CTB-131K11.1

Species: Homo sapiens

Position: chr17: 39401792-39406233

Known as:

Transcript: ENST00000582842

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 TGCTCCCGGGAGCGCCGTCA 39401797-39401816(-) gene body (near 5') 20 GGG CRISPRi Partial validated K562 NA [1]
sgRNA2 CGTCAGGGCCGGCCCCGTGT 39401782-39401801(-) gene body (near 5') 20 GGG CRISPRi Partial validated K562 NA [1]
sgRNA3 GCGTGCTCGCGGACCAGCGA 39401942-39401961(+) gene body (near 5') 20 GGG CRISPRi Partial validated K562 NA [1]
sgRNA4 CTGCCTCGCCTTCTCCCGAT 39401869-39401888(-) gene body (near 5') 20 GGG CRISPRi Partial validated K562 NA [1]
sgRNA5 CCGGCCCTGACGGCGCTCCC 39401790-39401809(+) gene body (near 5') 20 GGG CRISPRi Partial validated K562 NA [1]
sgRNA6 CGGGAGCAGCCGGTGCGCGG 39401809-39401828(+) gene body (near 5') 20 CGG CRISPRi Partial validated K562 NA [1]
sgRNA7 TCCCGGGAGCAGCCGGTGCG 39401806-39401825(+) gene body (near 5') 20 CGG CRISPRi Partial validated K562 NA [1]
sgRNA8 CCGAGGCAGACGAGCCCATC 39401852-39401871(+) gene body (near 5') 20 GGG CRISPRi Partial validated K562 NA [1]
sgRNA9 GAGCCCATCGGGAGAAGGCG 39401863-39401882(+) gene body (near 5') 20 AGG CRISPRi Partial validated K562 NA [1]
sgRNA10 CGTCTGCCTCGGAGGCGCAG 39401844-39401863(-) gene body (near 5') 20 GGG CRISPRi Partial validated K562 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).