Zfp36l2 mm10 Knockout eCLIP Tracks for UCSC Genome Browser

ZFP36L2 (zinc finger protein 36 like 2, C3H type-ZFP) is an RNA-binding protein targeting
transcripts rich in adenine-uridine elements (AREs). Previous transcriptomic analysis
suggested that ZFP36L2 displays a distinct transcript preference, depending on the tissue
of expression. However, this analysis was restricted to a few tissues. Here, we collected
RNA-seq data in six tissues and detected a remarkable transcript selectivity. Given that
ZFP36L2 accelerates the degradation of specific ARE-transcripts upon binding, we
obtained differential expression transcriptomic data on a Zfp36l2 knock-out mouse model
to delve into the mechanisms governing this tissue-specific targeting. Transcriptomic
analyzes of up regulated ARE-transcripts in lung, liver, bone marrow, spleen, kidney, and
ovary of the Zfp36l2-deficient mouse confirmed that there is high tissue preference in
ZFP36L2 targets. We observed only one common up regulated gene, Apol11b, among
these six different tissues. However, we do observe common trends, specifically an
enrichment in protein coding genes in the up regulated genes, consistent with these RBP
primarily targeting genes on their 3’ UTRs. Interestingly, we observed a significant
increase in the proportion of IG (immunoglobulin) genes being up regulated. We further
performed 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 findings
provide new insights into the intricate regulatory network orchestrated by ZFP36L2,
opening avenues for exploring its potential roles in different tissues.