UTRme: A Scoring-Based Tool to Annotate Untranslated Regions in Trypanosomatid Genomes

UTRme: A Scoring-Based Tool to Annotate Untranslated Regions in Trypanosomatid Genomes

Most signals involved in post-transcriptional regulatory networks are located in the untranslated regions (UTRs) of the mRNAs. Therefore, to deepen our understanding of gene expression regulation, delimitation of these regions with high accuracy is needed. The trypanosomatid lineage includes a varie...

Full description

Bibliographic Details
Main Authors:	Santiago Radío, Rafael Sebastián Fort, Beatriz Garat, José Sotelo-Silveira, Pablo Smircich
Format:	Article
Language:	English
Published:	Frontiers Media S.A. 2018-12-01
Series:	Frontiers in Genetics
Subjects:	post transcriptional regulation untranslated region UTR prediction software prediction score GUI
Online Access:	https://www.frontiersin.org/article/10.3389/fgene.2018.00671/full

Similar Items

Upstream ORFs Influence Translation Efficiency in the Parasite Trypanosoma cruzi
by: Santiago Radío, et al.
Published: (2020-02-01)

Untranslated regions (UTRs) are a potential novel source of neoantigens for personalised immunotherapy
by: Christopher C. T. Sng, et al.
Published: (2024-03-01)

Association of Dengue Virus Serotypes 1&2 with Severe Dengue Having Deletions in Their 3′Untranslated Regions (3′UTRs)
by: Deepti Maisnam, et al.
Published: (2023-03-01)

The 5′ and 3′ Untranslated Regions of the Flaviviral Genome
by: Wy Ching Ng, et al.
Published: (2017-06-01)

Circular RNAs and Untranslated Regions in Acute Myeloid Leukemia
by: Shih-Chia Yeh, et al.
Published: (2023-02-01)

pEVL: A Linear Plasmid for Generating mRNA IVT Templates With Extended Encoded Poly(A) Sequences
by: Alexandra E Grier, et al.
Published: (2016-01-01)

Characterization of the mRNA untranslated regions [UTR] of the Trypanosoma cruzi LYT1 isoforms derived by alternative trans-splicing
by: César Augusto Ramírez, et al.
Published: (2018-09-01)

The ODC 3′-Untranslated Region and 5′-Untranslated Region Contain cis-Regulatory Elements: Implications for Carcinogenesis
by: Shannon L. Nowotarski, et al.
Published: (2017-12-01)

Identification of Cryptic Promoter Activity in cDNA Sequences Corresponding to PRRSV 5′ Untranslated Region and Transcription Regulatory Sequences
by: Jayeshbhai Chaudhari, et al.
Published: (2022-02-01)

Untranslated Region Sequences and the Efficacy of mRNA Vaccines against Tuberculosis
by: Vasiliy Reshetnikov, et al.
Published: (2024-01-01)

Identification and Cross-Characterisation of Artificial Promoters and 5′ Untranslated Regions in Vibrio natriegens
by: Lisa Tietze, et al.
Published: (2022-01-01)

The untranslated regions of genes from Trypanosoma cruzi: perspectives for functional characterization of strains and isolates
by: Adeilton Brandão
Published: (2006-11-01)

Whole genome analysis reveals the genomic complexity in metastatic cutaneous squamous cell carcinoma
by: Amarinder Singh Thind, et al.
Published: (2022-08-01)

Combinatorial Minigenome Systems for Emerging Banyangviruses Reveal Viral Reassortment Potential and Importance of a Protruding Nucleotide in Genome “Panhandle” for Promoter Activity and Reassortment
by: Fuli Ren, et al.
Published: (2020-04-01)

The 5′ and 3′ Untranslated Regions of the Japanese Encephalitis Virus (JEV): Molecular Genetics and Higher Order Structures
by: Hong Liu, et al.
Published: (2021-10-01)

Regulatory 3′ Untranslated Regions of Bacterial mRNAs
by: Gai-Xian Ren, et al.
Published: (2017-07-01)

Effects of Combinations of Untranslated-Region Sequences on Translation of mRNA
by: Anna Kirshina, et al.
Published: (2023-11-01)

Current Status of Regulatory Non-Coding RNAs Research in the Tritryp
by: Rafael Sebastián Fort, et al.
Published: (2022-07-01)

Structural diversity and biological role of the 5’ untranslated regions of picornavirus
by: Tingyu Peng, et al.
Published: (2023-12-01)

The Roles of the 5′ and 3′ Untranslated Regions in Human Astrovirus Replication
by: Nicole Wildi, et al.
Published: (2023-06-01)

5’ and 3’ untranslated regions strongly enhance performance of geminiviral replicons in Nicotiana benthamiana leaves
by: Andrew G. Diamos, et al.
Published: (2016-02-01)

Uncovering a multitude of stage-specific splice variants and putative protein isoforms generated along mouse spermatogenesis
by: Carlos Romeo-Cardeillac, et al.
Published: (2024-03-01)

Systematic Evaluation of HLA-G 3’Untranslated Region Variants in Locally Advanced, Non-Metastatic Breast Cancer Patients: UTR-1, 2 or UTR-4 are Predictors for Therapy and Disease Outcome
by: Vera Rebmann, et al.
Published: (2022-01-01)

A novel extended form of alpha-synuclein 3′UTR in the human brain
by: Goun Je, et al.
Published: (2018-05-01)

A new model of the mechanism underlying lead poisoning: SNP in miRNA target region influence the AGT expression level
by: Yu Wu, et al.
Published: (2019-01-01)

Intrinsic DNA curvature in trypanosomes
by: Pablo Smircich, et al.
Published: (2017-11-01)

Ribosome Recycling by ABCE1 Links Lysosomal Function and Iron Homeostasis to 3ʹ UTR-Directed Regulation and Nonsense-Mediated Decay
by: Xiaoqiang Zhu, et al.
Published: (2020-07-01)

Transcriptome-wide analysis of the Trypanosoma cruzi proliferative cycle identifies the periodically expressed mRNAs and their multiple levels of control.
by: Santiago Chávez, et al.
Published: (2017-01-01)

Following Ribosome Footprints to Understand Translation at a Genome Wide Level
by: Guillermo Eastman, et al.
Published: (2018-01-01)

Comparative Analysis of Novel Strains of Porcine Astrovirus Type 3 in the USA
by: Franco Matias Ferreyra, et al.
Published: (2021-09-01)

A curated census of pathogenic and likely pathogenic UTR variants and evaluation of deep learning models for variant effect prediction
by: Emma Bohn, et al.
Published: (2023-09-01)

Functional Link between miR-200a and ELK3 Regulates the Metastatic Nature of Breast Cancer
by: Hyung-Keun Kim, et al.
Published: (2020-05-01)

AU-Rich Long 3′ Untranslated Region Regulates Gene Expression in Bacteria
by: Ju-Ping Zhao, et al.
Published: (2018-12-01)

vtRNA2-1/nc886 Produces a Small RNA That Contributes to Its Tumor Suppression Action through the microRNA Pathway in Prostate Cancer
by: Rafael Sebastián Fort, et al.
Published: (2020-02-01)

Functional Genomics of Axons and Synapses to Understand Neurodegenerative Diseases
by: Andres Di Paolo, et al.
Published: (2021-06-01)

Extensive Translational Regulation through the Proliferative Transition of Trypanosoma cruzi Revealed by Multi-Omics
by: Santiago Chávez, et al.
Published: (2021-10-01)

Cisplatin Relocalizes RNA Binding Protein HuR and Enhances the Oncolytic Activity of E4orf6 Deleted Adenovirus
by: Umma Habiba, et al.
Published: (2020-03-01)

Function analysis of 5′-UTR of the cellulosomal xyl-doc cluster in Clostridium papyrosolvens
by: Xia Zou, et al.
Published: (2018-02-01)

Staphylococcus aureus ftnA 3’-Untranslated Region Modulates Ferritin Production Facilitating Growth Under Iron Starvation Conditions
by: Pilar Menendez-Gil, et al.
Published: (2022-04-01)

Study of Three Single Nucleotide Polymorphisms in the Slc6a14 Gene in Association with Male Infertility
by: Noveski P., et al.
Published: (2014-12-01)