RP11-566K11.7

Species: Homo sapiens

Position: chr16: 89906156-89918233

Known as:

Transcript: ENST00000570217

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 ACCCGGGCTGCCAGGAAAGG 89906441-89906460(-) gene body (near 5') 20 AGG CRISPRi Partial validated MCF7 NA [1]
sgRNA2 ACGGATGGAGCAGCTCACCA 89906526-89906545(-) gene body (near 5') 20 CGG CRISPRi Partial validated MCF7 NA [1]
sgRNA3 AGCCCAGCCCCGCCACGGCA 89906393-89906412(+) gene body (near 5') 20 GGG CRISPRi Partial validated MCF7 NA [1]
sgRNA4 CCTAGGGCCGGGGAGAAACA 89906175-89906194(-) gene body (near 5') 20 AGG CRISPRi Partial validated MCF7 NA [1]
sgRNA5 GGGGCAGGGTCTAGTGCAGA 89906413-89906432(+) gene body (near 5') 20 GGG CRISPRi Partial validated MCF7 NA [1]
sgRNA6 CAGCCTTTCTCCCTTACCGG 89906282-89906301(-) gene body (near 5') 20 GGG CRISPRi Partial validated MCF7 NA [1]
sgRNA7 ACTCTCGAGCAGAGGCACCA 89906035-89906054(-) up stream 20 TGG CRISPRi Partial validated MCF7 NA [1]
sgRNA8 TCAGCAGCCCAGCCCCGCCA 89906388-89906407(+) gene body (near 5') 20 CGG CRISPRi Partial validated MCF7 NA [1]
sgRNA9 AGAAGGGACGTGCATGTGAC 8990632-89906344(-) gene body (near 5') 20 CGG CRISPRi Partial validated MCF7 NA [1]
sgRNA10 CGCTGCCCTGCCCCCGGTAA 89906269-89906288(+) gene body (near 5') 20 GGG 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).