SLC26A4-AS1

Species: Homo sapiens

Position: chr7: 107653975-107662065

Known as:

Transcript: ENST00000440512 , ENST00000591896

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 TTAAGTGGTCACGGATCAGG 107660937-107660956(+) gene body (near 5') 20 TGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA2 CAGGACGCGGACCAGACTCG 107661498-107661517(+) gene body (near 5') 20 CGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA3 GGCGCTTGTCGCGAGCGCCG 107661471-107661490(+) gene body (near 5') 20 AGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA4 TCTCTCTACGCAGGCCCGCG 107661816-107661835(-) gene body (near 5') 20 CGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA5 CTCCGCGGGTCCCCAAGAGG 107661108-107661127(-) gene body (near 5') 20 CGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA6 GGCTGGCCGTGCGCGCCGTG 107661450-107661469(+) gene body (near 5') 20 GGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA7 GCGCCGAGGGCTGCAGGACG 107661485-107661504(+) gene body (near 5') 20 CGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA8 TTGGGTTTAGAGACTGAGGG 107662322-107662341(-) up stream 20 TGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA9 GTAAGCGAGGACGATCGGAG 107661582-107661601(-) gene body (near 5') 20 GGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA10 AGTCCCATCCGCAACCCTCG 107660916-107660935(-) gene body (near 5') 20 AGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA11 CCCGGGCTCCACTCCCGGGG 107660890-107660909(+) gene body (near 5') 20 AGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA12 GCCCTTCCCTCCCCAAGGCG 107661854-107661873(-) gene body (near 5') 20 TGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA13 TCAGGTGCCCCCCTGCAGGC 107661433-107661452(+) gene body (near 5') 20 TGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA14 GATGCCCACACCGCCCGGCC 107660872-107660891(+) gene body (near 5') 20 CGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA15 GGGACCCACTGTACCCCAAG 107662105-107662124(-) up stream 20 AGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA16 GTGCAGGCCACGAGACCCGA 107661407-107661426(+) gene body (near 5') 20 AGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA17 GCAGACCCCCGGGCCAGGCG 107661146-107661165(-) gene body (near 5') 20 TGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA18 CCTCCCCGGGAGTGGAGCCC 107660893-107660912(-) gene body (near 5') 20 GGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA19 CGCTCCGCTTCTCTCTACGC 107661825-107661844(-) gene body (near 5') 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.