You can search for a nucleotide sequence in a DNA database, and an amino acid sequence in a DNA or protein database.
Nucleotide Sequence
Choose the Database | Search for Nucleotide Sequence command to open a dialog box. Searching for a DNA sequence is performed on both strands of all sequence records in the DNA default database. The formats for searching are the same as searching in the current sequence (see the section VIII.1).
The results are shown in a text window.
Search in Database:
ACCGGAT
Seq:EXAMPLE3 + strand
No. Pos Sequence
#1 457 ccttgACCGGATtgtgg
Seq:PUC18 + strand
No. Pos Sequence
#1 2207 tagttACCGGATaaggc
Seq:PUC18 - strand
No. Pos Sequence
#1 328 cgcttACCGGATacctg
Seq:PBR322 + strand
No. Pos Sequence
#1 2679 cgcttACCGGATacctg
Seq:PBR322 - strand
No. Pos Sequence
#1 1531 tagttACCGGATaaggc
Amino acid sequence
Choose the Database | Search for Amino Acid Sequence command to open a dialog box. You may search for an amino acid sequence from all protein sequence records in the default protein database. You may also search for an amino acid sequence from six reading frames of all sequence records in the default DNA database.
The formats for searching are the same as the searching in the current sequence (see the section VIII.1).
The result is shown in a text window.
Examples:
1) search in DNA database for amino acid sequence
Search in Database for AA sequence:
PLMST
Maximum mismatch: 1
Name:PUC18
Strand plus
Reading frame 3:
255 CCTCTAGAGTCGACC
P L E S T
1077 CCAATGATGAGCACT
P M M S T
Name:PBR322
Strand minus
Reading frame 2:
401 CCAATGATGAGCACT
P M M S T
2) search in protein database for amino acid sequence
Search in Database for AA sequence:
PLMS
Maximum mismatch: 1
Name:record8
1634 ldkyfPLDSevtii