RP11-96K19.5

Species: Homo sapiens

Position: chr1: 110963301-110964649

Known as:

Transcript: ENST00000609118

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 CGCCTGGGTGGCGCACTCTG 110963492-110963511(+) gene body (near 5') 20 CGG CRISPRi Partial validated MCF7 NA [1]
sgRNA2 CATCCCTAAGACGGACAGAG 110963565-110963584(+) gene body (near 5') 20 GGG CRISPRi Partial validated MCF7 NA [1]
sgRNA3 CGGACCGAGTAGATCTCCAC 110963352-110963371(-) gene body (near 5') 20 GGG CRISPRi Partial validated MCF7 NA [1]
sgRNA4 CCCAGCGTCTCAAGTTTAAT 110963375-110963394(-) gene body (near 5') 20 AGG CRISPRi Partial validated MCF7 NA [1]
sgRNA5 CATAAGAGCGTCGGCCATCT 110963317-110963336(+) gene body (near 5') 20 TGG CRISPRi Partial validated MCF7 NA [1]
sgRNA6 ACGGGAGATGAAAACCAAGA 110963334-110963353(-) gene body (near 5') 20 TGG CRISPRi Partial validated MCF7 NA [1]
sgRNA7 TACACAGCGTCCGGAAACGA 110963533-110963552(+) gene body (near 5') 20 CGG CRISPRi Partial validated MCF7 NA [1]
sgRNA8 AGCGTCTCAAGTTTAATAGG 110963372-110963391(-) gene body (near 5') 20 CGG CRISPRi Partial validated MCF7 NA [1]
sgRNA9 CGCTGTGTCAGGCTCTAAAG 110963407-110963426(+) gene body (near 5') 20 AGG CRISPRi Partial validated MCF7 NA [1]
sgRNA10 ATCTCCCGTGGAGATCTACT 110963345-110963364(+) gene body (near 5') 20 CGG CRISPRi Partial validated MCF7 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).