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Scripts BLAST FASTA Readseq Galaxy Tools Databases TreeGenes Plant Ontology iPlant Downloads

Icon 03 Updates

Douglas-fir and Pinus taeda v1.0 Transcriptome loaded into GBrowse | Literature pipeline recently updated to integrate sequence data | DiversiTree custom TreeGenes interface expanded to deliver phenotype data |

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Icon 02 Links

Conifer Genome Network | Conifer Genome Project | TreeGenes Database | Dendrome Plone | Neale Lab | Forestry Careers and Education Resource |



Blast Databases

General Nucleotide Blast Databases

DatabaseDescriptionLinksLast Updated
chloroplast.fna Chloroplast Genome Sequence from select species [More_Info] 11/24/2011
est_others Sequence data and other information on single-pass cDNA sequences from NCBI [More_Info] 11/24/2011
mito.nt Mitochondrial Nucleotide from Plants [More_Info] 11/24/2011
nt NCBI Nucleotide Retrieval [More_Info] 11/24/2011
plant.genomic Combined Plant genomic from NCBI [More_Info] 11/24/2011
plant.rna Combined Plant RNA from NCBI [More_Info] 11/24/2011
plant.unigene Combined Plant Species Unigene set from NCBI [More_Info] 11/08/2011
refseq_genomic Refseq Genomic from NCBI [More_Info] 11/24/2011
refseq_rna Refseq RNA from NCBI [More_Info] 11/24/2011

Species-Specific Nucleotide Blast Databases

DatabaseDescriptionLinksLast Updated
AllSpeciesAmplicons.nt Sanger resequenced amplicons in # conifers from EST contigs [More_Info] 01/13/2012
At.seq.uniq Unigene set for Arabidopsis thaliana from NCBI [More_Info] 10/29/2011
Mtr.seq.uniq Unigene set for Medicago truncatula from NCBI [More_Info] 09/02/2011
Nta.seq.uniq Unigene set for Nicotiana tabacum from NCBI [More_Info] 09/02/2011
Os.seq.uniq Unigene set for Oryza sativa from NCBI [More_Info] 12/15/2011
Pgl.seq.uniq Unigene set for Picea glauca from NCBI [More_Info] 11/08/2011
pila_transcriptomev1.nt TreeGenes Transcriptome Assembly v1.0 for Pinus lambertiana 01/13/2012
PitaSangerAmplicons.nt Sanger resequenced amplicons from EST contigs in Pinus taeda [More_Info] 01/13/2012
pita_transcriptomev1.nt TreeGenes Transcriptome Assembly v1.0 for Pinus taeda [More_Info] 01/13/2012
Ppa.seq.uniq Unigene set for Physcomitrella patens from NCBI [More_Info] 09/02/2011
Ppe.seq.uniq Unigene set for Prunus persica from NCBI [More_Info] 09/02/2011
Psi.seq.uniq Unigene set for Picea sitchensis from NCBI [More_Info] 09/02/2011
psme_transcriptomev1.nt TreeGenes Transcriptome Assembly v1.0 for Pseudotsuga menziesii [More_Info] 01/13/2012
Pta.seq.uniq Unigene set for Pinus taeda from NCBI [More_Info] 09/01/2011
Pth.seq.uniq Unigene set for Populus trichocarpa from NCBI [More_Info] 09/02/2011
Ptp.seq.uniq Unigene set for Populus tremula X Populus tremuloides from NCBI [More_Info] 12/15/2011
Qro.seq.uniq Unigene set for Quercus robur from NCBI [More_Info] 09/02/2011
Sbi.seq.uniq Unigene set for Sorghum bicolor from NCBI [More_Info] 10/02/2011
tair.cds TAIR10 CDS from Arabidopsis [More_Info] 08/12/2011
tair.seq TAIR10 Nucleotide from Arabidopsis [More_Info] 08/12/2011
Vvi.seq.uniq Unigene set for Vitis vinifera from NCBI [More_Info] 09/02/2011
Zm.seq.uniq Unigene set for Zea mays from NCBI [More_Info] 12/15/2011

Protein Blast Databases

DatabaseDescriptionLinksLast Updated
chloroplast.faa Chloroplast Proteins from select species [More_Info] 11/24/2011
mito.aa Mitochondrial Protein from Plants [More_Info] 11/24/2011
nr NCBI non-redundant Proteins [More_Info] 11/24/2011
plant.protein Combined Plant Proteins from NCBI [More_Info] 11/24/2011
refseq_protein Refseq Protein from NCBI [More_Info] 11/24/2011
swissprot Swissprot annotated protein sequence from NCBI [More_Info] 11/24/2011
tair.pep TAIR10 Proteins from Arabidopsis [More_Info] 08/12/2011