RP3-322G13.5

Species: Homo sapiens

Position: chr20: 23356593-23358005

Known as:

Transcript: ENST00000442440

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 CTTTCCTCAACGTTACCACC 23357976-23357995(-) gene body (near 5') 20 CGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA2 CACTGACGCACGCGCAACGC 23358428-23358447(-) up stream 20 CGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA3 GGACCTGGAAGTTAAAGCGA 23356783-23356802(-) gene body (near 3') 20 GGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA4 GAGATGTGTCCCAGAACCGA 23356431-23356450(-) down stream 20 AGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA5 ACCGCGCTTACCGGGAGCCC 23357838-23357857(-) gene body (near 5') 20 GGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA6 GCACGCCCACAGGCTCGTGA 23358357-23358376(-) up stream 20 GGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA7 AGCGCGCTGGACAGAACGGG 23356540-23356559(-) down stream 20 AGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA8 TCTGCACGAGAAAAGTACAC 23358750-23358769(-) up stream 20 GGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA9 GCTAGGGCGCCGGAGTCACG 23358204-23358223(-) up stream 20 TGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA10 GCGTCTTGGTCTCGGGCTGG 23358050-23358069(-) up stream 20 TGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA11 TAAGGCAGCGGGCAGCGCGC 23356553-23356572(-) down stream 20 TGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA12 ATCGGGGATGCTGGAACCTG 23358100-23358119(-) up stream 20 CGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA13 AGCGGCCGGTGGGTCAGGCT 23358334-23358353(-) up stream 20 GGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA14 GCGTGGCGTTCGTGTCGCGG 23357906-23357925(-) gene body (near 5') 20 GGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA15 GCCTGCAACCAGGCTAGTGT 23356322-23356341(-) down stream 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.