Start Desgin
Contact Us
Help
Home
Submit
Design
Help
News
Contact
CRISPR design
PAM
Select a PAM type,there are variety of Cas9's PAM and cpf1's PAM to select
NGG (SpCas9 from Streptococcus pyogenes: 5'-NGG-3')
NRG (SpCas9 from Streptococcus pyogenes: 5'-NRG-3' (R = A, G))
NNAGAAW (StCas9 from Streptococcus thermophilus: 5'-NNAGAAW-3' (W = A, T))
NNNNGMTT (NmCas9 from Neisseria meningitidis: 5'-NNNNGMTT-3' (M = A, C))
NNGRRT (SaCas9 from Staphylococcus aureus: 5'-NNGRRT-'3 (R=A, G))
YCN (from Pyrococcus furiosus: 5'-YCN-3' (Y = T, C))
CCW (from Clostridium difficile: 5'-YCN-3' (W = A, T))
YYC (from Bacillus halodurans: 5'-YYC-3' (Y = T, C))
AWG (from Escherichia coli: 5'-AWG-3' (W= A, T))
CC (from Pseudomonas aeruginosa: 5'-CC-3')
MMA (Pyrococcus furiosus: 5'-MMA-3' (M = A, C))
snoRNA promoter
U6 and U3 (default U3) are provides for optional promoters design in plant
U6
U3
RNA Scaffold
Input tracrRNA,for predicting the structue of sgRNA and tracrRNA
Guide Sequence Length
Specify the length of spacer,ranging from 15 to 22(default 20)
20
15
16
17
18
19
21
22
Target Genome
Select a species
Arabidopsis lyrata (v.1.0)
Arabidopsis thaliana (TAIR10)
Arachis duranensis(v1.0)
Arachis ipaensis(v1.0)
Brachypodium distachyon (v1.0)
Brassica napus (v4.1)
Brassica oleracea (v1.0)
Brassica rapa (IVFCAASv1)
Capsella_rubella(v1.0 )
Chlamydomonas reinhardtii (v5.5)
Citrullus lanatus (v1.0)
Citrus sinensis (v2.0)
Coffea canephora
Cucumis melo (v3.5)
Cucumis sativus
Cyanidioschyzon merolae (ASM9120v1)
Fragaria vesca(v2.0.a1)
Glycine max (V1.0)
Gossypium hirsutum(v1.1)
Gossypium raimondii
Lentinula edodes(W1-26)
Lentinula_edodes(B17)
Lotus japonicus (v3.0)
Manihot esculenta
Marchantia polymorpha(v3.1)
Medicago truncatula (Mt4.0v2)
Musa acuminata (MA1)
Nicotiana benthamiana (v0.4.4)
Oryza brachyantha (v1.4b)
Oryza glaberrima (AGI1.1)
Oryza indica (ASM465v1)
Oryza indica (MH63)
Oryza indica (ZS97)
Oryza sativa (RAP-DB)
Oryza sativa(MSU)
Panicum virgatum(v1.1)
Physcomitrella patens (ASM242v1)
Populus trichocarpa (JGI2.0)
Rice kasalath
Ricinus communis
Salvia miltiorrhiza
Selaginella moellendorffii (v1.0)
Setaria italica (JGIv2.0)
Solanum lycopersicum (SL2.50)
Solanum tuberosum (3.0)
Sorghum bicolor (Sorbi1)
Utricularia gibba
Vitis vinifera (IGGP 12x)
Zea mays (AGPv3.21)
Zea mays (AGPv4)
Locus Tag
gene ID or name
% for some examples
OR
Position
Input position of sequence based on scaffold or chromosome
e.g. Chr3:18864113..18864812
OR
Sequence
Input sequence in fasta format directly