all_entities_ProteinSequence
Return all instances of the ProteinSequence entity.
We use the concept of ProteinSequence as an amino acid string with an associated MD5 value. It is easy to access the set of Features that relate to a ProteinSequence. While function is still associated with Features (and may be for some time), publications are associated with ProteinSequences (and the inferred impact on Features is through the relationship connecting ProteinSequences to Features).
Example:
all_entities_ProteinSequence -a would retrieve all entities of type ProteinSequence and include all fields in the entities in the output.
Related entities
The ProteinSequence entity has the following relationship links:
- HasAssertedFunctionFrom Source
- IsATopicOf Publication
- IsAlignedBy AlignmentTree
- IsProjectedOnto ProteinSequence
- IsProteinFor Feature
- IsProteinMemberOf Family
- ProjectsOnto ProteinSequence
Command-Line Options
- -a
-
Return all fields.
- -h
-
Display a list of the fields available for use.
- -fields field-list
-
Choose a set of fields to return. Field-list is a comma-separated list of strings. The following fields are available:
- sequence
Output Format
The standard output is a tab-delimited file. It consists of the input file with an extra column added for each requested field. Input lines that cannot be extended are written to stderr.