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BLAST query
BLAT query
Gene Family Keyword Search
Search term:
add trailing wildcard
Search node:
Select a node:
All Nodes
Andropogoneae
Angiosperm
Arabidopsis
Embryophyte
Eudicot
Eurosid I
Eurosid II
Grass Post-duplication
Grass Pre-duplication
Legume
Malpighiales
Rosid post-hexaploidy
Rosid pre-hexaploidy
Tracheophyte
Viridiplantae
Search type:
Ontologies
Symbols/Identifiers/Defline
Everything
Pfam
Panther
KOG
EC
GO
KEGG Orthology
Cluster KEGG Orthology
Family members:
Restrict organisms
Require
(+)
Allow
(+/-)
Exclude
(-)
Manihot esculenta
Manihot esculenta
Ricinus communis
Ricinus communis
Populus trichocarpa
Populus trichocarpa
Medicago truncatula
Medicago truncatula
Glycine max
Glycine max
Cucumis sativus
Cucumis sativus
Arabidopsis thaliana
Arabidopsis thaliana
Arabidopsis lyrata
Arabidopsis lyrata
Carica papaya
Carica papaya
Vitis vinifera
Vitis vinifera
Mimulus guttatus
Mimulus guttatus
Sorghum bicolor
Sorghum bicolor
Zea mays
Zea mays
Oryza sativa
Oryza sativa
Brachypodium distachyon
Brachypodium distachyon
Selaginella moellendorfii
Selaginella moellendorfii
Physcomitrella patens
Physcomitrella patens
Chlamydomonas reinhardtii
Chlamydomonas reinhardtii
Show results in browser (default)
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address:
query
Query Name (optional)
Query Sequence
target
Type
Node consensus
Organism proteome
Organism genome
Target
Select a node:
Andropogoneae
Angiosperm
Arabidopsis
Embryophyte
Eudicot
Eurosid I
Eurosid II
Grass Post-duplication
Grass Pre-duplication
Legume
Malpighiales
RosidPostHex
RosidPreHex
Tracheophyte
Viridiplantae
Select a proteome:
Arabidopsis lyrata
Arabidopsis thaliana
Brachypodium distachyon
Carica papaya
Chlamydomonas reinhardtii
Cucumis sativus
Glycine max
Manihot esculenta
Medicago truncatula
Mimulus guttatus
Oryza sativa
Physcomitrella patens
Populus trichocarpa
Ricinus communis
Selaginella moellendorffii
Sorghum bicolor
Vitis vinifera
Zea mays
Select a genome:
Arabidopsis lyrata
Arabidopsis lyrata - masked
Arabidopsis thaliana
Brachypodium distachyon
Brachypodium distachyon - masked
Carica papaya
Chlamydomonas reinhardtii
Cucumis sativus
Glycine max
Glycine max- masked
Manihot esculenta
Manihot esculenta - masked
Medicago truncatula
Medicago truncatula - masked
Mimulus guttatus
Oryza sativa
Physcomitrella patens
Physcomitrella patens - masked
Populus trichocarpa
Populus trichocarpa - masked
Ricinus communis
Selaginella moellendorffii
Sorghum bicolor
Sorghum bicolor - masked
Vitis vinifera
Vitis vinifera - masked
Zea mays
Zea mays - masked
parameters
BLAST program
BLASTP - protein query to protein db
BLASTX - translated (6 frames) nucl. query to protein db
BLASTN - nucleotide query to nucleotide db
TBLASTX - transl. (6 frames) nucl. query to transl (6) nt db
TBLASTN - protein query to translated (6 frames) nt db
Output format
gapped alignments
nongapped alignments
Comparison Matrix
BLOSUM62
BLOSUM45
PAM30
PAM70
Word Length (W value)
default
50
45
40
35
30
25
20
15
14
13
12
11
10
9
8
7
6
5
4
3
2
Default = 11 for BLASTN, 3 for all others
Expect(E) threshold
# of alignments to show
1
25
50
100
200
400
800
1000
Filter options
On
Off
Include singletons
Yes
No
Show results in browser (default)
Notify by email when job completes (long jobs)
address:
query
Query Name (optional)
Query Sequence
target
Target
Select a genome:
Arabidopsis lyrata
Arabidopsis thaliana
Brachypodium distachyon
Carica papaya
Chlamydomonas reinhardtii
Cucumis sativus
Glycine max
Manihot esculenta
Medicago truncatula
Mimulus guttatus
Oryza sativa
Physcomitrella patens
Populus trichocarpa
Ricinus communis
Selaginella moellendorffii
Sorghum bicolor
Vitis vinifera
Zea Mays
Masking:
No
Yes
parameters
Minimum number of matches:
(default = 2)
Minimum score:
(default = 30)
Minimum identity (%):
(default = 90)
Maximum gap:
(default = 2)
Tile size:
(default = 11)
Maximum intron size:
(default = 750000)
Mask query sequences:
none
lower case letters
upper case letters
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