{"doi":"10.1002/2211-5463.13079","title":"Characterization of transcripts emanating from enhancer <i>Eβ</i> of the murine <i>TCRβ</i> locus","abstract":"<jats:p>Enhancers are well established as critical regulators of gene expression, but the mechanisms underlying the molecular basis of their specificity and activity are only partly understood. One of the most exciting recent observations is the discovery of enhancer RNA (eRNA), a class of noncoding RNAs derived from enhancer regions. Transcription of developmentally regulated enhancers has been observed to be associated with their active state. The nature of transcripts (eRNA) and their functional attributes are diverse and context dependent. The majority of eRNA are nonpolyadenylated and present in low abundance owing to their low stability, and may represent transcriptional noise. However, some eRNAs have been reported to be reasonably long and stable, are enriched in nuclei, exhibit tissue‐specific expression and may contribute to enhancer function. Transcription of enhancers has been postulated to mediate enhancer function through either the act of transcription or via the transcribed RNA <jats:italic>per se</jats:italic> and is a useful feature to be analysed to understand mechanisms underlying enhancer activity. Enhancer <jats:italic>Eβ</jats:italic> at the murine <jats:italic>TCRβ</jats:italic> locus has been reported to exhibit enhanced occupancy of RNA polymerase II in developing thymocytes. Here, we investigated the transcriptional potential of <jats:italic>Eβ</jats:italic> in developing thymocytes and detected overlapping bidirectional transcripts at <jats:italic>Eβ</jats:italic> ranging between 0.7 and 1.7 kb. These noncoding transcripts are capped, polyadenylated, nuclear and expressed specifically in thymocytes. Delineation of these characteristics is important to further investigate their functional roles in mediating enhancer activity.</jats:p>","journal":"FEBS Open Bio","year":2021,"id":588805,"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":0,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":null,"is_data_producer":false,"deposit_databanks":null,"is_oa":false,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":null,"fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":1506432,"name":"Madhulika Srivastava","orcid":"0000-0002-0997-013X","position":1,"is_corresponding":false},{"id":1506431,"name":"Faizan Uddin","orcid":null,"position":0,"is_corresponding":false}],"reference_count":0,"raw_metadata":{"has_enrichment":true,"resolved":true,"title":"Characterization of transcripts emanating from enhancer <i>Eβ</i> of the murine <i>TCRβ</i> locus","abstract":"<jats:p>Enhancers are well established as critical regulators of gene expression, but the mechanisms underlying the molecular basis of their specificity and activity are only partly understood. One of the most exciting recent observations is the discovery of enhancer RNA (eRNA), a class of noncoding RNAs derived from enhancer regions. Transcription of developmentally regulated enhancers has been observed to be associated with their active state. The nature of transcripts (eRNA) and their functional attributes are diverse and context dependent. The majority of eRNA are nonpolyadenylated and present in low abundance owing to their low stability, and may represent transcriptional noise. However, some eRNAs have been reported to be reasonably long and stable, are enriched in nuclei, exhibit tissue‐specific expression and may contribute to enhancer function. Transcription of enhancers has been postulated to mediate enhancer function through either the act of transcription or via the transcribed RNA <jats:italic>per se</jats:italic> and is a useful feature to be analysed to understand mechanisms underlying enhancer activity. Enhancer <jats:italic>Eβ</jats:italic> at the murine <jats:italic>TCRβ</jats:italic> locus has been reported to exhibit enhanced occupancy of RNA polymerase II in developing thymocytes. Here, we investigated the transcriptional potential of <jats:italic>Eβ</jats:italic> in developing thymocytes and detected overlapping bidirectional transcripts at <jats:italic>Eβ</jats:italic> ranging between 0.7 and 1.7 kb. These noncoding transcripts are capped, polyadenylated, nuclear and expressed specifically in thymocytes. Delineation of these characteristics is important to further investigate their functional roles in mediating enhancer activity.</jats:p>","is_dataset_classified":null,"base_score":0.0,"endowment":0.0,"datacite_reuse_total":0,"file_count":0,"downloads":0,"views":0,"has_version_chain":false,"is_dataset":false,"is_oa":false,"pmid":"33426767","pmcid":"PMC8016127","openalex_id":"https://openalex.org/W3119947529","authors":[],"funders":[{"funder_name":"Science and Engineering Research Board","grant_id":"EMR/2016/006230","title":null}],"total_grants":1,"fwci":0.0,"citation_percentile":0.00359236,"influential_citations":0,"citation_trend":[],"oa_status":"gold","license":"cc-by","oa_locations":[{"url":"https://onlinelibrary.wiley.com/doi/pdfdirect/10.1002/2211-5463.13079","host_type":"journal"},{"url":"https://onlinelibrary.wiley.com/doi/pdfdirect/10.1002/2211-5463.13079","host_type":"publisher"},{"url":"https://onlinelibrary.wiley.com/doi/pdf/10.1002/2211-5463.13079","host_type":"publisher"},{"url":"https://onlinelibrary.wiley.com/doi/full-xml/10.1002/2211-5463.13079","host_type":"publisher"},{"url":"https://febs.onlinelibrary.wiley.com/doi/pdf/10.1002/2211-5463.13079","host_type":"publisher"},{"url":"https://doi.org/10.1002/2211-5463.13079","host_type":"journal"},{"url":"https://pubmed.ncbi.nlm.nih.gov/33426767","host_type":"repository"},{"url":"https://doaj.org/article/afe29af28c094e80b7cba911f5d8f738","host_type":"repository"},{"url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8016127","host_type":"repository"},{"url":"https://europepmc.org/articles/PMC8016127","host_type":"Europe_PMC"},{"url":"https://europepmc.org/articles/PMC8016127?pdf=render","host_type":"Europe_PMC"}],"fields_of_study":["RNA Research and Splicing","Genomics and Chromatin Dynamics","Cancer-related molecular mechanisms research","Animals","Cell Line","Enhancer Elements, Genetic","Gene Expression Regulation","Mice","Mice, Knockout","Organ Specificity","Protein Binding","RNA Polymerase II","RNA, Untranslated","Receptors, Antigen, T-Cell, alpha-beta","Thymocytes","Transcription Initiation Site","Transcription, Genetic"],"mesh_terms":["Animals","Cell Line","Enhancer Elements, Genetic","Gene Expression Regulation","Organ Specificity","Protein Binding","RNA Polymerase II","Transcription, Genetic","Receptors, Antigen, T-Cell, alpha-beta","Mice, Knockout","RNA, Untranslated","Transcription Initiation Site","Mice","Thymocytes"],"keywords":["Enhancer","Enhancer RNAs","Biology","Transcription (linguistics)","RNA polymerase II","Gene","Gene expression","Transcription factor","Genetics","Regulation of gene expression","Locus (genetics)","Polyadenylation","Cell biology","Molecular biology","Promoter","Lncrna","Erna","Enhancer Rna","Noncoding Transcription","Overlapping Transcription","Bidirectional Transcripts"],"sdg_mappings":[],"linked_datasets":[],"clinical_trials":[],"software_tools":[],"database_accessions":[{"name":"geo"}],"source":"live","citation_network_status":"fetched"},"created_at":"2026-07-22T21:53:24.562199Z","pmid":null,"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":[]}