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ERPIN specifications


Unique identifier OMICS_07084
Alternative name Easy RNA Profile IdentificatioN
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Version 5.4
Stability Stable
Maintained No


No version available

Publication for Easy RNA Profile IdentificatioN

ERPIN citations


Global transcriptional landscape and promoter mapping of the gut commensal Bifidobacterium breve UCC2003

BMC Genomics
PMCID: 5746004
PMID: 29281966
DOI: 10.1186/s12864-017-4387-x

[…] s a stem-loop structure followed by a poly-T sequence [, ]. Rho-independent transcriptional termination signals can be predicted by particular on-line tools such as ARNold, which employs RNAMotif and Erpin tools ( [].Bifidobacteria enjoy an ever increasing scientific interest due to the purported beneficial effects they elicit on their (human) host []. H […]


A Genome Wide Prediction and Identification of Intergenic Small RNAs by Comparative Analysis in Mesorhizobium huakuii 7653R

Front Microbiol
PMCID: 5596092
PMID: 28943874
DOI: 10.3389/fmicb.2017.01730

[…] dent terminators were implemented with RNAMotif 3.0.7 (, TransTermHP 2.09 (, FindTerm ( and Erpin 5.4 ( Searches for known functional RNA sequences among the predicted sRNAs were conducted within the Rfam database using Rfam, version 12.0 ( […]


Iron regulated small RNA expression as Neisseria gonorrhoeae FA 1090 transitions into stationary phase growth

BMC Genomics
PMCID: 5399841
PMID: 28431495
DOI: 10.1186/s12864-017-3684-8

[…] ′ and 3′ to each putative sRNA. These regions were screened for the presence of putative promoter motif using Promoter Prediction by PBROM (Softberry) [] and a rho independent terminator with ARNold (Erpin and RNAmotif programs). For prediction of FB motifs in FA 1090, we used a training set of 23 sequences previously shown to bind Fur in vitro by EMSA and/or in vivo in a FurTA assay to generate a […]


The isolation and characterization of Stenotrophomonas maltophilia T4 like bacteriophage DLP6

PLoS One
PMCID: 5349666
PMID: 28291834
DOI: 10.1371/journal.pone.0173341

[…] ontains many proteins involved in DNA replication and homologous recombination.Rho-independent transcription termination sites were discovered using ARNold, which utilizes two complementary programs, Erpin [] and RNAmotif []. Of the 54 potential termination sites identified, only 19 were retained as authentic because they had a ΔG of -10 kcal/mol or less (). The 19 terminators were found downstrea […]


Characterization of Novel Bacteriophages for Biocontrol of Bacterial Blight in Leek Caused by Pseudomonas syringae pv. porri

Front Microbiol
PMCID: 4791379
PMID: 27014204
DOI: 10.3389/fmicb.2016.00279

[…] ograms ARAGORN and tRNAscanSE (Lowe and Eddy, ; Laslett and Canback, ). Rho-independent terminators were predicted with ARNold, a search program that combines two complementary programs: RNAMotif and Erpin (Gautheret and Lambert, ; Macke et al., ). Probable promoter sequences were identified by looking for conserved intergenic motifs in the 100 bp upstream of every ORF with MEME and PHIRE (Lavigne […]


Discovery and profiling of small RNAs responsive to stress conditions in the plant pathogen Pectobacterium atrosepticum

BMC Genomics
PMCID: 4710047
PMID: 26753530
DOI: 10.1186/s12864-016-2376-0

[…] RNAspace platform were restricted to comparative analysis and homology searches using BLAST/ YASS (sequence homology tools) against the Rfam 10.0 seed database and three RNA motif search tools, DARN, ERPIN and INFERNAL. In total, 68 sRNAs representing true (and/or known), previously described sRNA sequences were assigned into 6 functional classes (E-value < 0.001), and these included: 1 ribozyme, […]


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ERPIN institution(s)
CNRS UMR 6207, Université de la Méditerranée, Marseille, France

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