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Icon 05 Resources

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

Icon 02 Links

Conifer Genome Network PineRefSeq Project SMarTForests Project Conifer Translational Genomics Network TreeGenes Database Dendrome Plone Forestry Careers and Education Resource

Icon 04 Contact

treegenesdb@gmail.com

Blast Databases

General Nucleotide Blast Databases

DatabaseDescriptionLinksLast Updated
chloroplast.fna Chloroplast Genome Sequence from select species [More_Info] 11/23/2015
est_others Sequence data and other information on single-pass cDNA sequences from NCBI [More_Info] 11/25/2015
mito.nt Mitochondrial Nucleotide from Plants [More_Info] 11/25/2015
nt NCBI Nucleotide Retrieval [More_Info] 11/24/2015
plant.genomic Combined Plant genomic from NCBI [More_Info] 11/23/2015
plant.rna Combined Plant RNA from NCBI [More_Info] 11/23/2015
plant.unigene Combined Plant Species Unigene set from NCBI [More_Info] 11/23/2015
refseq_genomic Refseq Genomic from NCBI [More_Info] 11/22/2015
refseq_rna Refseq RNA from NCBI [More_Info] 11/22/2015

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] 11/23/2015
Mtr.seq.uniq Unigene set for Medicago truncatula from NCBI [More_Info] 11/23/2015
Nta.seq.uniq Unigene set for Nicotiana tabacum from NCBI [More_Info] 11/23/2015
Os.seq.uniq Unigene set for Oryza sativa from NCBI [More_Info] 11/23/2015
Pgl.seq.uniq Unigene set for Picea glauca from NCBI [More_Info] 11/23/2015
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] 11/23/2015
Ppe.seq.uniq Unigene set for Prunus persica from NCBI [More_Info] 11/23/2015
Psi.seq.uniq Unigene set for Picea sitchensis from NCBI [More_Info] 11/23/2015
psme_transcriptomev1.nt TreeGenes Transcriptome Assembly v1.0 for Pseudotsuga menziesii [More_Info] 01/13/2012
ptaeda.v0.6.contigs Pinus Taeda Genomic Assembly Contigs V0.6 [More_Info] 07/05/2012
ptaeda.v0.6.scaffolds Pinus Taeda Genomic Assembly Scaffolds V0.6 [More_Info] 07/05/2012
Pta.seq.uniq Unigene set for Pinus taeda from NCBI [More_Info] 11/23/2015
Pth.seq.uniq Unigene set for Populus trichocarpa from NCBI [More_Info] 11/23/2015
Ptp.seq.uniq Unigene set for Populus tremula X Populus tremuloides from NCBI [More_Info] 11/23/2015
Qro.seq.uniq Unigene set for Quercus robur from NCBI [More_Info] 11/23/2015
Sbi.seq.uniq Unigene set for Sorghum bicolor from NCBI [More_Info] 11/23/2015
tair.cds TAIR10 CDS from Arabidopsis [More_Info] 11/23/2015
tair.seq TAIR10 Nucleotide from Arabidopsis [More_Info] 11/23/2015
Vvi.seq.uniq Unigene set for Vitis vinifera from NCBI [More_Info] 11/23/2015
Zm.seq.uniq Unigene set for Zea mays from NCBI [More_Info] 11/23/2015

Protein Blast Databases

DatabaseDescriptionLinksLast Updated
chloroplast.faa Chloroplast Proteins from select species [More_Info] 11/23/2015
mito.aa Mitochondrial Protein from Plants [More_Info] 11/25/2015
nr NCBI non-redundant Proteins [More_Info] 11/25/2015
plant.protein Combined Plant Proteins from NCBI [More_Info] 11/23/2015
refseq_protein Refseq Protein from NCBI [More_Info] 11/22/2015
swissprot Swissprot annotated protein sequence from NCBI [More_Info] 11/23/2015
tair.pep TAIR10 Proteins from Arabidopsis [More_Info] 11/23/2015


Icon 03 Updates

PineRefSeq project releases assembly (v2.0) of the Pinus taeda genome Walnut genome project releases assembly (v1.0) of the Juglans regia genome PineRefSeq project releases assembly (v1.0) of the Pseudotsuga menziesii genome PineRefSeq project releases assembly (v1.0) of the Pinus lambertiana genome CartograTree (v3.0), a map interface that works with DiversiTree to bring together genomics, ecological, and trait data is now live! PineRefSeq project releases assembly (v1.01) of the Pinus teada genome SMarTForests Project releases the third assembly of the Picea glauca genome

Icon 01 Events

AFoRGeN2017

Trentino, Italy
June 15-17, 2017
34th Southern Forest Tree Improvement Conference

Melbourne, Florida, USA
June 19-22, 2017