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Databases Available

Protein and DNA sequence databases. Primary, secondary, curated, motif, domain and structural databases available for browsing, homology, comparison searching and integrated for use with sequence analysis software.

 SACS maintains the following sequence databases.

Primary Sequence Databases (formatted for EMBOSS use and browsing):
Genbank main nucleotide divisions
gbbct, gbenv, gbinv, gbmam, gbpat, gbphg, gbpln, gbpri, gbrod, gbsts, gbsyn, gbuna, gbvrl, gbvrt
name: genbank
Trembl database from Uniprot
name: trembl
Genpept translations of the same GenBank divisions given above
name: genpept
RefSeq protein reference sequences from human, mouse, rat, cow, frog and zebrafish
name: rsp
Swissprot database from Uniprot
name: swiss
RefSeq nucleotide reference sequences from human, mouse, rat, cow, frog and zebrafish
name: rsn
Blastable Sequence Databases (formatted for use with BLAST programs):

  NCBI's NR protein databases
name: nr
NCBI's NT nucleotide database
name: nt
NCBI's GSSdb nucleotide database
name: gss
  Uniprot's Trembl protein database
name: trembl
NCBI's env nucleotide database
name: env_nt
NCBI's HTG nucleotide database
name: htg
  Uniprot's Swissprot protein database
name: swissprot
NCBI's patnt nucleotide database
name: patnt
NCBI's this month's nucleotide database
name: month.nt
  NCBI's env protein database
name: env_nr
PDB's nucleotide database
name: pdbnt
 
  NCBI's this month's protein database
name: month.aa
  RefSeq protein sequences from human, mouse, rat, cow, frog and zebrafish
name: refpro
  NCBI's patent protein database
name: pataa
NCBI's ESTs (human) nucleotide database
name: est_human
RefSeq nucleotide sequences from human, mouse, rat, cow, frog and zebrafish
name: refnuc
  PDB's protein database
name: pdbaa
NCBI's EST (mouse) nucleotide database
name: est_mouse
 
  PDB's new protein database
name: pdbaanew
NCBI's EST (others) nucleotide database
name: est_others
 

Motif and Domain Databases: PROSITE Release 18.2


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