Database Division

 

 

BLAST Databases

at NCBI

 

FASTA Databases

at EBI

 

Location of "Finished" HTG records

BCT Bacterial

nr1, month

emall, emnew, ebact

  

PRO Prokaryotic

  

emall, emnew, epro

  

FUN Fungal

  

emall, emnew, efun

  

HUM Human

  

emall, emnew, ehum

H. sapiens (EMBL)

PRI Primate

nr, month

  

H. sapiens (GenBank)

ROD Rodent

nr, month

emall, emnew, erod

  

MAM Other mammalian

nr, month

emall, emnew, emam

  

VRT Other vertebrate

nr, month

emall, emnew, evrt

  

INV Invertebrate

nr, month

emall, emnew, einv

C. elegans & D. melanogaster

PLN Plant

nr2, month

emall, emnew, epln

A. thaliana

ORG Organelle

  

emall, emnew, eorg

  

VRL Viral

nr, month

emall, emnew, evrl

  

PHG Phage

nr, month

emall, emnew, ephg

  

RNA Structural RNA

nr, month

emall, emnew, erna

  

SYN Synthetic/chimeric

nr, month

emall, emnew, esyn

  

UNA Unannotated

nr, month

emall, emnew, euna

  
       

EST Expressed sequence tags

dbest3, month

eest

  

STS Sequence tagged sites

dbsts, month

ests

  

GSS Genome survey

dbgss, month

emall, emnew

  

HTG High throughput genomic

htgs, month

emall, emnew

Includes all "unfinished" HTG

PAT Patent

nr, month

emall, emnew, epat

  

 

1 NCBI offers "ecoli" as a separate BLAST database for queries against Escherichia coli genome and protein sequences.

2 NCBI offers "yeast" as a separate BLAST database for queries against the Saccharomyces cerevisiae genome and protein sequences.

3 NCBI plans to split dbest into three files of "human only", "mouse only", and all "non-human, non-mouse" ESTs.

 

Abbreviations: month, a rolling month database consisting of nucleotide or protein sequences added to nr in the last 28 days; nr, a "non-redundant" 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).