AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG009044

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009044 MtrunA17_Chr5g0394601 95.455 110 5 0 1 110 1 110 5.46e-73 215
MsaG009044 MtrunA17_Chr5g0394631 62.857 140 37 5 57 191 272 401 1.29e-42 147
MsaG009044 MtrunA17_Chr5g0394631 52.381 126 52 2 57 182 64 181 5.39e-32 119
MsaG009044 MtrunA17_Chr1g0205251 76.471 85 19 1 1 84 1 85 1.76e-41 136
MsaG009044 MtrunA17_Chr5g0394621 54.815 135 53 2 57 191 64 190 9.83e-38 129
MsaG009044 MtrunA17_Chr1g0204951 61.224 98 38 0 94 191 93 190 4.86e-35 122
MsaG009044 MtrunA17_Chr1g0204971 62.222 90 31 1 105 191 101 190 1.87e-31 112
MsaG009044 MtrunA17_Chr8g0344381 49.038 104 45 2 2 97 30 133 2.98e-28 103
MsaG009044 MtrunA17_Chr3g0136441 43.678 87 46 1 1 84 10 96 2.45e-23 90.1
MsaG009044 MtrunA17_Chr4g0070371 48.611 72 37 0 1 72 23 94 1.26e-22 89.0
MsaG009044 MtrunA17_Chr4g0070351 48.649 74 38 0 1 74 29 102 8.78e-21 83.6
MsaG009044 MtrunA17_Chr8g0340421 44.944 89 40 3 2 84 62 147 1.97e-19 81.6
MsaG009044 MtrunA17_Chr3g0140381 41.111 90 49 1 2 87 36 125 3.17e-19 80.1
MsaG009044 MtrunA17_Chr7g0223361 44.211 95 50 1 97 188 76 170 1.85e-18 78.6
MsaG009044 MtrunA17_Chr2g0331111 43.678 87 44 2 2 84 62 147 2.25e-18 79.0
MsaG009044 MtrunA17_Chr7g0223351 48.101 79 41 0 110 188 91 169 1.14e-17 76.6
MsaG009044 MtrunA17_Chr1g0150711 46.875 64 31 1 5 65 19 82 9.16e-16 70.9
MsaG009044 MtrunA17_Chr7g0273661 54.688 64 29 0 110 173 93 156 1.19e-14 68.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009044 AT3G22540.1 67.593 108 31 3 1 105 1 107 1.44e-41 136
MsaG009044 AT4G14819.1 63.208 106 36 2 1 105 1 104 3.26e-38 127
MsaG009044 AT2G32030.1 62.963 81 30 0 108 188 105 185 1.72e-28 105
MsaG009044 AT2G32020.1 60.494 81 32 0 108 188 100 180 8.54e-26 98.2
MsaG009044 AT1G72510.1 48.352 91 42 1 2 87 33 123 1.76e-23 92.0
MsaG009044 AT1G72510.2 48.352 91 42 1 2 87 33 123 1.76e-23 92.0
MsaG009044 AT5G20670.1 39.423 104 52 2 3 95 23 126 1.51e-20 84.0
MsaG009044 AT1G79770.1 43.119 109 57 2 1 105 50 157 3.63e-20 83.2
MsaG009044 AT5G25840.1 39.048 105 55 2 2 97 42 146 2.75e-19 81.3
MsaG009044 AT3G22560.1 40.171 117 56 2 85 188 57 172 3.79e-17 75.5
MsaG009044 AT2G09970.1 43.056 72 40 1 2 72 33 104 2.68e-15 70.5
MsaG009044 AT1G54095.1 44.737 76 39 2 2 74 15 90 1.19e-14 68.6
MsaG009044 AT2G25780.1 38.202 89 48 3 7 89 40 127 1.47e-12 62.8

Find 36 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGGAAGTATGTATTCTTTAA+AGG 0.161729 2:+52290285 MsaT009044.1:CDS
TCCTAAGAACTCCCTCCTTT+TGG 0.260104 2:-52290266 None:intergenic
AGTCAAAATTTGATGGAAAA+TGG 0.285752 2:+52289654 MsaT009044.1:CDS
ATGTTCTAGGCTCTAAATAC+TGG 0.313478 2:+52290106 MsaT009044.1:intron
GTTAGAGATGAAGCTATTAG+AGG 0.393393 2:+52289701 MsaT009044.1:CDS
TCCAAAAGGAGGGAGTTCTT+AGG 0.394554 2:+52290265 MsaT009044.1:CDS
GGCTCTAAATACTGGGGTAA+AGG 0.409375 2:+52290114 MsaT009044.1:intron
CACGTTTGCTGTGAAACAAA+TGG 0.422199 2:+52290143 MsaT009044.1:CDS
CTTGTTGATGTGGATAATGT+TGG 0.439455 2:+52290213 MsaT009044.1:CDS
GCTCTAAATACTGGGGTAAA+GGG 0.442106 2:+52290115 MsaT009044.1:CDS
ATTCATTGTATCTTCATACT+TGG 0.446266 2:+52290176 MsaT009044.1:CDS
CAAAGAGTGCTTGAGAAAGT+TGG 0.446874 2:+52290240 MsaT009044.1:CDS
GAAGTGAAGTCAAAATTTGA+TGG 0.458617 2:+52289647 MsaT009044.1:CDS
TGCTGTGAAACAAATGGTTA+AGG 0.473285 2:+52290149 MsaT009044.1:CDS
TTGTATCTTCATACTTGGAA+AGG 0.478334 2:+52290181 MsaT009044.1:CDS
TTTGATGGAAAATGGTTATG+TGG 0.481592 2:+52289662 MsaT009044.1:CDS
TGAGAAAGTTGGTTTCCAAA+AGG 0.498958 2:+52290251 MsaT009044.1:CDS
AACTTTGTTGACCTTCTCCT+AGG 0.514865 2:-52289830 None:intergenic
TGTTCTAGGCTCTAAATACT+GGG 0.526941 2:+52290107 MsaT009044.1:intron
TTGATGGAAAATGGTTATGT+GGG 0.531455 2:+52289663 MsaT009044.1:CDS
TTGTTGATGTGGATAATGTT+GGG 0.535303 2:+52290214 MsaT009044.1:CDS
GAAAGTTGGTTTCCAAAAGG+AGG 0.543592 2:+52290254 MsaT009044.1:CDS
GCTTGAAGCTCTTGTTGATG+TGG 0.580383 2:+52290203 MsaT009044.1:CDS
CCATCAGCAACACAAACTGC+AGG 0.594058 2:-52289794 None:intergenic
AAAGTTGGTTTCCAAAAGGA+GGG 0.596054 2:+52290255 MsaT009044.1:CDS
TTAGAGATGAAGCTATTAGA+GGG 0.599426 2:+52289702 MsaT009044.1:CDS
TCAACTTCAACTTCCCAAGT+AGG 0.601381 2:+52289881 MsaT009044.1:CDS
CCTGCAGTTTGTGTTGCTGA+TGG 0.605550 2:+52289794 MsaT009044.1:CDS
TCAGCTAAGTGTGAGTGTTG+CGG 0.613560 2:+52289590 MsaT009044.1:CDS
TGAGACATATACCTAGGAGA+AGG 0.619155 2:+52289819 MsaT009044.1:CDS
ATGGTATGAGACATATACCT+AGG 0.639592 2:+52289813 MsaT009044.1:CDS
TGAGTGTTGCGGCTTAACAG+AGG 0.655644 2:+52289601 MsaT009044.1:CDS
CATTTGTTTCACAGCAAACG+TGG 0.659491 2:-52290142 None:intergenic
CATCAAACAAACACAGTACG+AGG 0.670845 2:+52289858 MsaT009044.1:CDS
ACTTCAACTTCCCAAGTAGG+TGG 0.682110 2:+52289884 MsaT009044.1:CDS
GTTCTAGGCTCTAAATACTG+GGG 0.712321 2:+52290108 MsaT009044.1:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 52289578 52290362 52289578 ID=MsaG009044
Chr2 mRNA 52289578 52290362 52289578 ID=MsaT009044.1;Parent=MsaG009044
Chr2 exon 52289578 52289905 52289578 ID=MsaT009044.1.exon1;Parent=MsaT009044.1
Chr2 CDS 52289578 52289905 52289578 ID=cds.MsaT009044.1;Parent=MsaT009044.1
Chr2 exon 52290115 52290362 52290115 ID=MsaT009044.1.exon2;Parent=MsaT009044.1
Chr2 CDS 52290115 52290362 52290115 ID=cds.MsaT009044.1;Parent=MsaT009044.1
Gene Sequence

>MsaT009044.1

ATGGAAATCGAATCAGCTAAGTGTGAGTGTTGCGGCTTAACAGAGGATTGCACTCAAGACTACATCAGTGAAGTGAAGTCAAAATTTGATGGAAAATGGTTATGTGGGTTGTGTTCAGAAGCTGTTAGAGATGAAGCTATTAGAGGGAAAAAGACATTTGCAATGGAAGAAGCAATAAAAGCTCACATGTTGTTCTGTTGTAAGATTAAATCAAATCCTGCAGTTTGTGTTGCTGATGGTATGAGACATATACCTAGGAGAAGGTCAACAAAGTTGTCTTCATCAAACAAACACAGTACGAGGTCAACTTCAACTTCCCAAGTAGGTGGCTCTAAATACTGGGGTAAAGGGATTACCACGTTTGCTGTGAAACAAATGGTTAAGGTTGCATTCATTGTATCTTCATACTTGGAAAGGCTTGAAGCTCTTGTTGATGTGGATAATGTTGGGTCGCAAAGAGTGCTTGAGAAAGTTGGTTTCCAAAAGGAGGGAGTTCTTAGGAAGTATGTATTCTTTAAAGGAAAAAGTAGAGATATGATCATGTTCAGTCTTCTTTCTATTGATCTTCAACTATGA
Protein sequence

>MsaT009044.1

MEIESAKCECCGLTEDCTQDYISEVKSKFDGKWLCGLCSEAVRDEAIRGKKTFAMEEAIKAHMLFCCKIKSNPAVCVADGMRHIPRRRSTKLSSSNKHSTRSTSTSQVGGSKYWGKGITTFAVKQMVKVAFIVSSYLERLEALVDVDNVGSQRVLEKVGFQKEGVLRKYVFFKGKSRDMIMFSLLSIDLQL*