LA16c-385E7.1

Species: Homo sapiens

Position: chr16: 1512978-1514675

Known as:

Transcript: ENST00000566922

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 CGTAGGTGGGTGAGGGGCGG 1512234-1512253(+) up stream 20 TGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA2 TGCCGGTCTCCAGCATCAGG 1512283-1512302(+) up stream 20 AGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA3 CTGCACTCGAGTCTTGCGGG 1511504-1511523(+) up stream 20 TGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA4 GTCAGGCCGAGGTCCTGCAG 1511888-1511907(+) up stream 20 TGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA5 CTTCGGAGAGGGCAATCAAG 1512055-1512074(+) up stream 20 TGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA6 ATGACGACGGACACATGGAA 1513573-1513592(+) gene body (near 5') 20 AGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA7 TCCACACAGTCTCAAACGAG 1511718-1511737(+) up stream 20 AGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA8 TAATAGGGCAACACAACTGG 1513084-1513103(+) gene body (near 5') 20 TGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA9 ATGAGGGGATGCGGTGCCCG 1511318-1511337(+) up stream 20 CGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA10 GCGCGTGCAATTCTCTATGT 1513158-1513177(+) gene body (near 5') 20 TGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA11 AGGCACGACCCTCTGCCTGC 1511194-1511213(+) up stream 20 AGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA12 GCAGCCCAGCGAGCCCGACA 1513000-1513019(+) gene body (near 5') 20 CGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA13 AATAGAAACCCCGTTGGAGC 1512648-1512667(+) up stream 20 AGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA14 CACTGGGGGCAGCCGTGAGC 1513596-1513615(+) gene body (near 5') 20 AGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA15 ACATGCATATGTCAGAGTGG 1511527-1511546(+) up 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.