BLAST Search

Search for one or more of your sequences (using BLAST). First pick a query type (nucleotide or protein). You will be able to set search parameters on the next page. Choose the appropriate program based on the Query type and Target database type. Please click on the program name to view the search form. Video Tutorial

Query Type Database Type BLAST Program
Nucleotide Nucleotide blastn: Search a nucleotide database using a nucleotide query.
Protein blastx: Search protein database using a translated nucleotide query.
Protein Nucleotide tblastn: Search translated nucleotide database using a protein query.
Protein blastp: Search protein database using a protein query.
BLAST References
1. Altschul,S.F., Gish,W., Miller,W., Myers,E.W. and Lipman,D.J. (1990) Basic local alignment search tool. J. Mol. Biol., 215, 403–410.
2. Camacho,C., Coulouris,G., Avagyan,V., Ma,N., Papadopoulos,J., Bealer,K., and Madden T.L. (2009) BLAST+: architecture and applications. BMC Bioinformatics, 10:421, doi: 10.1186/1471-2105-10-421.

Description and source of BLAST databases

Clementine ESTs and Transcripts
C. clementina cv. Clemenules v1.0 & v0.9 genome NCBI ESTs (From NCBI dbEST, downloaded 6/14/17)
Sweet Orange Unigene v1 (Assemblies of NCBI dbEST data by CGD)
C. sinensis cv. Ridge Pineapple v1.1 & v1.0 genome CGD RefTrans v1 (Assemblies of filtered RNA-seq reads and unigenes by CGD)
C. sinensis cv. Valencia DVS_A & DVS_B v1.0 genome C. aurantifolia transcriptome
C.sinensis cv. Valencia v2.0v1.0 genome Bacterial Genomes
C. sinensis DHSO v3.0 genome Ca. Liberibacter asiaticus gxpsy
C. sinensis cv. Newhall v1.0 genome Ca. Liberibacter asiaticus psy62
C. sinensis cv. Gannanzao v1.0 genome Ca. Liberibacter asiaticus A4
Lemon Ca. Liberibacter asiaticus Ishi-1
C. limon Primary & Alternative v1.0 genome Ca. Liberibacter asiaticus JXGC
C. limon cv. Eureka v1.0 genome Ca. Liberibacter africanus PTSAPSY
C. limon cv. Xiangshui v1.0 genome Ca. Liberibacter americanus Sao Paulo
Lime Ca. Liberibacter solanacearum CLso-ZC1
C. australis v1.0 genome Liberibacter crescens BT-1
C. australasica CRC3672 v1.0 genome Liberibacter crescens BT-0
C. australasica cv. AZM v1.0 genome Other Rutaceae
C. glauca CRC3463 v1.0 genome Aegle marmelos cv. AEG v1.0 genome
C. inodora CRC3784 v1.0 genome Atalantia buxifolia cv. HKC v2.0 & v1.0 genome
Pummelo Citropsis gilletiana cv. CGI v1.0 genome
C. maxima Wanbaiyou v1.0 genome Clausena lansium cv. HP
C. maxima Cupi Majiayouv1.0 genome Fortunella hindsii acc. S3y-45 v2.0 & v1.0 genome
C. maxima cv. XGF v1.0 genome Luvunga scandens cv. SYT v1.0 genome
C. maxima cv. HZY-T v1.0 genome Murraya paniculata (Kunming) v1.0 genome
Hardy Orange Murraya paniculata cv. JLX v1.0 genome
Poncirus trifoliata acc. DPI 50-7 v1.3.1 genome Wild citrus species
Papeda C. linwuensis cv. LW v1.0 genome
C. ichangensis cv. ZGYCC v2.0 & v1.0 genome  C. mangshanensis cv. MSYG v1.0 genome
Citron C. hongheensis cv. HH v1.0 genome
C. medica cv. XZ v1.0 genome  
C. reticulata cv. WM01 v1.0 genome