Quick Guide to the Genome Database

Flavobacterium psychrophilum JIP02/86 genome BLAST server

THE GENOME VIEW allows you:

To choose and display (zoom in/out) a chromosomal region

To click on a Gene to display the Contig Analysis Manager

Go to Genome Atlas with functional classification

THE PAREO METABOLIC PATHWAYS allows you:

To compare Flavobacterium psychrophilum pathways with a Reference Organism

To choose a Color code for enzyme comparison

To select a metabolic pathway to display within the list

To navigate the KEGG-related PAREO database

In PAM (Protein Analysis Manager), select the "external tools" menu, then the Metabolism comparison for Flavobacterium psychrophilum to pre-fill the fictive specie form of pareo with all annotated Enzymes of F. psychrophilum. You can then compare this fictive specie with metabolism pathways of all known complete genomes contained in Kegg.

THE CONTIG ANALYSIS MANAGER allows you:

To navigate (Step by Step) within a defined window size

To navigate by Features/Qualifiers and DNA/Protein motifs

To display translated frames (best viewed with 200 bp/line)

To search for DNA motifs using (Unix) regular expressions

To display Annotation Data Forms

To access the Protein Analysis Manager data (PAM)

Go to Contig Analysis Manager (Public server)

View whole genome using Artemis

(Private server for Annotators - MuGeN)

(Private server for Annotators - Artemis)

THE PROTEIN ANALYSIS MANAGER allows you:

To browse the protein database by Protein Sources

To Search the database for Annotations

To link with Swissprot - Interpro - CDD... databases

To see the corresponding BLAST alignments (E-values)

To navigate KEGG metabolic pathways (PAREO)

To get to the Contig Analysis Manager data (CAM)

Go to Protein Analysis Manager (Public server)

(Private server for Annotators)