Cited by 186RNA Research and SplicingRNA and protein synthesis mechanismsHemoglobinopathies and Related Disorders

The DOI matches its Crossref record; 101 of the 102 references it cites were found in a registry or an index.

Co-transcriptional splicing regulates 3′ end cleavage during mammalian erythropoiesis

Open access

Reimer, Kirsten A., Mimoso, Claudia A., Adelman, Karen, Neugebauer, Karla M.·2021·Molecular Cell

DOI 10.1016/j.molcel.2020.12.018PMC PMC8038867

Published version of a preprint

Open this paper in CoChat — free account

Abstract

Pre-mRNA processing steps are tightly coordinated with transcription in many organisms. To determine how co-transcriptional splicing is integrated with transcription elongation and 3' end formation in mammalian cells, we performed long-read sequencing of individual nascent RNAs and precision run-on sequencing (PRO-seq) during mouse erythropoiesis. Splicing was not accompanied by transcriptional pausing and was detected when RNA polymerase II (Pol II) was within 75-300 nucleotides of 3' splice sites (3'SSs), often during transcription of the downstream exon. Interestingly, several hundred introns displayed abundant splicing intermediates, suggesting that splicing delays can take place between the two catalytic steps. Overall, splicing efficiencies were correlated among introns within the same transcript, and intron retention was associated with inefficient 3' end cleavage. Remarkably, a thalassemia patient-derived mutation introducing a cryptic 3'SS improved both splicing and 3' end cleavage of individual β-globin transcripts, demonstrating functional coupling between the two co-transcriptional processes as a determinant of productive gene output.

The claims and statistics of this paper haven’t been checked yet.

Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.

Integrity signals

Registry

Crossref · 10.1016/j.molcel.2020.12.018

Cites

101 of 101 references verified0 citation errors · 0 not checkable

Statistics

Claims the paper makes

The claims and statistics of this paper haven’t been checked yet.

Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.

Claims other papers make about this one

Each is checked against this paper’s own text: does it say what the citing paper says it does?

Self-check

Percentages, sums and reported differences re-computed from the paper’s own numbers.

The self-check needs the paper’s full text.

The Sequence Alignment/Map format and SAMtools
Li, H., Handsaker, B., Wysoker, A., Fennell, T., Ruan, J., Homer, N., Marth, G., Abecasis, G., Durbin, R., & 1000 Genome Project Data Processing Subgroup (2009) · Bioinformatics · doi:10.1093/bioinformatics/btp352 · Cited by 62,041
STAR: ultrafast universal RNA-seq aligner
Dobin, A., Davis, C. A., Schlesinger, F., Drenkow, J., Zaleski, C., Jha, S., Batut, P., Chaisson, M., & Gingeras, T. R. (2013) · Bioinformatics · doi:10.1093/bioinformatics/bts635 · Cited by 51,709
Cutadapt removes adapter sequences from high-throughput sequencing reads
Martin, M. (2011) · EMBnet.journal · doi:10.14806/ej.17.1.200 · Cited by 33,889
BEDTools: a flexible suite of utilities for comparing genomic features
Quinlan, A. R., & Hall, I. M. (2010) · Bioinformatics · doi:10.1093/bioinformatics/btq033 · Cited by 27,437
Ultrafast and memory-efficient alignment of short DNA sequences to the human genome.
Langmead, B., Trapnell, C., Pop, M., & Salzberg, S. L. (2009) · Genome Biology · doi:10.1186/gb-2009-10-3-r25 · Cited by 21,849
Minimap2: Pairwise alignment for nucleotide sequences
Li, H. (2018) · Bioinformatics · doi:10.1093/bioinformatics/bty191 · Cited by 14,807
deepTools2: a next generation web server for deep-sequencing data analysis
Ramírez, F., Ryan, D. P., Grüning, B., Bhardwaj, V., Kilpert, F., Richter, A. S., Heyne, S., Dündar, F., & Manke, T. (2016) · Nucleic Acids Research · doi:10.1093/nar/gkw257 · Cited by 8,096
Initial sequencing and comparative analysis of the mouse genome
Mouse Genome Sequencing Consortium (2002) · Nature · doi:10.1038/nature01262 · Cited by 7,187
Quality control and preprocessing of metagenomic datasets
Schmieder, R., & Edwards, R. A. (2011) · Bioinformatics · doi:10.1093/bioinformatics/btr026 · Cited by 5,119
Maximum Entropy Modeling of Short Sequence Motifs with Applications to RNA Splicing Signals
Yeo, G. W.-M., & Burge, C. B. (2004) · Journal of Computational Biology · doi:10.1089/1066527041410418 · Cited by 2,042

Show all 102 references

Sorted by citations

Items 101–186 of 186

Comprehensive proteomic analysis reveals dynamic phospho‐profiling in human early erythropoiesis
Peng, Y., Tang, L., Li, Y., Song, J., Liu, H., Wang, P., Zhong, Z., Yang, Y., Wang, S., Chen, L., et al. (2022) · British Journal of Haematology · doi:10.1111/bjh.18407 · Cited by 7
RNAPII response to transcription‐blocking DNA lesions in mammalian cells
Wang, J., Sadurnì, M. M., & Saponaro, M. (2022) · FEBS Journal · doi:10.1111/febs.16561 · Cited by 7
Post-transcriptional splicing can occur in a slow-moving zone around the genePreprint
Coté, A., O’Farrell, A., Dardani, I. P., Dunagin, M. C., Coté, C., Wan, Y., Bayatpour, S., Drexler, H. L., Alexander, K. A., Chen, F., et al. (2023) · eLife · doi:10.7554/elife.91357.2 · Cited by 7
Pre-mRNA processing factors differentially impact coordination between co-transcriptional cleavage and transcription termination
Jin, X., Li, J., Lu, W., Deng, X. M., Wei, Y., Shu, Y., Liu, B., Liu, Z., Long, Y., Zhu, X., et al. (2025) · Nature Communications · doi:10.1038/s41467-025-62555-7 · Cited by 9
Branch site recognition by the spliceosome
Tholen, J. (2024) · RNA · doi:10.1261/rna.080198.124 · Cited by 6
Comprehensive genetic analysis reveals the mutational landscape of ABCA4-associated retinal dystrophy in a Chinese cohort
Tian, L., Chen, C., Song, Y., Xu, K., Li, N., Zhang, X.-H., Xie, Y., Jin, Z., & Li, Y. (2023) · Gene · doi:10.1016/j.gene.2023.147832 · Cited by 6
Genome-wide measurement of RNA dissociation from chromatin classifies transcripts by their dynamics and reveals rapid dissociation of enhancer lncRNAs
Ntini, E., Budach, S., Ørom, U. A., & Marsico, A. (2023) · Cell Systems · doi:10.1016/j.cels.2023.09.005 · Cited by 6
Plans within plans: post-transcriptional regulation governs macrophage responses
Smith, M. H., Parker, R., Patrick, K. L., & Courvan, E. M. C. (2025) · Trends in Immunology · doi:10.1016/j.it.2025.06.001 · Cited by 5
Coordinating mRNA maturation: The U1 relay model
Yoon, Y., Quan, C., Soles, L. V., & Shi, Y. (2026) · Molecular Cell · doi:10.1016/j.molcel.2026.01.006 · Cited by 8
Isoginkgetin and Madrasin are poor splicing inhibitors
Tellier, M., Ansa, G., & Murphy, S. (2024) · PLoS ONE · doi:10.1371/journal.pone.0310519 · Cited by 5
A Novel Mechanism for Transcription Termination in the mod(mdg4) Locus of Drosophila melanogaster
Soldatova, I. V., Shepelev, M. V., Georgiev, P. G., & Tikhonov, M. V. (2024) · Biology · doi:10.3390/biology13120994 · Cited by 5
Transcription and genome integrity
Ljungman, M. E. (2022) · DNA repair · doi:10.1016/j.dnarep.2022.103373 · Cited by 5
The CPEB3 ribozyme modulates hippocampal-dependent memoryPreprint
Chen, C. C., Han, J., Chinn, C. A., Li, X., Nikan, M., Myszka, M., Tong, L., Bredy, T. W., Wood, M. A., & Lupták, A. (2021) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2021.01.23.426448 · Cited by 5
NIPBL and WAPL balance cohesin activity to regulate chromatin folding and gene expressionPreprint
Luppino, J. M., Field, A. R., Nguyen, S. C., Park, D. S., Shah, P. P., Lan, Y., Yunker, R., Jain, R., Adelman, K., & Joyce, E. F. (2022) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2022.04.19.488785 · Cited by 5
Self-citation
CTCF blocks anti-sense transcription initiation at divergent gene promotersPreprint
Luan, J. Y., Syrett, C. M., Vermunt, M. W., Coté, A., Tome, J. M., Zhang, H., Huang, A., Luppino, J. M., Keller, C. A., Giardine, B. M., et al. (2021) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2021.10.30.465508 · Cited by 5
NELF coordinates Pol II transcription termination and DNA replication initiationPreprint
Nakayama, C., Daigaku, Y., Aoi, Y., Fang, Q., Kimurâ, H., Shilatifard, A., Tellier, M., & Nojima, T. (2024) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2024.01.31.578294 · Cited by 5
Single-molecule multimodal timing of in vivo mRNA synthesisPreprint
Sethi, A. J., Guarnacci, M., Bilal, M., Krishnan, K. S., Hayashi, A., Kanchi, M. M., Nojima, T., Preiß, T., Eyras, E., & Hayashi, R. (2025) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2025.04.27.650906 · Cited by 5
Post‐transcriptional polyadenylation site cleavage maintains 3′‐end processing upon DNA damage
Sfaxi, R., Biswas, B., Boldina, G., Cadix, M., Servant, N., Chen, H., Larson, D. R., Dutertre, M., Robert, C., & Vagner, S. (2023) · The EMBO Journal · doi:10.15252/embj.2022112358 · Cited by 4
The exon junction complex coordinates the cotranscriptional inclusion of blocks of neighboring exonsPreprint
Bergfort, A., Gordon, J. M., Gazzara, M. R., Hung, C.-T., Lee, B., Barash, Y., & Neugebauer, K. M. (2025) · Genes & Development · doi:10.1101/gad.353081.125 · Cited by 4
Self-citation
Endocrine Examples of Phase Separation in Biology
Fargason, T., & Liu, X. (2025) · Endocrinology · doi:10.1210/endocr/bqaf158 · Cited by 3
NELF prevents transcriptional readthrough into DNA replication zones in cancer cells
Nakayama, C., Fang, Q., Daigaku, Y., Aoi, Y., Ito, S., Takahashi, M., Shimatani, R., Minamisawa, T., Ozturk, Y., Kimura, H., et al. (2026) · EMBO Reports · doi:10.1038/s44319-026-00700-z · Cited by 3
Genome-wide kinetic profiling of pre-mRNA 3′ end cleavage
Torres-Ulloa, L., Calvo-Roitberg, E., & Pai, A. A. (2023) · RNA · doi:10.1261/rna.079783.123 · Cited by 3
Profiling of Nascent Lariat Intermediates Reveals Key Genetic Determinants of the Timing of Human Co-transcriptional SplicingPreprint
Zeng, Y., Zeng, H., Fair, B. J., Krishnamohan, A., Hou, Y., Hall, J. M., Ruthenburg, A. J., Li, Y., & Staley, J. P. (2021) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2021.10.18.464728 · Cited by 3
Predicting cell type-specific coverage profiles from DNA sequencePreprint
Linder, J., Yuan, H., & Kelley, D. R. (2025) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2025.06.10.658961 · Cited by 5
Oncogenic DEAD-box ATPase DDX41 establishes transcript ensembles via CLK3-dependent and -independent mechanisms
Kim, J.-A., Shen, S., Jurotich, C. M., D'Souza, S. S., Caldon, J. J., Slukvin, I. I., Churpek, J. E., Keleş, S., & Bresnick, E. H. (2025) · Nature Communications · doi:10.1038/s41467-025-65195-z · Cited by 2
SF3B1 mutations in spliceosome-driven tumorigenesis: From splicing dysregulation to signaling network rewiring and therapeutic targeting
Yang, T., Qian, R., Sun, X., Hu, X., & Wan, Y. (2025) · Biochimica et Biophysica Acta (BBA) - Reviews on Cancer · doi:10.1016/j.bbcan.2025.189521 · Cited by 3
CPSF73 activation and 3′ RNA polymerase II pausing are lost during readthrough transcription after heat shock
Walsh, K. E., Goodrich, J. A., & Kugel, J. F. (2026) · Cell Reports · doi:10.1016/j.celrep.2026.117039 · Cited by 2
Antisense oligonucleotides targeting transcription termination windows disrupt mRNA 3’ end processing and decrease gene expression
Winczura, K., Joenson, L., Koller, E., Grzechnik, P., & Kielpinski, L. J. (2026) · Nature Communications · doi:10.1038/s41467-026-78516-7 · Cited by 2
TGS1 controls snRNA 3’ end processing, prevents neurodegeneration and ameliorates SMN -dependent neurological phenotypes in vivoPreprint
Chen, L., Roake, C. M., Maccallini, P., Bavasso, F., Dehghannasiri, R., Santonicola, P., Mendoza-Ferreira, N., Scatolini, L., Rizzuti, L., Esposito, A., et al. (2020) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2020.10.27.356782 · Cited by 2
pA regulator: a system for controlling mammalian gene expression via the modulation of polyA signal cleavagePreprint
Luo, L., Jea, J. D.-Y., Wang, Y., Chao, P.-W., & Yen, L. (2023) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2023.01.27.525935 · Cited by 2
NELF coordinates Pol II transcription termination and DNA replication initiationPreprint
Nojima, T., Nakayama, C., Daigaku, Y., Aoi, Y., Fang, Q., Kimurâ, H., Shilatifard, A., & Tellier, M. (2024) · Research Square · doi:10.21203/rs.3.rs-3991504/v1 · Cited by 2
Exploring transcription modalities from bimodal, single-cell RNA sequencing data
Regényi, E., Mashreghi, M., Schütte, C., & Sunkara, V. (2024) · NAR Genomics and Bioinformatics · doi:10.1093/nargab/lqae179 · Cited by 1
The spatial choreography of mRNA biosynthesis
Ventura-Gomes, A., & Carmo‐Fonseca, M. (2025) · Journal of Cell Science · doi:10.1242/jcs.263504 · Cited by 1
Co-transcriptional gene regulation in plants
Wu, M., Zhu, D., & Wu, Z. (2025) · aBIOTECH · doi:10.1016/j.abiote.2025.100006 · Cited by 2
The Goldilocks state of transcriptional readthrough for chimeric splicing
Chanfreau, G. (2026) · Transcription · doi:10.1080/21541264.2026.2642485 · Cited by 1
Splicing deficiency is driven by genomic erosion in non-recombining algal mating-type chromosomes
Condon, C. J., Galvez, A., Kramer, A., Gozashti, L., Vollmers, C., Ares, M., & Corbett-Detig, R. B. (2026) · PLoS Biology · doi:10.1371/journal.pbio.3003823 · Cited by 1
Novel transferrin gene mutations in four new cases of congenital Atransferrinaemia: Functional and diagnostic pathogenicity despite negative bioinformatics
Romero‐Cortadellas, L., Ferrer-Cortés, X., Calvo‐López, L., Olivella, M., Barqué, A., de Heredia, C. D., Moser, K., Budde, I. K., & Sánchez, M. (2024) · British Journal of Haematology · doi:10.1111/bjh.19675 · Cited by 1
Widespread occurrence of hybrid internal-terminal exons in human transcriptomesPreprint
Fiszbein, A., McGurk, M. P., Calvo-Roitberg, E., Kim, G., Burge, C. B., & Pai, A. A. (2021) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2021.05.27.446076 · Cited by 1
Single-nuclei isoform RNA sequencing reveals combination patterns of transcript elements across human brain cell typesPreprint
Hardwick, S. A., Hu, W., Joglekar, A., Fan, L., Collier, P. G., Foord, C., Balacco, J., Belchikov, N., Jarroux, J., Prjibelski, A. D., et al. (2021) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2021.12.29.474385 · Cited by 1
Meta-analysis of activated neurons reveals dynamic regulation of diverse classes of alternative splicingPreprint
Krick, K. S., Maroni, M. J., Korb, E., Lynch, K. W., & Heller, E. A. (2025) · Genome Research · doi:10.1101/gr.280082.124 · Cited by 1
Control of gene output by intron RNA structurePreprint
Schärfen, L., Bech, P., Podszywalow‐Bartnicka, P., & Neugebauer, K. M. (2025) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2025.11.08.687378 · Cited by 1
Self-citation
Ptbp1-Activateded Co-Transcriptional Splicing Controls Epigenetic Status of Pluripotent Stem CellsPreprint
Iannone, C., Kainov, Y. A., Zhuravskaya, A., Hamid, F., Nojima, T., & Makeyev, E. V. (2022) · SSRN Electronic Journal · doi:10.2139/ssrn.4058691
Cytoplasmic mRNA levels are regulated by a combination of chromatin retention and RNA stabilityPreprint
Henfrey, C., Murphy, S., & Tellier, M. (2022) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2022.10.24.513557
Genome-wide kinetic profiling of pre-mRNA 3’ end cleavagePreprint
Torres-Ulloa, L., Calvo-Roitberg, E., & Pai, A. A. (2023) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2023.06.21.545926
Post-transcriptional splicing can occur in a slow-moving zone around the genePreprint
Coté, A., O’Farrell, A., Dardani, I. P., Dunagin, M. C., Coté, C., Wan, Y., Bayatpour, S., Drexler, H. L., Alexander, K. A., Chen, F., et al. (2023) · eLife · doi:10.7554/elife.91357.1
Author Response: Post-transcriptional splicing can occur in a slow-moving zone around the gene
Coté, A., O’Farrell, A., Dardani, I. P., Dunagin, M. C., Coté, C., Wan, Y., Bayatpour, S., Drexler, H. L., Alexander, K. A., Chen, F., et al. (2023) · eLife · doi:10.7554/elife.91357.2.sa3
Reviewer #1 (Public Review): Post-transcriptional splicing can occur in a slow-moving zone around the gene
(2023) · eLife · doi:10.7554/elife.91357.2.sa1
Additional file 4 of Landscape of transcription termination in Arabidopsis revealed by single-molecule nascent RNA sequencing
Mo, W., Liu, B., Zhang, H., Jin, X., Lu, D., Yu, Y., Liu, Y., Jia, J., Long, Y., Deng, X. M., et al. (2021) · Figshare · doi:10.6084/m9.figshare.17083790
Additional file 2 of Coupling of co-transcriptional splicing and 3’ end Pol II pausing during termination in Arabidopsis
Zhou, S., Zhao, F., Zhu, D., Zhang, Q., Dai, Z., & Wu, Z. (2023) · Figshare · doi:10.6084/m9.figshare.24123747
Additional file 2 of Landscape of transcription termination in Arabidopsis revealed by single-molecule nascent RNA sequencing
Mo, W., Liu, B., Zhang, H., Jin, X., Lu, D., Yu, Y., Liu, Y., Jia, J., Long, Y., Deng, X. M., et al. (2021) · Figshare · doi:10.6084/m9.figshare.17083775
Additional file 3 of Landscape of transcription termination in Arabidopsis revealed by single-molecule nascent RNA sequencing
Mo, W., Liu, B., Zhang, H., Jin, X., Lu, D., Yu, Y., Liu, Y., Jia, J., Long, Y., Deng, X. M., et al. (2021) · Figshare · doi:10.6084/m9.figshare.17083781
Insights in RNA: 2022
(2024) · Frontiers research topics · doi:10.3389/978-2-8325-4801-1
Microscopy analysis of delayed co-transcriptional splicing in highly expressed thyroglobulin genePreprint
Ullrich, S., Nadelson, I., Krebs, S., Blum, H., Leonhardt, H., & Solovei, I. V. (2024) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2024.06.04.597307
Isoform and pathway-specific regulation of post-transcriptional RNA processing in human cellsPreprint
Bedi, K., Magnuson, B., Narayanan, I. V., McShane, A., Ashaka, M., Paulsen, M. T., Wilson, T. E., & Ljungman, M. E. (2024) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2024.06.12.598705 · Cited by 1
Notch induces transcription by stimulating release of paused RNA Pol II without increasing chromatin accessibilityPreprint
Rogers, J. M., Mimoso, C. A., Martin, B. J. E., Martin, A. P. J., Aster, J. C., Adelman, K., & Blacklow, S. C. (2024) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2024.06.13.598853
Self-citation
Nascent mRNA damage: depot and disposal
Helm, M., & Winz, M. (2024) · Signal Transduction and Targeted Therapy · doi:10.1038/s41392-024-01900-6
InPAS: An R/Bioconductor Package for Identifying Novel Polyadenylation Sites and Alternative Polyadenylation from Bulk RNA-seq Data
Ou, J., Liu, H., Park, S., Green, M. R., & Zhu, L. J. (2024) · Frontiers in Bioscience-Scholar · doi:10.31083/j.fbs1604021
Co-transcriptional splicing is delayed in the highly expressed thyroglobulin gene
Ullrich, S., Nadelson, I., Krebs, S., Blum, H., Leonhardt, H., & Solovei, I. V. (2025) · Journal of Cell Science · doi:10.1242/jcs.263872
Correlated protein-RNA associations and a requirement for HNRNPU in long-range Polycomb recruitment by the lncRNAs Airn and Kcnq1ot1Preprint
Murvin, M. M., Li, S., Abrash, E. W., Peck, B. A., Boyson, S. P., Zhang, Z., Cherney, R. E., & Calabrese, J. M. (2025) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2025.07.16.665154
Improving confidence of differential transcription calls in enhancersPreprint
Townsend, H. A., Stanley, J. T., Allen, M. A., & Dowell, R. D. (2025) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2025.09.12.675852
A widely prevalent hemoglobin beta mutation among beta-thalassemia patients in Assiut University Hospitals
Kassem, A. M., Saber, A., Afifi, O., Elsayh, K. I., & Khalil, M. S. M. (2025) · The Egyptian Journal of Haematology · doi:10.4103/ejh.ejh_10_25
Extensive splicing deficiency in a degenerating mating-type chromosomePreprint
Condon, C. J., Galvez, A., Krämer, A., Gozashti, L., Vollmers, C., Ares, M., & Corbett-Detig, R. B. (2025) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2025.12.09.693058
Additional file 6 of miR-430 regulates zygotic mRNA during zebrafish embryogenesis
Baia Amaral, D., Egidy, R., Perera, A. G., & Bazzini, A. (2024) · Figshare · doi:10.6084/m9.figshare.26695326
Additional file 5 of Landscape of transcription termination in Arabidopsis revealed by single-molecule nascent RNA sequencing
Mo, W., Liu, B., Zhang, H., Jin, X., Lu, D., Yu, Y., Liu, Y., Jia, J., Long, Y., Deng, X. M., et al. (2021) · Figshare · doi:10.6084/m9.figshare.17083799
Additional file 1 of Coupling of co-transcriptional splicing and 3’ end Pol II pausing during termination in Arabidopsis
Zhou, S., Zhao, F., Zhu, D., Zhang, Q., Dai, Z., & Wu, Z. (2023) · Figshare · doi:10.6084/m9.figshare.24123741
Additional file 4 of miR-430 regulates zygotic mRNA during zebrafish embryogenesis
Baia Amaral, D., Egidy, R., Perera, A. G., & Bazzini, A. (2024) · Figshare · doi:10.6084/m9.figshare.26695320
Additional file 1 of miR-430 regulates zygotic mRNA during zebrafish embryogenesis
Baia Amaral, D., Egidy, R., Perera, A. G., & Bazzini, A. (2024) · Figshare · doi:10.6084/m9.figshare.25440983
Additional file 2 of miR-430 regulates zygotic mRNA during zebrafish embryogenesis
Baia Amaral, D., Egidy, R., Perera, A. G., & Bazzini, A. (2024) · Figshare · doi:10.6084/m9.figshare.25441028
Additional file 5 of miR-430 regulates zygotic mRNA during zebrafish embryogenesis
Baia Amaral, D., Egidy, R., Perera, A. G., & Bazzini, A. (2024) · Figshare · doi:10.6084/m9.figshare.26695323
Additional file 7 of miR-430 regulates zygotic mRNA during zebrafish embryogenesis
Baia Amaral, D., Egidy, R., Perera, A. G., & Bazzini, A. (2024) · Figshare · doi:10.6084/m9.figshare.26695329
Additional file 1 of Landscape of transcription termination in Arabidopsis revealed by single-molecule nascent RNA sequencing
Mo, W., Liu, B., Zhang, H., Jin, X., Lu, D., Yu, Y., Liu, Y., Jia, J., Long, Y., Deng, X., et al. (2021) · Figshare · doi:10.6084/m9.figshare.17083772
Additional file 3 of Coupling of co-transcriptional splicing and 3’ end Pol II pausing during termination in Arabidopsis
Zhou, S., Zhao, F., Zhu, D., Zhang, Q., Dai, Z., & Wu, Z. (2023) · Figshare · doi:10.6084/m9.figshare.24123750
Additional file 3 of miR-430 regulates zygotic mRNA during zebrafish embryogenesis
Baia Amaral, D., Egidy, R., Perera, A. G., & Bazzini, A. (2024) · Figshare · doi:10.6084/m9.figshare.26695317
Nascent transcripts of LL2R tandem repeat nucleate locus-specific RNP-condensates recruiting splicing factorsPreprint
Krasikova, A., Zlotina, A. M., Kulikova, T., Schubert, V., & Fedorov, A. V. (2026) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2026.03.19.712899
Pre-mRNA 3'-end polyadenylation : impact on UV-induced DNA damage and on the translatability of immune-related genes
Biswas, B. (2022) · theses.fr (ABES) · doi:10.70675/187424b5z872bz46bcz9e90za49cf5fb8269
Intrinsically disordered regions facilitate Mlp1–Nab2 recognition in mRNA quality control
Soheilypour, M., Peyro, M., Shams, H., & Mofrad, M. R. K. (2026) · Nucleus · doi:10.1080/19491034.2026.2680376
Improving calls of differentially transcribed enhancers and their upstream regulators
Townsend, H. A., Stanley, J. T., Allen, M. A., & Dowell, R. D. (2026) · Bioinformatics Advances · doi:10.1093/bioadv/vbag162 · Cited by 1
Co-transcriptional splicing: Distinct phases, mutual benefits, and basis for nuclear architecture
Shao, C., Zhang, Z., & Fu, X. (2026) · Trends in Genetics · doi:10.1016/j.tig.2026.05.016
Correlated protein-RNA associations and a requirement for HNRNPU in the long-range recruitment of Polycomb Repressive Complexes by the lncRNAs Airn and Kcnq1ot1
Murvin, M. M., Li, S., Abrash, E. W., Peck, B. A., Boyson, S. P., Zhang, Z., Cherney, R. E., & Calabrese, J. M. (2026) · PLoS Genetics · doi:10.1371/journal.pgen.1012215
SERIPH: a two-step extraction protocol for selective enrichment of semi-extractable RNAs
Fujiwara, N., Iwakiri, J., Zeng, C., Kohsho, D., Asai, K., Hamada, M., & Hirose, T. (2026) · RNA · doi:10.1261/rna.081061.126
Splicing dependency between EIF4G2 introns is mediated by exon definition and relies on a downstream splicing event
Pelletier, M.-L., Vincent, J., Malo, T., Séguin, C., Tsybulskyi, V., Semenchenko, E., Amadou, I. S., Meyer, I. M., & Choquet, K. (2026) · Journal of Biological Chemistry · doi:10.1016/j.jbc.2026.113304
Coordinated pre-mRNA processing at the single-transcript level
Sen, L. P., & Neugebauer, K. M. (2026) · Trends in Genetics · doi:10.1016/j.tig.2026.06.005
Self-citation
Hierarchical regulation and molecular functions of co-transcriptional splicing
Niu, R., Zhang, A., Rosenfeld, M. G., Fu, X.-D., & Hao, Y. (2026) · 中国科学通报：英文版 · doi:10.1016/j.scib.2026.07.025
The periphery of nuclear speckles defines a spatially and temporally regulated compartment of long-lived intron-retained RNAs that resolves during mitosis
Biayna, J., Baranovskii, A., Chaudhuri, A., Paladin, M., Erdem, B., Keller, L.-E., Barutcu, A. R., Dimmeler, S., Marsico, A., & Dumbović, G. (2026) · Nature Cell Biology · doi:10.1038/s41556-026-02040-5
An RNA splicing–translation circuit for hematopoietic fate
Biancon, G. (2026) · Blood · doi:10.1182/blood.2026035200
The strength of a gene’s first 5’ splice site is a key determinant of its expressionPreprint
Sakai, Y., McGurk, M. P., Kowal, E. J. K., Huang, E., & Burge, C. B. (2026) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2026.09.28.754465

Authors: Reimer, K. A., Mimoso, C. A., Adelman, K., & Neugebauer, K. M.
Affiliations: Yale University (US)
Harvard University (US)
Corresponding author: Neugebauer, Karla M.
ORCID: Reimer, Kirsten A.
Mimoso, Claudia A.
Adelman, Karen
Neugebauer, Karla M.
Venue: Molecular Cell
Publisher: Elsevier BV
Published: 2021-03
Volume: 81
Issue: 5
Pages: 998-1012.e7
ISSN: 1097-2765 (ISSN-L)
DOI: 10.1016/j.molcel.2020.12.018
PMC: PMC8038867
OpenAlex: W3121080183
Cited by: 180
References: 102
Citations by year: 2026: 21 · 2025: 26 · 2024: 41 · 2023: 31 · 2022: 34 · 2021: 22
FWCI: 10.52
Type: journal article
Language: en
Open access: bronze
doi.org
Licence: www.elsevier.com/tdm/userlicense/1.0/ (tdm)
www.elsevier.com/legal/tdmrep-license (tdm)
www.elsevier.com/open-access/userlicense/1.0/ (vor, 368 d)
Locations: Molecular Cell (publishedVersion)
bioRxiv (Cold Spring Harbor Laboratory) (acceptedVersion, cc-by-nc-nd)
PubMed (publishedVersion)
PubMed Central (acceptedVersion)
Funders: National Institutes of Health
Topics: Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › RNA Research and Splicing
Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › RNA and protein synthesis mechanisms
Health Sciences › Medicine › Genetics (clinical) › Hemoglobinopathies and Related Disorders
Keywords: co-transcriptional splicing, 3' end cleavage, erythropoiesis, pre-mRNA processing, transcription elongation, RNA polymerase II, 3' splice site, splicing intermediates, intron retention, splicing efficiency, thalassemia, beta-globin, cryptic splice site, nascent RNA
MeSH terms: Animals, Base Sequence, Cell Differentiation, Erythropoiesis, Exons, Humans, Introns, Leukocytes, Mutation, RNA Polymerase II, RNA Splicing, beta-Thalassemia, Spliceosomes, RNA Splice Sites, Erythroid Cells, Cell Line, Tumor, Mice, beta-Globins, RNA Cleavage, Transcription Elongation, Genetic

About these checks

Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.

Statistics and arithmetic are recomputed, not judged.

Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.

What counts as a claim ›How we measure confidence ›How we check this ›

Are you an author, or do you see a problem with this page? Request a review

Co-transcriptional splicing regulates 3′ end cleavage during mammalian erythropoiesis

Abstract

Overview

Integrity signals

Verification

Claims the paper makes

Claims other papers make about this one

Self-check

Citations

Cites

Cited by

Related

Metadata

Record

About these checks