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BLAST
Load example:
BLAST program:
BLASTN - nucleotide query to nucleotide db
BLASTP - protein query to protein db
TBLASTN - protein query to translated (6 frames) nt db
TBLASTX - transl. (6 frames) nucl. query to transl (6) nt db
BLASTX - translated (6 frames) nucl. query to protein db
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Query sequence:
?
Upload File:
?
Select Blast DB:
Picea abies 1.0 (complete)
Picea abies 1.0 (gene containing scaffolds)
Picea abies 1.0 fosmid pool contigs
Pinus taeda 1.0 (complete)
Picea glauca (PG29-v4.0)
Picea glauca (WS7711-v1.0)
Picea glauca 1.0 (PG29-v1.0)
454 Transcripts
Trinity (contaminant free)
Trinity (contaminant)
Trinity (all)
All Procogen(Cañas et al.)
High Confidence Genes (CDS sequence)
Medium Confidence Genes (CDS sequence)
Low Confidence Genes (CDS sequence)
All Gene Prediction (CDS sequence)
Transposable element
Pinus taeda high quality whole genes
Pinus taeda low quality whole genes
Pinus taeda high quality partial genes
Pinus taeda low quality partial genes
Picea abies Putative Mitochondrial
Picea abies PlantGDB PUTs
Picea glauca PlantGDB PUTs
Picea sitchensis PlantGDB PUTs
Cryptomeria japonica (PlantGDB, 454)
Cycas rumphii (PlantGDB, 454)
Ginkgo biloba (PlantGDB, 454)
Gnetum gnemon (PlantGDB, 454)
Picea engelmannii x Picea glauca (PlantGDB, 454)
Pinus banksiana (PlantGDB, 454)
Pinus contorta (PlantGDB, 454)
Pinus pinaster (PlantGDB, 454)
Pinus sylvestris (PlantGDB, 454)
Pinus taeda(loblolly pine) (PlantGDB, 454)
Picea menziesii (UCD, 454)
Picea abies (UCD, 454)
Pinus lambertiana (UCD, 454)
Pinus taeda (UCD, 454)
Podocarpus macrophyllus (UCD, 454)
Sciadopitys verticillata (UCD, 454)
Sequoia sempervirens (UCD, 454)
Taxus baccata (UCD, 454)
Gnetum gnemon (UCD, 454)
Picea abies ESTs
Picea sitchensis Full Length ESTs
NCBI Coniferae ESTs (Dec. 2012)
Chen spruce needles
High Confidence Genes (protein sequence)
Medium Confidence Genes (protein sequence)
Low Confidence Genes (protein sequence)
All Gene Prediction (protein sequence)
Transposable element
Pinus taeda high quality genes
Pinus taeda low quality genes
Pinus taeda high quality partial genes
Pinus taeda low quality partial genes
Picea abies Putative Mitochondrial
High Confidence Genes (protein sequence)
Medium Confidence Genes (protein sequence)
Low Confidence Genes (protein sequence)
All Gene Prediction (protein sequence)
Transposable element
Pinus taeda high quality genes
Pinus taeda low quality genes
Pinus taeda high quality partial genes
Pinus taeda low quality partial genes
Picea abies Putative Mitochondrial
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+ Advance Search Parameters
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Scoring matrix:
BLOSUM62
PAM30
PAM70
BLOSUM80
BLOSUM45
Filtering:
Low complexity
Lower-case letters
E-value cutoff:
1e-3
1e-30
1e-10
1e-5
0.1
0
10
Advanced Options:
ungapped
megablast
Query genetic code:
Standard
Vertebrate Mitochondrial
Yeast Mitochondrial
Mold, Protozoan, and Coelocoel Mitochondrial
Invertebrate Mitochondrial
Ciliate Nuclear
Echinoderm Mitochondrial
Euplotid Nuclear
Bacterial
Alternative Yeast Nuclear
Ascidian Mitochondrial
Flatworm Mitochondrial
Blepharisma Macronuclear
DB genetic code:
Standard
Vertebrate Mitochondrial
Yeast Mitochondrial
Mold, Protozoan, and Coelocoel Mitochondrial
Invertebrate Mitochondrial
Ciliate Nuclear
Echinoderm Mitochondrial
Euplotid Nuclear
Bacterial
Alternative Yeast Nuclear
Ascidian Mitochondrial
Flatworm Mitochondrial
Blepharisma Macronuclear
Frame shift penalty:
Word size:
Number of results:
10
100
1
50
BLAST
Select BLAST/BLAT:
BLASTALL
BLAT
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Query sequence:
?
Select Blat DB:
Ptrichocarpa_210 -unmasked
Ptrichocarpa_210 -masked
Ptrichocarpa_210 Transcripts
Ptrichocarpa_210 CDS
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Sort By:
query,score
query,start
chrom,score
chrom,start
score
?
Output:
hyperlink
psl
psl no header
?
BLAT
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.| All our tools are under
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