AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG009727

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009727 MtrunA17_Chr2g0316391 89.701 301 23 4 1 300 1 294 1.11e-153 431
MsaG009727 MtrunA17_Chr8g0360441 41.278 407 118 13 3 299 37 432 4.47e-74 233
MsaG009727 MtrunA17_Chr2g0325171 38.643 339 134 11 3 291 7 321 1.28e-58 191
MsaG009727 MtrunA17_Chr4g0040921 36.254 331 143 9 3 281 5 319 3.15e-49 166
MsaG009727 MtrunA17_Chr7g0219461 62.162 74 28 0 14 87 51 124 7.11e-25 102
MsaG009727 MtrunA17_Chr8g0376571 60.526 76 27 1 14 89 55 127 8.06e-23 98.2
MsaG009727 MtrunA17_Chr6g0454781 63.235 68 25 0 14 81 43 110 3.45e-21 92.0
MsaG009727 MtrunA17_Chr4g0061561 58.824 68 28 0 14 81 51 118 1.24e-20 90.1
MsaG009727 MtrunA17_Chr3g0086961 47.423 97 47 2 14 109 51 144 2.07e-20 90.5
MsaG009727 MtrunA17_Chr1g0205131 57.377 61 26 0 19 79 108 168 6.59e-17 80.5
MsaG009727 MtrunA17_Chr6g0456881 58.333 60 25 0 20 79 126 185 2.78e-16 78.6
MsaG009727 MtrunA17_Chr7g0220931 58.621 58 24 0 22 79 122 179 6.38e-16 77.4
MsaG009727 MtrunA17_Chr4g0062691 53.731 67 30 1 14 79 125 191 4.94e-15 74.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009727 AT1G53230.1 42.246 374 122 16 4 299 33 390 5.62e-66 212
MsaG009727 AT1G53230.2 42.246 374 122 16 4 299 33 390 5.62e-66 212
MsaG009727 AT2G31070.1 85.526 76 11 0 3 78 12 87 1.55e-39 142
MsaG009727 AT4G18390.1 50.000 100 42 2 2 101 29 120 1.20e-23 99.8
MsaG009727 AT4G18390.2 50.000 100 42 2 2 101 29 120 1.20e-23 99.8
MsaG009727 AT3G02150.1 63.768 69 25 0 14 82 68 136 3.55e-23 96.7
MsaG009727 AT3G02150.2 57.317 82 33 1 14 93 68 149 4.06e-23 97.8
MsaG009727 AT1G30210.2 58.333 84 31 1 14 97 44 123 1.73e-22 95.9
MsaG009727 AT1G30210.1 58.333 84 31 1 14 97 44 123 1.73e-22 95.9
MsaG009727 AT5G60970.1 58.824 68 28 0 14 81 57 124 9.02e-21 91.7
MsaG009727 AT5G08070.2 53.571 84 32 2 2 83 20 98 4.23e-20 87.8
MsaG009727 AT5G08070.1 53.571 84 32 2 2 83 20 98 4.23e-20 87.8
MsaG009727 AT1G68800.1 57.143 63 27 0 16 78 108 170 8.99e-20 88.6
MsaG009727 AT1G68800.2 57.143 63 27 0 16 78 108 170 9.06e-20 88.6
MsaG009727 AT3G15030.2 44.828 145 61 4 168 299 281 419 1.26e-17 83.2
MsaG009727 AT3G15030.4 44.828 145 61 4 168 299 281 419 1.26e-17 83.2
MsaG009727 AT3G15030.3 44.828 145 61 4 168 299 281 419 1.26e-17 83.2
MsaG009727 AT3G15030.1 44.828 145 61 4 168 299 281 419 1.26e-17 83.2
MsaG009727 AT1G67260.1 54.545 66 30 0 15 80 82 147 1.92e-17 82.0
MsaG009727 AT1G67260.2 54.545 66 30 0 15 80 82 147 1.93e-17 82.0
MsaG009727 AT1G67260.3 54.545 66 30 0 15 80 82 147 1.93e-17 82.0
MsaG009727 AT3G18550.3 55.738 61 27 0 19 79 147 207 1.64e-15 77.0
MsaG009727 AT3G18550.2 55.738 61 27 0 19 79 147 207 1.75e-15 76.6
MsaG009727 AT3G18550.1 55.738 61 27 0 19 79 147 207 1.78e-15 76.6
MsaG009727 AT3G18550.4 55.738 61 27 0 19 79 147 207 1.78e-15 76.6

Find 80 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAGCCAATCAAGTGCTTTAC+TGG 0.263366 2:-63913709 None:intergenic
TTACTAAACGACACCGTTTC+AGG 0.281541 2:-63913939 None:intergenic
TCGGGTGCCGGATTTGCTTC+TGG 0.295233 2:+63914302 MsaT009727.1:CDS
TTCCGTGTGCCGGCACGAAT+TGG 0.322438 2:+63914338 MsaT009727.1:CDS
CGACGTCAAGCAGGTGGTTC+GGG 0.360165 2:+63914284 MsaT009727.1:CDS
AGTGGTGGCGGTGGCGGTGG+TGG 0.371377 2:+63914095 MsaT009727.1:CDS
TCGACGTCAAGCAGGTGGTT+CGG 0.375680 2:+63914283 MsaT009727.1:CDS
TTGACGGAGGTCACATTATA+AGG 0.376567 2:+63913556 MsaT009727.1:CDS
ACTGGTAGTGGTGGCGGTGG+CGG 0.399543 2:+63914089 MsaT009727.1:CDS
GGAATGGTGACGTGGAATTC+CGG 0.402921 2:+63914044 MsaT009727.1:CDS
CACCATTCCATCAAAATTCC+CGG 0.405073 2:-63914030 None:intergenic
GGCGGTGGCGGTGGTGGTGA+TGG 0.409503 2:+63914101 MsaT009727.1:CDS
GGTAGTGGTGGCGGTGGCGG+TGG 0.410519 2:+63914092 MsaT009727.1:CDS
AAAGCCACCAGAAGCAAATC+CGG 0.422822 2:-63914309 None:intergenic
CGTAAAATTCAATAGCGGTA+TGG 0.430606 2:-63913656 None:intergenic
CAAGCAGGTGGTTCGGGTGC+CGG 0.431454 2:+63914290 MsaT009727.1:CDS
ACGAACTGAAGGATTGTAAC+TGG 0.446835 2:-63914219 None:intergenic
TCGTGGTTCTTCGCCGTCGC+CGG 0.455216 2:+63914133 MsaT009727.1:CDS
AAGATCGACTGGGCTTTGAT+AGG 0.456624 2:+63913685 MsaT009727.1:CDS
GTAAAGTTTGCACGGCGAAA+GGG 0.459864 2:+63913604 MsaT009727.1:CDS
GTAAAATTCAATAGCGGTAT+GGG 0.466376 2:-63913655 None:intergenic
AATGAACGGTGGAGAAATAG+TGG 0.479738 2:+63913530 None:intergenic
TCAAAATGAAATACCTGAAA+CGG 0.483741 2:+63913926 MsaT009727.1:CDS
TTGAAAAGAGTGGGTTTCCA+TGG 0.485913 2:-63913777 None:intergenic
ACAATCCTTCAGTTCGTGCT+TGG 0.487224 2:+63914225 MsaT009727.1:CDS
AGTAAAGTTTGCACGGCGAA+AGG 0.487726 2:+63913603 MsaT009727.1:CDS
AGACAGACGCGTCCGTCTCT+CGG 0.489881 2:+63913632 MsaT009727.1:CDS
TTACGATGTTCAAGATCGAC+TGG 0.498681 2:+63913674 MsaT009727.1:CDS
GGCCCAGTAAAGCACTTGAT+TGG 0.499781 2:+63913706 MsaT009727.1:CDS
TGCATGGCGGTTTATCTGAC+AGG 0.502645 2:+63914378 MsaT009727.1:CDS
GGTGCTGCTACTATTGATAC+TGG 0.504487 2:+63914071 MsaT009727.1:CDS
CGTGTGCCGGCACGAATTGG+AGG 0.505599 2:+63914341 MsaT009727.1:CDS
GCTACTATTGATACTGGTAG+TGG 0.527342 2:+63914077 MsaT009727.1:CDS
CTGTTGCTGTTTGAAAAGAG+TGG 0.528585 2:-63913787 None:intergenic
AACTCGCTCATCTTCCTCCA+TGG 0.528899 2:+63913760 MsaT009727.1:CDS
CTCCAATTCGTGCCGGCACA+CGG 0.530036 2:-63914340 None:intergenic
TGAGCGAGTTGGTCGATGGC+GGG 0.534149 2:-63913747 None:intergenic
TGGTTCTTCGCCGTCGCCGG+TGG 0.544579 2:+63914136 MsaT009727.1:CDS
AGGATTGTAACTGGACTGAA+GGG 0.547857 2:-63914210 None:intergenic
AGACGGACGCGTCTGTCTCT+CGG 0.552176 2:-63913627 None:intergenic
GCTGATTATCGACGTCAAGC+AGG 0.557598 2:+63914275 MsaT009727.1:CDS
TAGCGGTATGGGCCGAGAGA+CGG 0.558275 2:-63913644 None:intergenic
TGTTGCTGTTTGAAAAGAGT+GGG 0.562416 2:-63913786 None:intergenic
GTGACGTGGAATTCCGGTGG+TGG 0.563932 2:+63914050 MsaT009727.1:CDS
GGTGCCGGATTTGCTTCTGG+TGG 0.566408 2:+63914305 MsaT009727.1:CDS
AGCCAATCAAGTGCTTTACT+GGG 0.566827 2:-63913708 None:intergenic
GGAGAAATAGTGGAAGTTGA+CGG 0.571965 2:+63913540 MsaT009727.1:CDS
AAGGATTGTAACTGGACTGA+AGG 0.573483 2:-63914211 None:intergenic
AATTCAACGGCGAGAATCAG+AGG 0.575041 2:-63914414 None:intergenic
TTCTGACCATACATCATCGC+CGG 0.576031 2:-63914164 None:intergenic
TGCGCCGGCGACATTTGTTG+CGG 0.586332 2:+63914253 MsaT009727.1:CDS
TCGTGCTTGGATAGATGCGC+CGG 0.589204 2:+63914238 MsaT009727.1:CDS
TCTATCCAAGCACGAACTGA+AGG 0.592530 2:-63914230 None:intergenic
GAATCAGTATCTTTCACAGA+GGG 0.594638 2:+63914184 MsaT009727.1:CDS
AATAGTAGCAGCACCACCAC+CGG 0.596186 2:-63914063 None:intergenic
TCATCACCTCCAATTCGTGC+CGG 0.596792 2:-63914347 None:intergenic
GATTATGGAGGAATAATGAA+CGG 0.602608 2:+63913516 None:intergenic
TCAGCCGCAACAAATGTCGC+CGG 0.604069 2:-63914257 None:intergenic
TATGGAGGAATAATGAACGG+TGG 0.607439 2:+63913519 None:intergenic
AAGATGAGCGAGTTGGTCGA+TGG 0.609232 2:-63913751 None:intergenic
GATACTGGTAGTGGTGGCGG+TGG 0.609847 2:+63914086 MsaT009727.1:CDS
ATTGATACTGGTAGTGGTGG+CGG 0.619170 2:+63914083 MsaT009727.1:CDS
ATGAGCGAGTTGGTCGATGG+CGG 0.623869 2:-63913748 None:intergenic
ACGAATTGGAGGTGATGATG+AGG 0.624959 2:+63914352 MsaT009727.1:CDS
TACGATGTTCAAGATCGACT+GGG 0.627373 2:+63913675 MsaT009727.1:CDS
ATGGAGGAAGATGAGCGAGT+TGG 0.629741 2:-63913758 None:intergenic
TCGTCATAGTAAAGTTTGCA+CGG 0.630099 2:+63913596 MsaT009727.1:CDS
AAAAGAGTGGGTTTCCATGG+AGG 0.642106 2:-63913774 None:intergenic
GGTCACATTATAAGGTCAAG+AGG 0.643297 2:+63913564 MsaT009727.1:CDS
GATTATCGACGTCAAGCAGG+TGG 0.656395 2:+63914278 MsaT009727.1:CDS
ATGGTGACGTGGAATTCCGG+TGG 0.669456 2:+63914047 MsaT009727.1:CDS
AACATCGTAAAATTCAATAG+CGG 0.671747 2:-63913661 None:intergenic
GAATCAGAGGAAGCAGACGA+CGG 0.673313 2:-63914401 None:intergenic
ACTATTGATACTGGTAGTGG+TGG 0.683426 2:+63914080 MsaT009727.1:CDS
GGTGATGATGAGGAGATGCA+TGG 0.698910 2:+63914362 MsaT009727.1:CDS
GGATTGTAACTGGACTGAAG+GGG 0.704803 2:-63914209 None:intergenic
GAAATAGTGGAAGTTGACGG+AGG 0.730713 2:+63913543 MsaT009727.1:CDS
AATCAGTATCTTTCACAGAG+GGG 0.746034 2:+63914185 MsaT009727.1:CDS
AGAATCAGTATCTTTCACAG+AGG 0.756640 2:+63914183 MsaT009727.1:CDS
GATGATGAGGAGATGCATGG+CGG 0.819316 2:+63914365 MsaT009727.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 63913531 63914433 63913531 ID=MsaG009727
Chr2 mRNA 63913531 63914433 63913531 ID=MsaT009727.1;Parent=MsaG009727
Chr2 exon 63913531 63914433 63913531 ID=MsaT009727.1.exon1;Parent=MsaT009727.1
Chr2 CDS 63913531 63914433 63913531 ID=cds.MsaT009727.1;Parent=MsaT009727.1
Gene Sequence

>MsaT009727.1

ATGAACGGTGGAGAAATAGTGGAAGTTGACGGAGGTCACATTATAAGGTCAAGAGGTCGAAAAGATCGTCATAGTAAAGTTTGCACGGCGAAAGGGCCGAGAGACAGACGCGTCCGTCTCTCGGCCCATACCGCTATTGAATTTTACGATGTTCAAGATCGACTGGGCTTTGATAGGCCCAGTAAAGCACTTGATTGGCTCATTAATAAAGCTAAGCCCGCCATCGACCAACTCGCTCATCTTCCTCCATGGAAACCCACTCTTTTCAAACAGCAACAGCAAAAGCAAAACGACGACGTTTTAGAGAAACAGAATCAAAACGAAAACGAAAACAACGAGTTTCGTTTTCTTCAGAATTTTAGCAATAATAGTAACAGCAACTGTTTCATTCCGTTTCAAAATGAAATACCTGAAACGGTGTCGTTTAGTAATGATTTGAAGCTTTCGCTTCAACAGAATCATAATCAGAATCAACACGTGCAACAGCACGTGCTTTTCGCCGGGAATTTTGATGGAATGGTGACGTGGAATTCCGGTGGTGGTGCTGCTACTATTGATACTGGTAGTGGTGGCGGTGGCGGTGGTGGTGATGGTTTTGTGTTTCGTGGTTCTTCGCCGTCGCCGGTGGTTTTTCCGGCGATGATGTATGGTCAGAATCAGTATCTTTCACAGAGGGGACCCCTTCAGTCCAGTTACAATCCTTCAGTTCGTGCTTGGATAGATGCGCCGGCGACATTTGTTGCGGCTGATTATCGACGTCAAGCAGGTGGTTCGGGTGCCGGATTTGCTTCTGGTGGCTTTTCTGGTTTCCGTGTGCCGGCACGAATTGGAGGTGATGATGAGGAGATGCATGGCGGTTTATCTGACAGGCCGTCGTCTGCTTCCTCTGATTCTCGCCGTTGA
Protein sequence

>MsaT009727.1

MNGGEIVEVDGGHIIRSRGRKDRHSKVCTAKGPRDRRVRLSAHTAIEFYDVQDRLGFDRPSKALDWLINKAKPAIDQLAHLPPWKPTLFKQQQQKQNDDVLEKQNQNENENNEFRFLQNFSNNSNSNCFIPFQNEIPETVSFSNDLKLSLQQNHNQNQHVQQHVLFAGNFDGMVTWNSGGGAATIDTGSGGGGGGGDGFVFRGSSPSPVVFPAMMYGQNQYLSQRGPLQSSYNPSVRAWIDAPATFVAADYRRQAGGSGAGFASGGFSGFRVPARIGGDDEEMHGGLSDRPSSASSDSRR*