RP11-410D17.2

Species: Homo sapiens

Position: chr16: 58733911-58862170

Known as:

Transcript: ENST00000568134

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 TGCGGGGACCAGAGGGATGT 58733913-58733932(+) gene body (near 5') 20 GGG CRISPRi Partial validated iPSC NA [1]
sgRNA2 TGGGATCCTGAGGATCACTG 58733932-58733951(+) gene body (near 5') 20 TGG CRISPRi Partial validated iPSC NA [1]
sgRNA3 GGCTCTGGCAGAGGCCGCGG 58734142-58734161(+) gene body (near 5') 20 CGG CRISPRi Partial validated iPSC NA [1]
sgRNA4 CCAGTAAGGGAAAGCCGAGG 58733980-58733999(+) gene body (near 5') 20 GGG CRISPRi Partial validated iPSC NA [1]
sgRNA5 GGCGTGCAACGCAATCCCTA 58733877-58733896(-) up stream 20 GGG CRISPRi Partial validated iPSC NA [1]
sgRNA6 GGGCCCAGTGCGGGGACCAG 58733905-58733924(+) gene body (near 5') 20 AGG CRISPRi Partial validated iPSC NA [1]
sgRNA7 CGTGCCCCACAGTGATCCTC 58733941-58733960(-) gene body (near 5') 20 AGG CRISPRi Partial validated iPSC NA [1]
sgRNA8 CAGAGGGATGTGGGATCCTG 58733922-58733941(+) gene body (near 5') 20 AGG CRISPRi Partial validated iPSC NA [1]
sgRNA9 GGGAAACGGAGATGGAGCCA 58734111-58734130(-) gene body (near 5') 20 GGG CRISPRi Partial validated iPSC NA [1]
sgRNA10 CATCCCTCTGGTCCCCGCAC 58733912-58733931(-) gene body (near 5') 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).