AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG032262

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG032262 MtrunA17_Chr3g0117091 87.500 56 7 0 1 56 1 56 4.32e-32 112
MsaG032262 MtrunA17_Chr1g0211161 86.792 53 7 0 4 56 5 57 1.57e-27 98.2
MsaG032262 MtrunA17_Chr4g0058631 78.571 56 12 0 1 56 1 56 9.11e-27 98.6
MsaG032262 MtrunA17_Chr2g0330041 71.429 56 16 0 1 56 1 56 2.47e-25 95.1
MsaG032262 MtrunA17_Chr8g0342541 69.643 56 17 0 1 56 1 56 7.84e-25 93.2
MsaG032262 MtrunA17_Chr7g0271241 75.000 56 14 0 1 56 1 56 9.04e-25 93.6
MsaG032262 MtrunA17_Chr1g0193371 75.000 56 14 0 1 56 1 56 2.31e-24 92.4
MsaG032262 MtrunA17_Chr8g0342521 67.857 56 18 0 1 56 1 56 7.02e-24 90.9
MsaG032262 MtrunA17_Chr7g0270891 71.429 56 16 0 1 56 1 56 3.10e-23 89.4
MsaG032262 MtrunA17_Chr8g0342511 69.643 56 17 0 1 56 1 56 3.24e-23 83.6
MsaG032262 MtrunA17_Chr1g0193801 69.643 56 17 0 1 56 1 56 3.20e-22 86.7
MsaG032262 MtrunA17_Chr5g0397231 62.500 56 21 0 1 56 1 56 2.55e-21 84.0
MsaG032262 MtrunA17_Chr8g0342481 64.912 57 19 1 1 56 1 57 7.41e-21 83.2
MsaG032262 MtrunA17_Chr8g0342531 66.071 56 19 0 1 56 1 56 1.01e-20 79.3
MsaG032262 MtrunA17_Chr2g0309911 66.071 56 18 1 1 56 1 55 1.36e-19 79.0
MsaG032262 MtrunA17_Chr8g0387421 60.714 56 22 0 1 56 1 56 1.95e-19 78.6
MsaG032262 MtrunA17_Chr8g0342471 64.912 57 19 1 1 56 1 57 3.83e-19 74.3
MsaG032262 MtrunA17_Chr8g0342461 63.158 57 20 1 1 56 1 57 1.15e-18 73.2
MsaG032262 MtrunA17_Chr4g0032401 69.565 46 14 0 11 56 16 61 1.43e-17 73.6
MsaG032262 MtrunA17_Chr3g0088461 64.583 48 17 0 9 56 19 66 6.36e-17 72.0
MsaG032262 MtrunA17_Chr2g0328771 66.667 45 15 0 12 56 20 64 2.96e-16 69.7
MsaG032262 MtrunA17_Chr6g0452271 50.000 56 28 0 1 56 1 56 5.16e-15 66.6
MsaG032262 MtrunA17_Chr6g0470971 66.667 48 16 0 9 56 11 58 9.19e-15 65.5
MsaG032262 MtrunA17_Chr1g0203441 68.750 48 15 0 9 56 10 57 1.46e-14 65.1
MsaG032262 MtrunA17_Chr3g0131121 51.786 56 27 0 1 56 1 56 3.72e-14 63.9
MsaG032262 MtrunA17_Chr5g0435101 52.941 51 24 0 6 56 5 55 8.07e-14 62.4
MsaG032262 MtrunA17_Chr3g0110351 53.571 56 26 0 1 56 1 56 1.01e-13 62.8
MsaG032262 MtrunA17_Chr5g0434571 53.571 56 26 0 1 56 37 92 1.63e-13 62.4
MsaG032262 MtrunA17_Chr3g0115821 50.000 56 28 0 1 56 1 56 1.91e-13 62.4
MsaG032262 MtrunA17_Chr7g0228891 51.786 56 27 0 1 56 1 56 1.95e-13 62.0
MsaG032262 MtrunA17_Chr6g0453471 51.786 56 27 0 1 56 1 56 2.24e-13 62.0
MsaG032262 MtrunA17_Chr4g0042671 51.786 56 27 0 1 56 1 56 2.51e-13 62.0
MsaG032262 MtrunA17_Chr8g0385321 55.357 56 25 0 1 56 1 56 2.95e-13 61.6
MsaG032262 MtrunA17_Chr4g0039971 50.000 56 28 0 1 56 2 57 3.98e-13 61.2
MsaG032262 MtrunA17_Chr2g0323411 51.786 56 27 0 1 56 1 56 5.71e-13 60.8
MsaG032262 MtrunA17_Chr4g0042611 50.000 56 28 0 1 56 1 56 6.07e-13 57.4
MsaG032262 MtrunA17_Chr2g0323351 52.083 48 23 0 9 56 9 56 1.30e-12 59.3
MsaG032262 MtrunA17_Chr4g0037141 50.000 56 28 0 1 56 1 56 2.88e-12 58.5
MsaG032262 MtrunA17_Chr1g0151941 47.368 57 29 1 1 56 1 57 3.93e-12 58.2
MsaG032262 MtrunA17_Chr4g0022931 47.059 51 27 0 6 56 7 57 4.05e-12 58.2
MsaG032262 MtrunA17_Chr4g0057031 50.000 56 28 0 1 56 1 56 4.31e-12 58.2
MsaG032262 MtrunA17_Chr2g0281071 50.980 51 25 0 6 56 7 57 4.79e-12 58.2
MsaG032262 MtrunA17_Chr3g0103281 48.214 56 29 0 1 56 1 56 4.92e-12 58.2
MsaG032262 MtrunA17_Chr5g0410961 48.214 56 29 0 1 56 1 56 5.61e-12 58.2
MsaG032262 MtrunA17_Chr2g0311221 45.455 55 30 0 2 56 4 58 6.67e-12 57.8
MsaG032262 MtrunA17_Chr4g0022901 47.059 51 27 0 6 56 7 57 6.72e-12 57.8
MsaG032262 MtrunA17_Chr5g0395281 55.556 45 20 0 12 56 12 56 1.28e-11 57.0
MsaG032262 MtrunA17_Chr4g0048511 49.020 51 26 0 6 56 7 57 2.88e-11 56.2
MsaG032262 MtrunA17_Chr2g0327351 50.877 57 27 1 1 56 1 57 3.64e-11 55.8
MsaG032262 MtrunA17_Chr4g0022911 45.098 51 28 0 6 56 7 57 4.28e-11 55.5
MsaG032262 MtrunA17_Chr1g0203411 46.429 56 30 0 1 56 1 56 5.03e-11 55.5
MsaG032262 MtrunA17_Chr7g0261281 46.429 56 30 0 1 56 1 56 5.82e-11 55.1
MsaG032262 MtrunA17_Chr4g0070611 44.643 56 31 0 1 56 1 56 7.04e-11 55.1
MsaG032262 MtrunA17_Chr7g0217741 50.000 56 28 0 1 56 1 56 8.97e-11 54.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG032262 AT5G26660.1 75.000 56 14 0 1 56 1 56 1.27e-24 93.2
MsaG032262 AT3G13890.2 69.643 56 17 0 1 56 1 56 1.24e-23 90.5
MsaG032262 AT4G01680.3 71.429 56 16 0 1 56 1 56 3.69e-23 87.4
MsaG032262 AT4G01680.1 71.429 56 16 0 1 56 1 56 5.32e-23 88.6
MsaG032262 AT1G57560.2 71.429 56 16 0 1 56 1 56 4.73e-21 82.8
MsaG032262 AT1G57560.1 71.429 56 16 0 1 56 1 56 5.18e-21 83.2
MsaG032262 AT1G63910.1 62.500 56 21 0 1 56 1 56 5.49e-21 83.6
MsaG032262 AT1G09540.1 71.429 56 16 0 1 56 1 56 1.19e-20 82.8
MsaG032262 AT3G13890.1 60.000 65 17 1 1 56 1 65 1.40e-20 82.4
MsaG032262 AT4G01680.2 58.824 68 16 1 1 56 1 68 8.81e-20 80.1
MsaG032262 AT3G12720.1 62.500 56 20 1 1 56 12 66 1.50e-18 76.3
MsaG032262 AT5G12870.1 63.830 47 17 0 10 56 16 62 5.34e-16 69.3
MsaG032262 AT3G08500.1 60.417 48 19 0 9 56 27 74 5.74e-15 67.0
MsaG032262 AT4G05100.1 54.902 51 23 0 6 56 7 57 1.67e-14 65.5
MsaG032262 AT3G28470.1 51.786 56 27 0 1 56 1 56 1.67e-14 65.5
MsaG032262 AT3G02940.2 50.000 56 28 0 1 56 1 56 1.70e-13 62.8
MsaG032262 AT3G01140.2 53.571 56 26 0 1 56 1 56 1.82e-13 62.8
MsaG032262 AT1G34670.1 50.000 56 28 0 1 56 1 56 2.11e-13 62.4
MsaG032262 AT5G65230.1 53.571 56 26 0 1 56 1 56 2.37e-13 62.4
MsaG032262 AT3G02940.1 50.000 56 28 0 1 56 1 56 2.93e-13 62.0
MsaG032262 AT3G02940.3 50.000 56 28 0 1 56 1 56 2.93e-13 62.0
MsaG032262 AT4G12350.1 50.000 56 28 0 1 56 1 56 6.78e-13 60.8
MsaG032262 AT4G21440.1 50.000 56 28 0 1 56 1 56 7.22e-13 60.8
MsaG032262 AT3G01140.1 54.902 51 23 0 6 56 49 99 1.16e-12 60.5
MsaG032262 AT3G48920.1 58.333 48 20 0 9 56 15 62 1.28e-12 60.1
MsaG032262 AT1G06180.1 53.571 56 26 0 1 56 1 56 1.30e-12 59.7
MsaG032262 AT5G15310.1 51.786 56 27 0 1 56 1 56 1.31e-12 60.1
MsaG032262 AT4G22680.1 50.000 56 28 0 1 56 1 56 1.46e-12 59.7
MsaG032262 AT5G15310.2 51.786 56 27 0 1 56 1 56 1.57e-12 60.1
MsaG032262 AT4G28110.1 48.214 56 29 0 1 56 1 56 1.66e-12 59.7
MsaG032262 AT5G10280.1 48.214 56 29 0 1 56 1 56 1.94e-12 59.7
MsaG032262 AT5G52260.1 60.417 48 19 0 9 56 9 56 1.98e-12 59.3
MsaG032262 AT2G31180.1 46.429 56 30 0 1 56 1 56 2.25e-12 59.3
MsaG032262 AT5G14340.1 50.000 56 28 0 1 56 13 68 2.38e-12 59.3
MsaG032262 AT5G56110.1 48.214 56 29 0 1 56 1 56 2.56e-12 59.3
MsaG032262 AT4G34990.1 51.786 56 27 0 1 56 1 56 2.96e-12 58.9
MsaG032262 AT1G18570.1 47.059 51 27 0 6 56 7 57 2.97e-12 59.3
MsaG032262 AT5G60890.1 45.098 51 28 0 6 56 6 56 3.39e-12 58.9
MsaG032262 AT4G09460.1 50.000 56 28 0 1 56 1 56 4.07e-12 58.2
MsaG032262 AT4G17785.2 52.941 51 24 0 6 56 7 57 4.35e-12 58.9
MsaG032262 AT1G74430.1 60.000 45 18 0 12 56 12 56 4.36e-12 58.5
MsaG032262 AT4G17785.1 52.941 51 24 0 6 56 7 57 4.40e-12 58.9
MsaG032262 AT5G16600.1 50.000 56 28 0 1 56 1 56 5.59e-12 58.5
MsaG032262 AT1G22640.1 50.000 56 28 0 1 56 1 56 7.46e-12 57.8
MsaG032262 AT2G16720.1 48.214 56 29 0 1 56 1 56 1.27e-11 57.4
MsaG032262 AT3G06490.1 55.556 45 20 0 12 56 19 63 1.35e-11 57.4
MsaG032262 AT5G54230.1 48.214 56 29 0 1 56 1 56 1.62e-11 57.0
MsaG032262 AT5G15310.4 51.786 56 27 0 1 56 1 56 1.74e-11 56.6
MsaG032262 AT5G16770.4 46.429 56 30 0 1 56 1 56 2.10e-11 57.0
MsaG032262 AT5G16770.3 46.429 56 30 0 1 56 1 56 2.10e-11 57.0
MsaG032262 AT5G16770.1 46.429 56 30 0 1 56 1 56 2.13e-11 57.0
MsaG032262 AT5G16770.2 46.429 56 30 0 1 56 1 56 2.13e-11 57.0
MsaG032262 AT5G07690.1 44.643 56 31 0 1 56 1 56 2.18e-11 57.0
MsaG032262 AT5G61420.2 44.643 56 31 0 1 56 1 56 3.22e-11 56.2
MsaG032262 AT3G61250.1 50.000 56 28 0 1 56 1 56 3.23e-11 56.2
MsaG032262 AT5G57620.1 47.368 57 29 1 1 56 1 57 3.96e-11 56.2
MsaG032262 AT4G25560.1 55.319 47 21 0 10 56 8 54 4.44e-11 55.8
MsaG032262 AT3G62610.1 48.214 56 29 0 1 56 1 56 4.73e-11 55.8
MsaG032262 AT3G01530.1 55.556 45 20 0 12 56 25 69 4.81e-11 55.1
MsaG032262 AT1G66230.1 51.786 56 27 0 1 56 1 56 5.52e-11 55.5
MsaG032262 AT4G38620.1 50.000 56 28 0 1 56 1 56 6.22e-11 55.5
MsaG032262 AT1G56160.1 47.273 55 29 0 2 56 4 58 6.24e-11 55.5
MsaG032262 AT2G47460.1 48.214 56 29 0 1 56 1 56 9.31e-11 55.1

Find 14 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGAAACTAAGAAAATGTTTA+TGG 0.274513 6:-47660126 MsaT032262.1:CDS
AAAGGCTTGTAATCTTCTTC+AGG 0.280558 6:+47660100 None:intergenic
TTCAATTACATATCCATGTT+TGG 0.329864 6:-47660079 MsaT032262.1:CDS
TCTGCTTTAAAGAACAGAAA+TGG 0.415285 6:+47660146 None:intergenic
TACATATCCATGTTTGGTGT+TGG 0.457927 6:-47660073 MsaT032262.1:CDS
CCATGTTTGGTGTTGGATGT+TGG 0.470672 6:-47660066 MsaT032262.1:CDS
AGTTCAGTTTCTAAACTAGC+TGG 0.488742 6:-47660043 MsaT032262.1:intron
CCAACATCCAACACCAAACA+TGG 0.502401 6:+47660066 None:intergenic
AAGGCTTGTAATCTTCTTCA+GGG 0.519253 6:+47660101 None:intergenic
AACATGGATATGTAATTGAA+AGG 0.557922 6:+47660082 None:intergenic
AGGGTTGCAAAGATGTGGAA+AGG 0.565448 6:-47659888 MsaT032262.1:CDS
GGGTTGCAAAGATGTGGAAA+GGG 0.612069 6:-47659887 MsaT032262.1:CDS
ATTGCAGGGTTGCAAAGATG+TGG 0.649776 6:-47659893 MsaT032262.1:intron
AGGCTTGTAATCTTCTTCAG+GGG 0.661780 6:+47660102 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 47659871 47660176 47659871 ID=MsaG032262
Chr6 mRNA 47659871 47660176 47659871 ID=MsaT032262.1;Parent=MsaG032262
Chr6 exon 47659871 47659908 47659871 ID=MsaT032262.1.exon2;Parent=MsaT032262.1
Chr6 CDS 47659871 47659908 47659871 ID=cds.MsaT032262.1;Parent=MsaT032262.1
Chr6 exon 47660044 47660176 47660044 ID=MsaT032262.1.exon1;Parent=MsaT032262.1
Chr6 CDS 47660044 47660176 47660044 ID=cds.MsaT032262.1;Parent=MsaT032262.1
Gene Sequence

>MsaT032262.1

ATGGGTCACCATTTCTGTTCTTTAAAGCAGAAACTAAGAAAATGTTTATGGTCCCCTGAAGAAGATTACAAGCCTTTCAATTACATATCCATGTTTGGTGTTGGATGTTGGAGTTCAGTTTCTAAACTAGCTGGGTTGCAAAGATGTGGAAAGGGTTGTAGATTAAGATAG
Protein sequence

>MsaT032262.1

MGHHFCSLKQKLRKCLWSPEEDYKPFNYISMFGVGCWSSVSKLAGLQRCGKGCRLR*