RP5-981O7.2

Species: Homo sapiens

Position: chr7: 152120000-152121717

Known as:

Transcript: ENST00000424630

Sequence: Download

Description:

We report a high throughput genomic deletion strategy to screen for functional long non-coding RNAs (lncRNAs) that is based on a lentiviral paired-guide RNA (pgRNA) library. Applying our screening method, we identified 51 lncRNAs that can positively or negatively regulate human cancer cell growth. We used the MAGeCK algorithm to identify the top hits by comparing samples from day 30 with day-0 controls. The output of MAGeCK is a set of negatively (or positively) selected lncRNAs, or lncRNAs whose knockout disrupts (or stimulates) cell proliferation. In total, MAGeCK identified 43 negatively selected and 8 positively selected lncRNAs with statistical significance (false discovery rate < 0.25).



sgRNAs

sgRNA_ID Sequence Position (Chr) Position (Lnc) Length PAM Type Validity Cell line Note Ref.
sgRNA1 GGGGCAGTCAGGAAGTGCAC 152120418-152120437(-) gene body (near 3') 20 AGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA2 GAATTTGTTAGAAATGGCCA 152119191-152119210(+) down stream 20 AGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA3 TTGTGGAAGTATTAAAATCG 152119926-152119945(+) down stream 20 CGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA4 GTGCATCTTCTGGGTAGAAG 152119895-152119914(+) down stream 20 AGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA5 CATTCCACTTCAGATAGCTA 152120661-152120680(-) gene body (near 3') 20 AGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA6 CCTGCCTTAGCTATCTGAAG 152120654-152120673(+) gene body (near 3') 20 TGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA7 GTGTGCCCTTCTGTCTCCAG 152120465-152120484(+) gene body (near 3') 20 AGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA8 GTGGGCGTGACCTCTTCTGG 152119523-152119542(-) down stream 20 TGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA9 GACACTGGCTGTGAGCCCCG 152118796-152118815(-) down stream 20 AGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA10 CTGGACTGTGTAGGTGACAG 152120513-152120532(-) gene body (near 3') 20 AGG CRISPRko Partial validated Huh7.5 NA [1]

GBrowser


Links

lncRNA Function:

sgRNA Design Tool:

Reference

1. Zhu S, Li W, Liu J, Chen CH, Liao Q, et al. (2016). Genome-scale deletion screening of human long non-coding RNAs using a paired-guide RNA CRISPR-Cas9 library. Nat Biotechnol 34(12): 1279-1286.