ArticleNucleic acids research2007
POGs/PlantRBP: a resource for comparative genomics in plants.
Article in Nucleic acids research, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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Who cites it
16 citing papers in PubMed.
- Emerging Roles of RNA-Binding Proteins in Seed Development and Performance.International journal of molecular sciences · 2020Review
- Reconstruction of the Evolutionary Histories of UGT Gene Superfamily in Legumes Clarifies the Functional Divergence of Duplicates in Specialized Metabolism.International journal of molecular sciences · 2020Article
- Prokaryotic Virus Orthologous Groups (pVOGs): a resource for comparative genomics and protein family annotation.Nucleic acids research · 2017Article
- Chlorophyte aspartyl aminopeptidases: Ancient origins, expanded families, new locations, and secondary functions.PloS one · 2017Article
- Physiological Characterization and Comparative Transcriptome Analysis of White and Green Leaves of Ananas comosus var. bracteatus.PloS one · 2017Article
- Developmental dynamics of Kranz cell transcriptional specificity in maize leaf reveals early onset of C4-related processes.Journal of experimental botany · 2014Article
- The most deeply conserved noncoding sequences in plants serve similar functions to those in vertebrates despite large differences in evolutionary rates.The Plant cell · 2014Article
- Article
- POGs2: a web portal to facilitate cross-species inferences about protein architecture and function in plants.PloS one · 2013Article
- RiceRBP: A Resource for Experimentally Identified RNA Binding Proteins in Oryza sativa.Frontiers in plant science · 2012Article
- The pentatricopeptide repeat protein OTP87 is essential for RNA editing of nad7 and atp1 transcripts in Arabidopsis mitochondria.The Journal of biological chemistry · 2011Article
- Phylogenetic and expression analysis of RNA-binding proteins with triple RNA recognition motifs in plants.Molecules and cells · 2011Article
- AtnMat2, a nuclear-encoded maturase required for splicing of group-II introns in Arabidopsis mitochondria.RNA (New York, N.Y.) · 2009Article
- A comparative genomics approach identifies a PPR-DYW protein that is essential for C-to-U editing of the Arabidopsis chloroplast accD transcript.RNA (New York, N.Y.) · 2009Article
- GreenPhylDB: a database for plant comparative genomics.Nucleic acids research · 2008Article
- A ribonuclease III domain protein functions in group II intron splicing in maize chloroplasts.The Plant cell · 2007Article
Corrections and comments
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
POGs/PlantRBP (http://plantrbp.uoregon.edu/) is a relational database that integrates data from rice, Arabidopsis, and maize by placing the complete Arabidopsis and rice proteomes and available maize sequences into 'putative orthologous groups' (POGs). Annotation efforts will focus on predicted RNA binding proteins (RBPs): i.e. those with known RNA binding domains or otherwise implicated in RNA function. POGs form the heart of the database, and were assigned using a mutual-best-hit-strategy after performing BLAST comparisons of the predicted Arabidopsis and rice proteomes. Each POG entry includes orthologs in Arabidopsis and rice, annotated with domain organization, gene models, phylogenetic trees, and multiple intracellular targeting predictions. A graphical display maps maize sequences on to their most similar rice gene model. The database can be queried using any combination of gene name, accession, domain, and predicted intracellular location, or using BLAST. Useful features of the database include the ability to search for proteins with both a specified domain content and intracellular location, the concurrent display of mutual best hits and phylogenetic trees which facilitates evaluation of POG assignments, the association of maize sequences with POGs, and the display of targeting predictions and domain organization for all POG members, which reveals consistency, or lack thereof, of those predictions.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.