| More docs on the ARB website. See also index of helppages. Last update on 27. Jun 2017 .

Main topics:

- ARB: a Short Introduction
- Glossary
- ARB_NT Main Window
- How to start ARB_EDIT4
- INFO MODE
- Protection Level
- Search Database for Species
- Set protection level

Related topics:

- Reorder Fields
- Delete Fields
- Create a Field
- Delete Species/Gene
- Rename Species/Gene
- Copy Species/Gene
- Create Species
- Convert Species to SAI
- Scan Database for all Fields

# SPECIES INFORMATION

- OCCURRENCE
- DESCRIPTION
- NOTES
- Locking information window to a specific species
- STANDARD ENTRIES
- EXAMPLES
- WARNINGS
- BUGS

## OCCURRENCE

### ARB_NT/<INFO> button (top area; showing the short name of the selected species)

### ARB_NT/Species/Species Information

### ARB_NT/Species/Search (click into result list)

### ARB_NT/Info mode button (in the button bar on the left side)

## DESCRIPTION

### Displays species information stored within the 'fields' (see ´Glossary´).

### The particular 'species' (see ´Glossary´) can be 'marked' or 'unmarked' (see ´Glossary´) by pressing the checkbox after the 'Marked?' prompt.

### Editing of 'field' entries is enabled or prevented by pressing the 'Edit enabled?' checkbox.

### The entries of a 'field' are modified by choosing it from the 'DATABASE FIELDS' subwindow and modifying the entries displayed in the 'Edit box' subwindow.

## NOTES

### The 'SEARCH & QUERY' window can be displayed by pressing the <SEARCH> button.

### For modification of 'field' entries, a protection level has to be selected from the Protection menu of the main window (ARB_NT/Protection) equal to or higher than that assigned to the selected 'field'

### Cut and paste of the window system can be used in the 'Edit box' subwindow. This provides is an easy way to export/import sequences. Use the left mouse button to mark (cut is done automatically). Then use the middle mouse button to paste.

## Locking information window to a specific species

### When you open this window it will always show the information of the currently selected species. That means if you select another species (in the tree or in the editor) this window will follow your selection and display the information of the newly selected species.

### By pressing the 'New window...' button you will open a second information window which will be LOCKED TO the currently selected species. That second information window will NOT FOLLOW the selected species (as the primary information window does). Instead of the 'New window...' button, it shows an 'Update' button. Pressing the 'Update' button will change the displayed species to the species currently selected.

### You can distinguish the two types of information windows by their window title: the LOCKED infowindow contains the name of the LOCKED species, the "normal" infowindow is entitled 'Species Information'.

## STANDARD ENTRIES

### The following database entries have a special meaning in ARB:

    name            unique species ID (generated by ARB)
    full_name       full species name (generated by the user)
    acc             Accession number (automatically generated by ARB if missing)

### Entries relevant for DNA->AminoAcid encoding:

    codon_start     contains the base inside the gene at which the
                    first codon starts (valid: 1,2,3)
                    if this entry is missing 1 is assumed
    transl_table    the number of the translation table to be used
                    (1 = Standard, ...)

### Commonly used database entries (e.g. by import/export):

    entry           EMBL           Genebank

    author          RA             REFERENCE/AUTHORS
    title           RT             REFERENCE/TITLE
    journal         RL             REFERENCE/JOURNAL
    refgrp          RG             REFERENCE/CONSRTM
    pubmed_id       RX PUBMED      REFERENCE/PUBMED
    medline_id      RX MEDLINE     REFERENCE/PUBMED
    version         SV             VERSION
    keywd           KW             KEYWORDS
    tax             OC             ORGANISM
    comment         CC             COMMENT

    description     DE
    auth_comm       RC
    nuc_rp          RP
    db_xref         DR
    date            DT
    organelle       OG
    definition                     DEFINITION

## EXAMPLES

    Update the 'full_name' 'Pseudomonas cepacia' to 'Comamonas
    cepacia':
            Select FIELDS:  'full_name'
            Move cursor into the 'Edit box' subwindow
            Delete:         'Pseudomonas'
            Type:           'Comamonas'

## WARNINGS

### It is recommended to reset the protection level after modifying entries to prevent unintentional modification or loss of data.

## BUGS

### No bugs known