RP11-727F15.11

Species: Homo sapiens

Position: chr11: 62771119-62771606

Known as:

Transcript: ENST00000596071

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 GCAGGCCTTGCTCTGGTCCA 62771495-62771514(+) gene body (near 5') 20 AGG CRISPRi Partial validated U87 NA [1]
sgRNA2 CTCACCTGAAGACCCCGGCG 62771476-62771495(-) gene body (near 5') 20 TGG CRISPRi Partial validated U87;iPSC;MCF7;MDA-MB-231 NA [1]
sgRNA3 CAGGTGAGCAGGCCTTGCTC 62771488-62771507(+) gene body (near 5') 20 TGG CRISPRi Partial validated U87;iPSC;MCF7;MDA-MB-231 NA [1]
sgRNA4 TAAGCAGTCGGCGTCGGGAA 62771526-62771545(-) gene body (near 5') 20 TGG CRISPRi Partial validated U87;iPSC;MCF7;MDA-MB-231 NA [1]
sgRNA5 GAAGGCTGCTACCGAGACGA 62771452-62771471(-) gene body (near 5') 20 CGG CRISPRi Partial validated U87;iPSC;MCF7;MDA-MB-231 NA [1]
sgRNA6 GGCTGCTACCGAGACGACGG 62771449-62771468(-) gene body (near 5') 20 CGG CRISPRi Partial validated U87;iPSC;MCF7;MDA-MB-231 NA [1]
sgRNA7 GAACAGACTGTAGAGACCGG 62771274-62771293(-) gene body (near 3') 20 CGG CRISPRi Partial validated U87;iPSC;MCF7;MDA-MB-231 NA [1]
sgRNA8 GCCTGCTCACCTGAAGACCC 62771481-62771500(-) gene body (near 5') 20 CGG CRISPRi Partial validated U87;iPSC;MCF7;MDA-MB-231 NA [1]
sgRNA9 GTGAGTAAGCAGTCGGCGTC 62771531-62771550(-) gene body (near 5') 20 GGG CRISPRi Partial validated U87;iPSC;MCF7;MDA-MB-231 NA [1]
sgRNA10 TAGCAGCCTTCGCCACGCCG 62771461-62771480(+) gene body (near 5') 20 GGG CRISPRi Partial validated U87;iPSC;MCF7;MDA-MB-231 NA [1]
sgRNA11 GCAGGCCTTGCTCTGGTCCA 62771495-62771514(+) gene body (near 5') 20 AGG CRISPRi Partial validated iPSC;MCF7;MDA-MB-231 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).