BLAST


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

Database Name Source
Cerasus x kanzakura cv. 'Atami-zakura' v1.0 genome Shirasawa et al. 2021
Cerasus x kanzakura cv. 'Kawazu-zakura' v1.0 genome Shirasawa et al. 2021
Cerasus speciosa IZO01 v1.0 genome Fujiwara et al. 2025
Cerasus x yedoensis v1.0 genome Shirasawa et al. 2019
Crataegus pinnatifida var. major  v1.0 genome Zhang et al. 2022
Eriobotrya japonica v1.0 genome wang 2021 
Fragaria vesca v4.0.a1 genome Edger et al. 2017
Fragaria vesca v2.0.a1 genome Tennessen et al. 2014   
Fragaria vesca v1.1 genome Shulaev et. al. 2010
Fragaria vesca v1.0 genome Shulaev et. al. 2010 
Fragaria vesca ‘Hawaii 4’ NAU v1.0 genome Zhou et.al. 2023
Fragaria vesca ‘Yellow Wonder’ v1.0 genome Joldersma et. al. 2022
Fragaria vesca CFRA 2339 v1.0 genome Alger et. al. 2021 
Fragaria x ananassa Benihoppe v1.0 genome Song et. al. 2023
Fragaria x ananassa 'Florida Brilliance' v1.0 genome Han et.al. 2025
Fragaria x ananassa Camarosa v1.0 genome Edger et al. 2019
Fragaria x ananassa EA78 KIB CAS v1.0 genome Jin et al. 2025
Fragaria x ananassa FAN r1.1 genome Hirakawa et al. 2013
Fragaria x ananassa FANhybrid r1.2 genome Hirakawa et al. 2013
Fragaria x ananassa FL 20.82-27 v1.0 genome  Alam et al. 2024
Fragaria x ananassa Yanli v1.0 genome Mao et al. 2022
Fragaria chiloensis v1.0 genome Cauret et al. 2022
Fragaria chiloensis KIB v1.0 genome Jin et al. 2023
Fragaria chiloensis KIB v2.0 genome Jin et al. 2025
Fragaria daltoniana YNU v1.0 genome Qiao et al. 2021
Fragaria iinumae FII r1.1 genome Hirakawa et al. 2013
Fragaria iinumae v1.0 genome Edger et al. 2019
Fragaria iinumae KIB CAS v2.0 genome Du et al. 2025
Fragaria mandshurica YNU v1.0 genome Qiao et al. 2021
Fragaria moupinensis haplotype v1.0 genome Qiao et al. 2024
Fragaria nilgerrensis v1.0 genome Zhang et al. 2020
Fragaria nilgerrensis SCBG v1.0 genome Feng et al. 2020
Fragaria nilgerrensis YNU v1.0 genome Qiao et al. 2021
Fragaria nipponica KIB v1.0  genome Jin et al. 2023
Fragaria nipponica FNI r1.1 genome Hirakawa et al. 2013
Fragaria nubicola FNU r1.1 genome Hirakawa et al. 2013
Fragaria nubicola SCBG v1.0 genome Feng et al. 2020
Fragaria orientalis FOR r1.1 genome Hirakawa et al. 2013
Fragaria pentaphylla YNU v1.0 genome Qiao et al. 2021
Fragaria virginiana KIB v1.0 genome Jin et al. 2023
Fragaria virginiana KIB v2.0 genome Jin et al. 2025
Fragaria viridis SCBG v1.0 genome Feng et al. 2020
Fragaria viridis YNU v1.0 genome Qiao et al. 2021
Gillenia trifoliata v1.0 genome Ireland et al. 2021
Malus baccata v1.0 genome Chen et al. 2019
Malus ioensis v1.0 genome Švara et al. 2024
Malus fusca v1.1 genome Mansfeld et al. 2023
Malus coronaria v1.0 genome Švara et al. 2024
Malus domestica Antonovka 172670-B genome v1.0 Švara et al. 2023
Malus x domestica Fuji v1.0.a2 genome Li et al. 2024
Malus x domestica M9 v1.0.a2 genome Li et al. 2024
Malus x domestica MM106 v1.0.a2 genome Li et al. 2024
Malus x domestica WA 38 v1.0 genome Zhang et al. 2024
Malus x domestica Hanfu v1.0 genome Qin et al. 2023
Malus x domestica Honeycrisp v1.1 genome Khan et al. 2022
Malus x domestica HFTH1 v1.0 genome Zhang et al. 2019
Malus x domestica GDDH13 v1.1 genome Daccord et al. 2017
Malus x domestica Golden Delicious genome NCBI annotation NCBI 2023
Malus x domestica Golden Delicious GDT2T v1.0 genome Su et al. 2024
Malus x domestica Gala haploid v1.0 genome Sun et al. 2020
Malus x domestica Gala diploid v1.0 genome Sun et al. 2020
Malus x domestica v3.0.a1 genome Velasco et. al. 2010
Malus x domestica v1.0 genome Velasco et. al. 2010
Malus prunifolia Fupingqiuzi v1.0 genome Li et. al. 2022
Malus sieversii apple-FOX Arabidopsis library sequences Wisniewski et al. (submitted)
Malus sieversii haploid v1.0 genome Sun et al. 2020
Malus sieversii diploid v1.0 genome Sun et al. 2020
Malus sylvestris happloid v1.0 genome Sun et al. 2020
Malus sylvestris diploid v1.0 genome Sun et al. 2020
Potentilla anserina v1.0 genome Gan et al. 2021
Potentilla micrantha v1.0 genome Buti et al. 2018
Prunus armeniaca v1.0 genome Jiang et al. 2019
Prunus armeniaca cv. Stella v1.0 genome Groppi et al. 2021
Prunus armeniaca Longwangmao v1.0 genome Wang et al. 2021
Prunus armeniaca Marouch n14 v1.0 genome Groppi et al. 2021
Prunus armeniaca Sungold v1.0 genome Wang et al. 2021
Prunus armeniaca Yinxiangbai v1.0 genome Zhang et al. 2021
Prunus avium v1.0.a1 genome Shirasawa et al. 2017
Prunus avium Big Star v1.0.a1 genome Pinosio et al. 2020
Prunus avium Tieton v1.0 genome Wang et al. 2020
Prunus avium Tieton v2.0 genome Wang et al. 2020
Prunus campanulata v1.0 genome Hu et al. 2023
Prunus cerasus cv. 'Montmorency' v1.0.a2 genome Hollender et al. 2023
Prunus davidiana v1.0 genome Cao et al. 2020
Prunus davidiana v2.0 genome Cao et al. 2020
Prunus davidiana ZXST Haplotype v1.0 genome Wang et al. 2024
Prunus domestica v1.0 draft genome Dardick et al. 2019
Prunus dulcis Lauranne v1.0 genome Sánchez-Pérez et al. 2019
Prunus dulcis Nonpareil v1.0 genome D’Amico-Willman et al. 2022
Prunus dulcis Texas v2.0 genome Alioto et al. 2020
Prunus dulcis Texas v3.0 genome Castanera et al. 2024
Prunus ferganensis v1.0 genome Cao et al. 2020
Prunus ferganensis v2.0 genome Cao et al. 2020
Prunus humilis v1.0 genome Wang et al. 2022
Prunus kansuensis v1.0 genome Cao et al. 2020
Prunus kansuensis v2.0 genome Cao et al. 2020
Prunus Mandshurica CH264_4 v1.0 genome Groppi et al. 2021
Prunus mira v1.0 genome Cao et al. 2020
Prunus mira v2.0 genome Cao et al. 2020
Prunus mongolica v1.0 genome Zhu et al. 2023
Prunus mume Nanko v1.0 genome Hsiang et al. 2024
Prunus mume Tortuosa v1.0 genome Zheng et al. 2021
Prunus persica v1.0 genome The International Peach Genome Initiative 2013
Prunus persica v2.0.a1 genome Verde et al. 2017
Prunus persica Chinese Cling v1.0 genome
Prunus persica Zhongyoutao 14 v1.0 Genome Lian et al. 2021
Prunus salicina Zhongli No. 6 v1.0.a1 genome Huang et al. 2020
Prunus salicina Sanyueli v2.0.a1 genome Liu et al. 2020
Prunus salicina Sanyueli FAAS v1.0.a1 genome Fang et al. 2022
Prunus salicina Lindl cv. Wushancuili v1.0.a1 genome Zhou et al. 2023
Prunus persica 124 Pan v1.0 genome Zhang et al. 2021
Prunus sibirica CH320_5 v1.0 genome Groppi et al. 2021
Prunus sibirica F106 v1.0.a1 genome Wang et al. 2021
Prunus yedoensis v1.0 genome Baek S et al. 2018
Prunus zhengheensis v1.0 genome Tan et al. 2024
Pyrus betulifolia v1.0 genome Dong et al. 2019
Pyrus communis v1.0 genome Chagné et al. 2014
Pyrus communis d'Anjou draft v1.0 genome Zhang et al. 2022
Pyrus communis d'Anjou v2.3.a1 genome Yocca et al. 2024
Pyrus bretschneideri v1.1 genome  Xue et al. 2018
Pyrus pyrifolia v1.0 genome Shirasawa et al. 2020
Pyrus pyrifolia Cuiguan v1.0 genome Gao et al. 2021
Pyrus ussuriensis x communis Zhongai 1 v1.0 genome Wang et al. 2019
Rosa chinensis v1.0 genome  Hibrand et al. 2018
Rosa chinensis homozygous v2.0 genome Raymond et al. 2018
Rosa multiflora v1.0 genome  Nakamura et al. 2017
Rosa wichuraiana Basye's Thornless v1.0 genome Zhong et al. 2021
Rubus argutus Hillquist v1.0 genome Brůna et al. 2022
Rubus idaeus 'Joan J' v2.0 genome Liu et al. 2022
Rubus idaeus 'Anitra' v1.0 genome Davik et al. 2022
Rubus idaeus 'Autumn Bliss' v1.0 genome Price et al. 2023
Rubus idaeus 'Malling Jewel' v1.0 genome Price et al. 2023
Rubus L. subgenus Rubus Watson v1.0 genome Paudel et al. 2025
Rubus occidentalis v1.0.a1 genome VanBuren et al. 2016
Rubus occidentalis v1.1 genome Jibran et al. 2018
Rubus occidentalis v3.0 genome Vanburen et al. 2018
Rubus ulmifolius v1.0 genome Aiden et al, 2020
GDR RefTrans Species or genus specific assemblies of filtered RNA-seq reads and unigenes performed by GDR
GDR unigene V5 Genus or family specific assemblies of NCBI dbEST data performed by GDR
Rosaceae Conserved Ortholog Set Cabrera et al. 2009