Database Authors: Peter D. Karp1, Anamika Kothari1, Suzanne Paley1, Markus Krummenacker1, Ian Paulsen2, Amanda Mackie2, Lisa Moore1, Julio Collado-Vides3, Cesar Bonavides-Martinez3, Socorro Gama-Castro3, Alberto Santos-Zavaleta3, Victor H Tierrafria3, Paloma Lara Figueroa3
1SRI International, 2Macquarie University, 3Centro de Ciencias Genomicas, Universidad Nacional Autonoma de Mexico
Summary:
EcoCyc is a model-organism database for Escherichia coli K-12 MG1655. For more information, see URL EcoCyc.org.
The E. coli genome sequence used in EcoCyc has been updated from version 2 to version 3, GenBank accession number U00096.3, for release 20.0 of EcoCyc. Despite the involvement of EcoCyc staff in ongoing updates to the U00096 record, some annotation differences may be found between U00096 and EcoCyc, such as due to recent updates to EcoCyc.
Citations:
[Keseler21]
Taxonomic Lineage: cellular organisms, Bacteria <bacteria>, Pseudomonadota, Gammaproteobacteria, Enterobacterales, Enterobacteriaceae, Escherichia, Escherichia coli, Escherichia coli K-12, Escherichia coli K-12 substr. MG1655
Synonyms: Escherichia coli K-12 substr. MG1655
Unification Links: GOLD:Gp0072557, NCBI-Taxonomy:511145
Organism or Sample Properties | |
Relationship to Oxygen: | facultative |
Temperature Range: | mesophile |
NCBI Genome Type: | reference |
Replicon | Total Genes | Protein Genes | RNA Genes | Pseudogenes | Size (bp) | NCBI Link |
Chromosome | 4,702 | 4,328 | 228 | 146 | 4,641,652 | NCBI-GenBank:U00096.3 |
Genes without a physical map position: | 2 | |||||
Ortholog data available? | Yes |
Genes: | 4,702 | ||
Pathways: | 367 | ||
Enzymatic Reactions: | 2,206 | ||
Transport Reactions: | 532 | ||
Polypeptides: | 4,468 | ||
Protein Complexes: | 1,170 | ||
Enzymes: | 1,717 | ||
Transporters: | 480 | ||
Compounds: | 2,975 | ||
Transcription Units: | 3,705 | ||
tRNAs: | 89 | ||
Growth Media: | 439 | ||
Transcriptional Regulation: | 5,782 | ||
Protein Features: | 41,505 | ||
Phenotype Microarray Datasets: | 5 | ||
GO Terms: | 68,931 | ||
Gene Essentiality Datasets: | 6 |
Genetic Code Number:
11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
PGDB Unique ID: 0
Copyright SRI International 1999-2023, Marine Biological Laboratory 1998-2001, DoubleTwist Inc 1998-1999. All Rights Reserved.
References
Report Errors or Provide Feedback
Please cite the following article in publications resulting from the use of EcoCyc: Frontiers in Microbiology 2021
Page generated by Pathway Tools version 27.0 (software by SRI International) on Mon Jun 5, 2023, BIOCYC14A.