RP13-238F13.3

Species: Homo sapiens

Position: chr10: 124447712-124450048

Known as:

Transcript: ENST00000604581

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 AGCCCAACTGCGCCAAGCCG 124447873-124447892(-) gene body (near 5') 20 CGG CRISPRi Partial validated iPSC NA [1]
sgRNA2 AGGTCCCCCCCGGGATCCCC 124447925-124447944(-) gene body (near 5') 20 CGG CRISPRi Partial validated iPSC NA [1]
sgRNA3 CGCCTCGGAACCCTCCAGGG 124448095-124448114(+) gene body (near 5') 20 GGG CRISPRi Partial validated iPSC NA [1]
sgRNA4 TCTGGGGAGCCCTGCGAGGA 124447964-124447983(-) gene body (near 5') 20 CGG CRISPRi Partial validated iPSC NA [1]
sgRNA5 GGAGGGTTCCGAGGCGGAAG 124448091-124448110(-) gene body (near 5') 20 AGG CRISPRi Partial validated iPSC NA [1]
sgRNA6 ATCCCGGGGGGGACCTCACA 124447929-124447948(+) gene body (near 5') 20 GGG CRISPRi Partial validated iPSC NA [1]
sgRNA7 TTCCGCCTCGGAACCCTCCA 124448092-124448111(+) gene body (near 5') 20 GGG CRISPRi Partial validated iPSC NA [1]
sgRNA8 GGGGAGCCCTGCGAGGACGG 124447961-124447980(-) gene body (near 5') 20 CGG CRISPRi Partial validated iPSC NA [1]
sgRNA9 GGCCCTGTGAGGTCCCCCCC 124447934-124447953(-) gene body (near 5') 20 GGG CRISPRi Partial validated iPSC NA [1]
sgRNA10 GTCCCCCCTGGAGGGTTCCG 124448100-124448119(-) 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).