{"doi":"10.1101/2024.01.11.575216","title":"A dual DNA/RNA-binding factor regulates co-transcriptional splicing through target RNA interaction and modulates splicing factor dynamics","abstract":"Summary How RNA splicing events are targeted to the correct genomic locations in specific cellular contexts to generate context-specific transcript diversity and prevent deleterious cryptic splicing remains very poorly understood. We show that a functionally conserved GA-rich DNA-binding transcription factor (TF), CLAMP, targets distinct RNA molecules in male and female cells to precisely regulate sex-specific splicing events through physical and functional interactions with RNA and RNA-binding proteins (RBPs). The prion-like domain of CLAMP (PrLD) and a stem-loop region in the target RNA are important for CLAMP-RNA interaction. Moreover, the CLAMP PrLD domain regulates sex-specific splicing by modulating the dynamics of an hnRNPA2/B1 family protein that regulates alternative splicing. Thus, we demonstrate that a TF targets co-transcriptional splicing to the correct genomic locations by directly linking DNA binding sites to RNA targets and modulating the dynamics of RBP partners that drive alternative splicing.","journal":"bioRxiv (Cold Spring Harbor Laboratory)","year":2024,"id":484612,"datarank":0.0,"base_score":0.0,"endowment":0.0,"self_citation_contribution":0.0,"citation_network_contribution":0.0,"self_endowment_contribution":0.0,"citer_contribution":0.0,"corpus_percentile":null,"corpus_rank":null,"citation_count":8,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":0.9554,"is_data_producer":false,"deposit_databanks":null,"is_oa":true,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":"2024-01-01","fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":1327245,"name":"Julia Zaborowsky","orcid":null,"position":1,"is_corresponding":false},{"id":816652,"name":"Pranav Mahableshwarkar","orcid":null,"position":2,"is_corresponding":false},{"id":816264,"name":"Smriti Vaidyanathan","orcid":"0009-0003-4707-5499","position":3,"is_corresponding":false},{"id":1327246,"name":"Jasmine Shum","orcid":null,"position":4,"is_corresponding":false},{"id":351810,"name":"Annie Huang","orcid":"0000-0002-1987-6980","position":5,"is_corresponding":false},{"id":1325682,"name":"Renjith Viswanathan","orcid":"0000-0002-2875-2090","position":6,"is_corresponding":false},{"id":1327247,"name":"Isabelle Pilo","orcid":null,"position":7,"is_corresponding":false},{"id":539628,"name":"Victoria Chen","orcid":"0000-0002-2653-8031","position":8,"is_corresponding":false},{"id":1178166,"name":"Kaitlyn Cortez","orcid":null,"position":9,"is_corresponding":false},{"id":561818,"name":"Ashley Mae Conard","orcid":"0000-0002-4143-6180","position":10,"is_corresponding":false},{"id":1117079,"name":"Szu‐Huan Wang","orcid":"0009-0009-8499-7066","position":11,"is_corresponding":false},{"id":478504,"name":"Victoria Johnson","orcid":"0000-0002-5530-981X","position":12,"is_corresponding":false},{"id":1325945,"name":"Noah Wake","orcid":"0000-0003-4119-2574","position":13,"is_corresponding":false},{"id":1326771,"name":"Alexander E. Conicella","orcid":"0000-0003-3383-3036","position":14,"is_corresponding":false},{"id":363861,"name":"Ryan Z. Puterbaugh","orcid":"0000-0002-6412-8703","position":15,"is_corresponding":false},{"id":303973,"name":"Nicolas L. Fawzi","orcid":"0000-0001-5483-0577","position":16,"is_corresponding":false},{"id":23424,"name":"Erica Larschan","orcid":"0000-0003-2484-4921","position":17,"is_corresponding":false},{"id":816262,"name":"Mukulika Ray","orcid":"0000-0002-9064-818X","position":0,"is_corresponding":true}],"reference_count":49,"raw_metadata":null,"created_at":"2026-07-19T02:07:42.971417Z","pmid":"38260450","pmcid":null,"fwci":null,"citation_percentile":null,"influential_citations":0,"oa_status":null,"license":null,"views":0,"total_file_size_bytes":0,"version_count":0,"fair_f":null,"fair_a":null,"fair_i":null,"fair_r":null,"fair_zscore":null,"fair_rationale":null,"fair_model":null,"fair_agent_version":null,"fair_fulltext_source":null,"fair_has_llm":null,"fair_computed_at":null,"clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}