RP11-336K24.12

Species: Homo sapiens

Position: chr1: 155978798-155982986

Known as:

Transcript: ENST00000610146

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 GGCCAACCTGGGTCCGGCGA 155978823-155978842(-) gene body (near 5') 20 GGG CRISPRi Partial validated K562 NA [1]
sgRNA2 CGGAGAGGTACGAGGGTCCT 155978688-155978707(+) up stream 20 AGG CRISPRi Partial validated K562 NA [1]
sgRNA3 GGCAGCTCGGAGAGGTACGA 155978681-155978700(+) up stream 20 GGG CRISPRi Partial validated K562 NA [1]
sgRNA4 AGAGGGGAAAGGGCCAACCT 155978834-155978853(-) gene body (near 5') 20 GGG CRISPRi Partial validated K562 NA [1]
sgRNA5 GGGCCTCTCAAACCTGTCCT 155978708-155978727(-) up stream 20 AGG CRISPRi Partial validated K562 NA [1]
sgRNA6 AGGTACGAGGGTCCTAGGAC 155978693-155978712(+) up stream 20 AGG CRISPRi Partial validated K562 NA [1]
sgRNA7 GGACGCCAGGGTTTGTGTGG 155978660-155978679(+) up stream 20 GGG CRISPRi Partial validated K562 NA [1]
sgRNA8 GCGCGCAGGACGGGACGCCA 155978648-155978667(+) up stream 20 GGG CRISPRi Partial validated K562 NA [1]
sgRNA9 GGGGTGCCCGCGCGCAGGAC 155978639-155978658(+) up stream 20 GGG CRISPRi Partial validated K562 NA [1]
sgRNA10 GGAAAGGGCCAACCTGGGTC 155978829-155978848(-) gene body (near 5') 20 CGG CRISPRi Partial validated K562 NA [1]
sgRNA11 GGCTGCCCCCACACAAACCC 155978668-155978687(-) up stream 20 TGG 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).