Relationships Between Divisions and Homology Search Files
| Database division | BLAST databases at NCBI | FASTA databases at EBI | Location of “finished” HTG records |
| BCT | nr,[ii] month | emall, emnew, ebact | |
| PRO | emall, emnew, epro | ||
| FUN | emall, emnew, efun | ||
| HUM | emall, emnew, ehum | H. sapiens(EMBL) | |
| PRI | nr, month | H. sapiens(GenBank) | |
| ROD | nr, month | emall, emnew, erod | |
| MAM | nr, month | emall, emnew, emam | |
| VRT | nr, month | emall, emnew, evrt | |
| INV | nr, month | emall, emnew, einv | C. elegans and D. melanogaster |
| PLN | nr,[iii] month | emall, emnew, epln | A. thaliana |
| ORG | emall, emnew, eorg | ||
| VRL | nr, month | emall, emnew, evrl | |
| PHG | nr, month | emall, emnew, ephg | |
| RNA | nr, month | emall, emnew, erna | |
| SYN | nr, month | emall, emnew, esyn | |
| UNA | nr, month | emall, emnew, euna | |
| EST | dbest,[iv]month | eest | |
| STS | dbsts, month | ests | |
| GSS | dbgss, month | emall, emnew | |
| HTG | htgs, month | emall, emnew | Includes all “unfinished” HTG |
| PAT | nr, month | emall, emnew, epat |
[i] (month) A rolling month database consisting of nucleotide or protein sequences added to nr in the last 28 days; (nr) a nonredundant nucleotide (or protein) database of all sequences, excluding ESTs, STSs, GSSs, and HTGs; (emnew) new EMBL entries since latest release; (emall) all EMBL entries, latest release + new (other FASTA database acronyms are derived from the EMBL division to which they correspond).
[ii] NCBI offers ecoli as a separate BLAST database for queries against Escherichia coli genome and protein sequences.
[iii] NCBI offers yeast as a separate BLAST database for queries against the Saccharomyces cerevisiae genome and protein sequences.
[iv] NCBI plans to split dbest into three files of human only, mouse only, and all nonhuman, nonmouse ESTs.