [1]
sgRNA6 CTTTGCTTACATAAAGATTA 53018592-53018611(+) gene body (near 5') 20 AGG CRISPRi Partial validated K562 NA [1]
sgRNA7 AACCAGACCAAAAAAAGTGG 53018670-53018689(-) gene body (near 5') 20 GGG CRISPRi Partial validated K562 NA [1]
sgRNA8 AACCCCCACTTTTTTTGGTC 53018665-53018684(+) gene body (near 5') 20 TGG CRISPRi Partial validated K562 NA [1]
sgRNA9 TGTGCCAAGTGGTCGAAACT 53018796-53018815(-) gene body (near 5') 20 AGG CRISPRi Partial validated K562 NA [1]
sgRNA10 CACTACTGTCATAGAACAAG 53018734-53018753(-) gene body (near 5') 20 AGG CRISPRi Partial validated K562 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).