Zfp36l2 mm10 Knockout eCLIP Tracks for UCSC Genome Browser

ZFP36L2 (zinc finger protein 36 like 2, C3H type-ZFP) is an RNA-binding protein targetingtranscripts rich in adenine-uridine elements (AREs). Previous transcriptomic analysissuggested that ZFP36L2 displays a distinct transcript preference, depending on the tissueof expression. However, this analysis was restricted to a few tissues. Here, we collectedRNA-seq data in six tissues and detected a remarkable transcript selectivity. Given thatZFP36L2 accelerates the degradation of specific ARE-transcripts upon binding, weobtained differential expression transcriptomic data on a Zfp36l2 knock-out mouse modelto delve into the mechanisms governing this tissue-specific targeting. Transcriptomicanalyzes of up regulated ARE-transcripts in lung, liver, bone marrow, spleen, kidney, andovary of the Zfp36l2-deficient mouse confirmed that there is high tissue preference inZFP36L2 targets. We observed only one common up regulated gene, Apol11b, amongthese six different tissues. However, we do observe common trends, specifically anenrichment in protein coding genes in the up regulated genes, consistent with these RBPprimarily targeting genes on their 3’ UTRs. Interestingly, we observed a significantincrease in the proportion of IG (immunoglobulin) genes being up regulated. We furtherperformed eCLIP (Enhanced Cross-Linking&ImmunoPreciptation) on a mouse cell line,MLTC-1 cells, to identify direct binding sites of ZFP36L2. AU-Rich Element score(AREscore) analysis revealed enrichment in both up regulated genes and eCLIP peaks,although some differences were observed in flanking residue composition. Our findingsprovide new insights into the intricate regulatory network orchestrated by ZFP36L2,opening avenues for exploring its potential roles in different tissues.