RP11-525K10.3

Species: Homo sapiens

Position: chr16: 80155052-80563135

Known as:

Transcript: ENST00000568776

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 ATTCTACCCTAGCTGGCTGG 80564304-80564323(+) up stream 20 AGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA2 TTGTGCATACATCATTACGT 80568074-80568093(+) up stream 20 AGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA3 GTCCGTCTGGAATTAGAAGA 80561280-80561299(+) gene body (near 5') 20 CGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA4 ACTCCACACTTAACACACAG 80559925-80559944(+) gene body (near 5') 20 TGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA5 TGACCGAATACCCAATGCAA 80559140-80559159(-) gene body (near 5') 20 AGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA6 CTACCCTAGCTGGCTGGAGG 80564307-80564326(+) up stream 20 AGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA7 CTCCCTGAAGAGTATTACGA 80564092-80564111(+) up stream 20 TGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA8 GATTCTGAGCAGAAACAAAG 80567073-80567092(-) up stream 20 GGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA9 TACAGGAACCACTGAACTAG 80561198-80561217(+) gene body (near 5') 20 AGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA10 GGAGTTCACAGCTCATGGAC 80566569-80566588(+) up stream 20 TGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA11 GGACTATTGTATATAAGTCA 80560894-80560913(+) gene body (near 5') 20 AGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA12 TCTTGAATTAATAAAAACGC 80559343-80559362(+) gene body (near 5') 20 TGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA13 CATGGGAGTAAGTAAGGTGG 80567458-80567477(+) up stream 20 TGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA14 GGTTCCATGAGACTCTGGTG 80559952-80559971(-) gene body (near 5') 20 AGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA15 GATGCCACATGGAAAATGGG 80561065-80561084(-) gene body (near 5') 20 TGG 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.