RP11-316M1.3

Species: Homo sapiens

Position: chr1: 150973122-150975534

Known as:

Transcript: ENST00000412838

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 GGTTTGAGAGACAGCTGGGG 150973365-150973384(+) gene body (near 5') 20 CGG CRISPRi Partial validated iPSC NA [1]
sgRNA2 GGTCCGTGGAGGCCTTTGGT 150973298-150973317(-) gene body (near 5') 20 GGG CRISPRi Partial validated iPSC NA [1]
sgRNA3 GGCCCCAGTGAGGGAAGTGG 150973478-150973497(+) gene body (near 5') 20 GGG CRISPRi Partial validated iPSC NA [1]
sgRNA4 CCAGATTGTAAAAAAGAGGT 150973212-150973231(+) gene body (near 5') 20 GGG CRISPRi Partial validated iPSC NA [1]
sgRNA5 TTACCCCTGTCACTGGCCAT 150973421-150973440(-) gene body (near 5') 20 AGG CRISPRi Partial validated iPSC NA [1]
sgRNA6 AGGGATAACACACCTCTCAT 150973163-150973182(-) gene body (near 5') 20 TGG CRISPRi Partial validated iPSC NA [1]
sgRNA7 GCATGAGACTATGGCCCCAG 150973326-150973345(+) gene body (near 5') 20 GGG CRISPRi Partial validated iPSC NA [1]
sgRNA8 CCATGGATGGAGCCAATGAG 150973148-150973167(+) gene body (near 5') 20 AGG CRISPRi Partial validated iPSC NA [1]
sgRNA9 GAGAGGTGTGTTATCCCTCC 150973165-150973184(+) gene body (near 5') 20 AGG CRISPRi Partial validated iPSC NA [1]
sgRNA10 GGGAGAAAAGGATCCCTCTC 150973506-150973525(+) 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).