RP11-473I1.5

Species: Homo sapiens

Position: chr16: 9105833-9107174

Known as:

Transcript: ENST00000565648

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 GAACAGAGGACCAATGAGAA 9106931-9106950(-) gene body (near 5') 20 TGG CRISPRi Partial validated iPSC NA [1]
sgRNA2 GGAGAGAAGGTCTAAACGAG 9107078-9107097(-) gene body (near 5') 20 AGG CRISPRi Partial validated iPSC NA [1]
sgRNA3 AATTTGGAGATGTACACCGG 9107128-9107147(-) gene body (near 5') 20 AGG CRISPRi Partial validated iPSC NA [1]
sgRNA4 TCTAGAAAAGGGATGAACAG 9106945-9106964(-) gene body (near 5') 20 AGG CRISPRi Partial validated iPSC NA [1]
sgRNA5 ACAGGGCCTGAGGACAGGTC 9107009-9107028(-) gene body (near 5') 20 AGG CRISPRi Partial validated iPSC NA [1]
sgRNA6 GACAATTTGGAGATGTACAC 9107131-9107150(-) gene body (near 5') 20 CGG CRISPRi Partial validated iPSC NA [1]
sgRNA7 CTTCTCTCCTGACTGCCAGA 9107089-9107108(+) gene body (near 5') 20 TGG CRISPRi Partial validated iPSC NA [1]
sgRNA8 AGATGTACACCGGAGGACAG 9107121-9107140(-) gene body (near 5') 20 TGG CRISPRi Partial validated iPSC NA [1]
sgRNA9 ACATCTCCAAATTGTCCCAC 9107135-9107154(+) gene body (near 5') 20 AGG CRISPRi Partial validated iPSC NA [1]
sgRNA10 GCAGAAGAGAAGCCAAGGTA 9106974-9106993(-) gene body (near 5') 20 AGG 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).