AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780038385.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780038385.01.T01 MTR_7g011950 91.964 112 9 0 12 123 32 143 1.31e-73 216
MsG0780038385.01.T01 MTR_4g028720 88.393 112 13 0 12 123 32 143 1.98e-70 208
MsG0780038385.01.T01 MTR_1g077320 81.250 112 21 0 12 123 32 143 2.27e-64 193
MsG0780038385.01.T01 MTR_1g084950 74.107 112 29 0 12 123 32 143 3.05e-56 172
MsG0780038385.01.T01 MTR_5g047580 68.033 122 39 0 3 124 23 144 1.28e-55 171
MsG0780038385.01.T01 MTR_1g077300 72.321 112 29 1 12 123 32 141 6.47e-53 164
MsG0780038385.01.T01 MTR_1g077390 64.706 119 42 0 5 123 25 143 9.19e-51 158
MsG0780038385.01.T01 MTR_5g047560 66.667 102 34 0 23 124 27 128 5.01e-44 140
MsG0780038385.01.T01 MTR_1g090783 52.941 119 56 0 5 123 24 142 5.75e-39 128
MsG0780038385.01.T01 MTR_1g090697 50.407 123 61 0 1 123 21 143 8.34e-39 128
MsG0780038385.01.T01 MTR_1g090710 49.167 120 60 1 5 123 25 144 2.16e-36 122
MsG0780038385.01.T01 MTR_4g032620 37.815 119 72 2 7 123 27 145 4.64e-26 97.8
MsG0780038385.01.T01 MTR_3g065100 41.593 113 65 1 12 123 32 144 1.13e-24 94.4
MsG0780038385.01.T01 MTR_3g466980 38.710 124 75 1 1 123 21 144 5.66e-24 92.0
MsG0780038385.01.T01 MTR_3g466830 37.500 112 69 1 7 117 26 137 7.10e-20 80.1
MsG0780038385.01.T01 MTR_3g466900 38.318 107 65 1 12 117 2 108 3.97e-19 77.4
MsG0780038385.01.T01 MTR_4g032260 35.398 113 71 2 12 122 32 144 9.25e-19 77.0
MsG0780038385.01.T01 MTR_5g075380 29.661 118 82 1 6 122 26 143 1.45e-18 76.6
MsG0780038385.01.T01 MTR_4g032290 35.398 113 71 2 12 122 32 144 4.97e-18 76.6
MsG0780038385.01.T01 MTR_4g031910 33.628 113 73 2 12 122 32 144 2.23e-17 75.1
MsG0780038385.01.T01 MTR_8g036130 33.607 122 77 2 6 123 26 147 1.19e-16 73.6
MsG0780038385.01.T01 MTR_3g466890 34.862 109 70 1 10 117 29 137 1.69e-16 71.2
MsG0780038385.01.T01 MTR_3g466930 34.579 107 69 1 12 117 2 108 4.98e-16 69.3
MsG0780038385.01.T01 MTR_4g063790 30.645 124 84 2 1 122 21 144 1.40e-15 69.3
MsG0780038385.01.T01 MTR_2g035580 34.483 116 75 1 7 121 27 142 6.31e-15 67.0
MsG0780038385.01.T01 MTR_3g467080 30.645 124 84 2 1 122 21 144 7.14e-15 67.0
MsG0780038385.01.T01 MTR_3g465410 32.759 116 76 2 9 122 1 116 9.32e-15 66.2
MsG0780038385.01.T01 MTR_3g031100 33.065 124 79 3 1 121 21 143 1.40e-13 65.1
MsG0780038385.01.T01 MTR_2g035610 33.333 87 57 1 12 97 32 118 1.44e-13 62.8
MsG0780038385.01.T01 MTR_3g031240 37.895 95 58 1 7 100 27 121 4.19e-13 62.8
MsG0780038385.01.T01 MTR_2g016210 34.188 117 75 2 7 121 27 143 4.46e-13 63.9
MsG0780038385.01.T01 MTR_4g028800 39.216 51 31 0 3 53 21 71 1.88e-12 58.5
MsG0780038385.01.T01 MTR_7g055800 32.941 85 43 1 11 95 18 88 3.10e-11 55.8
MsG0780038385.01.T03 MTR_7g011950 92.079 101 8 0 2 102 43 143 2.27e-65 194
MsG0780038385.01.T03 MTR_4g028720 88.119 101 12 0 2 102 43 143 2.23e-62 187
MsG0780038385.01.T03 MTR_1g077320 80.198 101 20 0 2 102 43 143 5.19e-56 171
MsG0780038385.01.T03 MTR_1g084950 73.267 101 27 0 2 102 43 143 1.70e-49 154
MsG0780038385.01.T03 MTR_1g077300 70.297 101 28 1 2 102 43 141 6.74e-45 142
MsG0780038385.01.T03 MTR_5g047560 66.667 102 34 0 2 103 27 128 1.13e-44 141
MsG0780038385.01.T03 MTR_5g047580 66.667 102 34 0 2 103 43 144 3.64e-44 140
MsG0780038385.01.T03 MTR_1g077390 63.366 101 37 0 2 102 43 143 4.98e-41 132
MsG0780038385.01.T03 MTR_1g090697 50.495 101 50 0 2 102 43 143 1.44e-30 106
MsG0780038385.01.T03 MTR_1g090783 50.980 102 50 0 1 102 41 142 8.98e-30 104
MsG0780038385.01.T03 MTR_1g090710 48.039 102 52 1 2 102 43 144 4.10e-28 100
MsG0780038385.01.T03 MTR_3g065100 39.216 102 61 1 2 102 43 144 3.30e-19 79.3
MsG0780038385.01.T03 MTR_4g032620 34.951 103 65 2 2 102 43 145 3.17e-18 76.6
MsG0780038385.01.T03 MTR_3g466980 38.235 102 62 1 2 102 43 144 6.95e-16 70.1
MsG0780038385.01.T03 MTR_3g466900 34.375 96 62 1 2 96 13 108 9.80e-14 62.8
MsG0780038385.01.T03 MTR_4g032260 32.353 102 67 2 2 101 43 144 1.21e-13 63.2
MsG0780038385.01.T03 MTR_4g032290 32.353 102 67 2 2 101 43 144 3.39e-13 63.2
MsG0780038385.01.T03 MTR_4g031910 30.392 102 69 2 2 101 43 144 2.10e-12 60.8
MsG0780038385.01.T03 MTR_3g466830 32.292 96 64 1 2 96 42 137 8.67e-12 58.2
MsG0780038385.01.T03 MTR_3g466890 31.250 96 65 1 2 96 42 137 8.95e-12 58.2
MsG0780038385.01.T03 MTR_5g075380 27.723 101 72 1 2 101 43 143 1.77e-11 57.4
MsG0780038385.01.T02 MTR_7g011950 91.964 112 9 0 4 115 32 143 1.46e-73 216
MsG0780038385.01.T02 MTR_4g028720 88.393 112 13 0 4 115 32 143 1.80e-70 208
MsG0780038385.01.T02 MTR_1g077320 81.250 112 21 0 4 115 32 143 2.63e-64 192
MsG0780038385.01.T02 MTR_1g084950 74.107 112 29 0 4 115 32 143 1.55e-56 172
MsG0780038385.01.T02 MTR_5g047580 69.828 116 35 0 1 116 29 144 5.35e-54 166
MsG0780038385.01.T02 MTR_1g077300 72.321 112 29 1 4 115 32 141 4.46e-53 164
MsG0780038385.01.T02 MTR_1g077390 65.217 115 40 0 1 115 29 143 5.94e-49 153
MsG0780038385.01.T02 MTR_5g047560 66.667 102 34 0 15 116 27 128 2.79e-44 141
MsG0780038385.01.T02 MTR_1g090697 53.043 115 54 0 1 115 29 143 2.13e-37 124
MsG0780038385.01.T02 MTR_1g090783 53.043 115 54 0 1 115 28 142 2.53e-37 124
MsG0780038385.01.T02 MTR_1g090710 50.000 116 57 1 1 115 29 144 5.28e-35 118
MsG0780038385.01.T02 MTR_3g065100 41.593 113 65 1 4 115 32 144 6.56e-25 94.7
MsG0780038385.01.T02 MTR_4g032620 37.607 117 71 2 1 115 29 145 7.48e-25 94.4
MsG0780038385.01.T02 MTR_3g466980 40.517 116 68 1 1 115 29 144 1.34e-22 88.2
MsG0780038385.01.T02 MTR_3g466830 38.182 110 67 1 1 109 28 137 8.96e-20 79.3
MsG0780038385.01.T02 MTR_3g466900 38.318 107 65 1 4 109 2 108 2.47e-19 77.4
MsG0780038385.01.T02 MTR_4g032260 35.398 113 71 2 4 114 32 144 6.41e-19 77.4
MsG0780038385.01.T02 MTR_4g032290 35.398 113 71 2 4 114 32 144 3.04e-18 77.0
MsG0780038385.01.T02 MTR_5g075380 30.435 115 79 1 1 114 29 143 3.94e-18 75.1
MsG0780038385.01.T02 MTR_4g031910 33.628 113 73 2 4 114 32 144 1.27e-17 75.5
MsG0780038385.01.T02 MTR_3g466890 34.862 109 70 1 2 109 29 137 9.12e-17 71.6
MsG0780038385.01.T02 MTR_3g466930 34.579 107 69 1 4 109 2 108 3.53e-16 69.3
MsG0780038385.01.T02 MTR_8g036130 33.613 119 75 2 1 115 29 147 1.71e-15 70.1
MsG0780038385.01.T02 MTR_3g465410 32.759 116 76 2 1 114 1 116 8.86e-15 66.2
MsG0780038385.01.T02 MTR_4g063790 31.034 116 78 2 1 114 29 144 7.25e-14 64.3
MsG0780038385.01.T02 MTR_2g035610 33.333 87 57 1 4 89 32 118 7.89e-14 63.2
MsG0780038385.01.T02 MTR_2g035580 33.628 113 74 1 2 113 30 142 1.49e-13 63.2
MsG0780038385.01.T02 MTR_3g467080 31.034 116 78 2 1 114 29 144 4.11e-13 62.4
MsG0780038385.01.T02 MTR_2g016210 33.913 115 74 2 1 113 29 143 6.34e-12 60.5
MsG0780038385.01.T02 MTR_3g031240 36.559 93 58 1 1 92 29 121 1.19e-11 58.9
MsG0780038385.01.T02 MTR_7g055800 32.941 85 43 1 3 87 18 88 1.94e-11 56.2
MsG0780038385.01.T02 MTR_3g031100 32.759 116 74 3 1 113 29 143 2.43e-11 58.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780038385.01.T01 AT5G27810 44.792 96 52 1 9 103 1 96 8.97e-23 86.3
MsG0780038385.01.T01 AT5G48670 42.478 113 64 1 12 123 32 144 1.66e-22 90.1
MsG0780038385.01.T01 AT3G05860 35.484 124 79 1 1 123 21 144 2.06e-20 82.8
MsG0780038385.01.T01 AT3G05860 35.484 124 79 1 1 123 21 144 1.03e-19 81.6
MsG0780038385.01.T01 AT3G05860 35.484 124 79 1 1 123 21 144 1.29e-19 81.6
MsG0780038385.01.T01 AT1G65300 33.065 124 82 1 1 123 20 143 8.60e-19 79.7
MsG0780038385.01.T01 AT5G26630 36.283 113 71 1 12 123 32 144 2.78e-18 77.4
MsG0780038385.01.T01 AT5G26650 34.746 118 76 1 5 121 23 140 2.49e-16 73.9
MsG0780038385.01.T01 AT1G65330 32.258 124 83 1 1 123 20 143 4.33e-16 72.4
MsG0780038385.01.T01 AT5G27960 39.130 92 55 1 7 97 25 116 3.79e-15 70.1
MsG0780038385.01.T01 AT1G31640 33.898 118 76 2 1 117 20 136 2.50e-14 68.6
MsG0780038385.01.T01 AT1G22590 37.500 72 38 1 1 65 21 92 1.41e-13 63.9
MsG0780038385.01.T01 AT2G28700 35.065 77 49 1 1 76 21 97 6.16e-13 64.3
MsG0780038385.01.T01 AT1G31630 28.455 123 86 2 1 122 20 141 7.92e-12 61.2
MsG0780038385.01.T03 AT5G48670 39.806 103 61 1 1 102 42 144 2.58e-17 75.5
MsG0780038385.01.T03 AT5G27810 40.964 83 48 1 1 82 14 96 1.24e-15 67.4
MsG0780038385.01.T03 AT5G26630 35.000 100 64 1 4 102 45 144 1.45e-13 63.9
MsG0780038385.01.T03 AT1G65300 32.353 102 68 1 2 102 42 143 2.70e-12 61.2
MsG0780038385.01.T03 AT3G05860 34.314 102 66 1 2 102 43 144 1.71e-11 58.2
MsG0780038385.01.T03 AT3G05860 34.314 102 66 1 2 102 43 144 4.98e-11 57.8
MsG0780038385.01.T03 AT3G05860 34.314 102 66 1 2 102 43 144 5.22e-11 57.4
MsG0780038385.01.T02 AT5G27810 44.792 96 52 1 1 95 1 96 7.48e-23 86.3
MsG0780038385.01.T02 AT5G48670 42.478 113 64 1 4 115 32 144 1.00e-22 90.5
MsG0780038385.01.T02 AT3G05860 37.069 116 72 1 1 115 29 144 3.77e-19 79.0
MsG0780038385.01.T02 AT5G26630 36.283 113 71 1 4 115 32 144 1.48e-18 77.8
MsG0780038385.01.T02 AT3G05860 37.069 116 72 1 1 115 29 144 1.72e-18 78.2
MsG0780038385.01.T02 AT3G05860 37.069 116 72 1 1 115 29 144 2.10e-18 78.2
MsG0780038385.01.T02 AT1G65300 34.783 115 74 1 2 115 29 143 8.73e-18 76.6
MsG0780038385.01.T02 AT1G65330 33.621 116 76 1 1 115 28 143 5.66e-15 68.9
MsG0780038385.01.T02 AT5G26650 34.211 114 74 1 1 113 27 140 1.12e-14 68.9
MsG0780038385.01.T02 AT5G27960 34.545 110 71 1 1 109 27 136 1.16e-13 65.9
MsG0780038385.01.T02 AT1G31640 34.862 109 69 2 2 109 29 136 2.07e-13 65.5
MsG0780038385.01.T02 AT1G22590 40.625 64 31 1 1 57 29 92 8.65e-12 58.9
MsG0780038385.01.T02 AT2G28700 36.232 69 43 1 1 68 29 97 7.24e-11 58.2

Find 19 sgRNAs with CRISPR-Local

Find 16 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGCAGAACATTCTTATGTTT+TGG 0.267458 7:-45540937 MsG0780038385.01.T01:CDS
TGTTTGGCTTCCTTTAGATT+TGG 0.353502 7:+45541094 None:intergenic
TACCTTCTTCCTCCTCTTGT+AGG 0.353982 7:+45541209 None:intergenic
ATACCTCTCAATCACCTGTT+TGG 0.354870 7:+45541078 None:intergenic
TTTGCAAAAGGAAACTTTCT+CGG 0.420759 7:+45541017 None:intergenic
AAATCTAAAGGAAGCCAAAC+AGG 0.425294 7:-45541092 MsG0780038385.01.T01:CDS
TCAGAAACAGTCACATCATC+TGG 0.447805 7:+45540893 None:intergenic
CTTTAGTAATCATTTGCAAA+AGG 0.449651 7:+45541005 None:intergenic
TGTTTCTGATTTGAAAGACT+TGG 0.473410 7:-45540879 MsG0780038385.01.T01:CDS
GCAAATGATTACTAAAGCTA+CGG 0.498143 7:-45540999 MsG0780038385.01.T01:CDS
ACCTCTGTTTCAGAATCAAA+AGG 0.516061 7:+45541121 None:intergenic
AGAGGTGTGGCCAAATCTAA+AGG 0.522555 7:-45541104 MsG0780038385.01.T01:CDS
AGAGAACTCACTATTCTTTG+TGG 0.526508 7:-45541172 MsG0780038385.01.T01:CDS
GGAAGAAGGTATCATCAAGA+AGG 0.577634 7:-45541197 MsG0780038385.01.T01:CDS
ATCCTACAAGAGGAGGAAGA+AGG 0.602209 7:-45541211 MsG0780038385.01.T01:CDS
TTGATTCTGAAACAGAGGTG+TGG 0.630350 7:-45541117 MsG0780038385.01.T01:CDS
AAGCCAAACAGGTGATTGAG+AGG 0.637552 7:-45541081 MsG0780038385.01.T01:CDS
GTGTTACATCCTACAAGAGG+AGG 0.676042 7:-45541218 None:intergenic
TGGGTGTTACATCCTACAAG+AGG 0.682620 7:-45541221 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! CTTTAGTAATCATTTGCAAA+AGG + Chr7:45541062-45541081 None:intergenic 25.0%
GCAAATGATTACTAAAGCTA+CGG - Chr7:45541065-45541084 MsG0780038385.01.T01:CDS 30.0%
TTTGCAAAAGGAAACTTTCT+CGG + Chr7:45541050-45541069 None:intergenic 30.0%
! AGCAGAACATTCTTATGTTT+TGG - Chr7:45541127-45541146 MsG0780038385.01.T01:CDS 30.0%
! TGTTTCTGATTTGAAAGACT+TGG - Chr7:45541185-45541204 MsG0780038385.01.T01:CDS 30.0%
AAATCTAAAGGAAGCCAAAC+AGG - Chr7:45540972-45540991 MsG0780038385.01.T01:CDS 35.0%
ACCTCTGTTTCAGAATCAAA+AGG + Chr7:45540946-45540965 None:intergenic 35.0%
AGAGAACTCACTATTCTTTG+TGG - Chr7:45540892-45540911 MsG0780038385.01.T01:CDS 35.0%
! TGTTTGGCTTCCTTTAGATT+TGG + Chr7:45540973-45540992 None:intergenic 35.0%
!!! TCCTTTTGATTCTGAAACAG+AGG - Chr7:45540942-45540961 MsG0780038385.01.T01:CDS 35.0%
ATACCTCTCAATCACCTGTT+TGG + Chr7:45540989-45541008 None:intergenic 40.0%
TCAGAAACAGTCACATCATC+TGG + Chr7:45541174-45541193 None:intergenic 40.0%
!! GGAAGAAGGTATCATCAAGA+AGG - Chr7:45540867-45540886 MsG0780038385.01.T01:CDS 40.0%
!! TTGATTCTGAAACAGAGGTG+TGG - Chr7:45540947-45540966 MsG0780038385.01.T01:CDS 40.0%
AAGCCAAACAGGTGATTGAG+AGG - Chr7:45540983-45541002 MsG0780038385.01.T01:CDS 45.0%
! AGAGGTGTGGCCAAATCTAA+AGG - Chr7:45540960-45540979 MsG0780038385.01.T01:CDS 45.0%
Chromosome Type Strat End Strand Name
Chr7 gene 45540856 45541230 45540856 ID=MsG0780038385.01;Name=MsG0780038385.01
Chr7 mRNA 45540856 45541230 45540856 ID=MsG0780038385.01.T01;Parent=MsG0780038385.01;Name=MsG0780038385.01.T01;_AED=0.49;_eAED=0.49;_QI=0|-1|0|1|-1|1|1|0|124
Chr7 exon 45540856 45541230 45540856 ID=MsG0780038385.01.T01:exon:4218;Parent=MsG0780038385.01.T01
Chr7 CDS 45540856 45541230 45540856 ID=MsG0780038385.01.T01:cds;Parent=MsG0780038385.01.T01
Chr7 mRNA 45540856 45541206 45540856 ID=MsG0780038385.01.T02;Parent=MsG0780038385.01;Name=MsG0780038385.01.T02;_AED=0.49;_eAED=0.49;_QI=0|-1|0|1|-1|1|1|0|116
Chr7 exon 45540856 45541206 45540856 ID=MsG0780038385.01.T02:exon:4219;Parent=MsG0780038385.01.T02
Chr7 CDS 45540856 45541206 45540856 ID=MsG0780038385.01.T02:cds;Parent=MsG0780038385.01.T02
Chr7 mRNA 45540856 45541167 45540856 ID=MsG0780038385.01.T03;Parent=MsG0780038385.01;Name=MsG0780038385.01.T03;_AED=0.49;_eAED=0.49;_QI=0|-1|0|1|-1|1|1|0|103
Chr7 exon 45540856 45541167 45540856 ID=MsG0780038385.01.T03:exon:4220;Parent=MsG0780038385.01.T03
Chr7 CDS 45540856 45541167 45540856 ID=MsG0780038385.01.T03:cds;Parent=MsG0780038385.01.T03
Gene Sequence

>MsG0780038385.01.T01

CTACAAGAGGAGGAAGAAGGTATCATCAAGAAGGTGAGAGAACTCACTATTCTTTGTGGTATTTCAGCATGTGCTATAATTTATGATCCTTTTGATTCTGAAACAGAGGTGTGGCCAAATCTAAAGGAAGCCAAACAGGTGATTGAGAGGTATCAAAACTCATATATGAAAGATGAGAGAAAAAATGTGAACCGAGAAAGTTTCCTTTTGCAAATGATTACTAAAGCTACGGAACATCTGAGAATGCAAAGACACGACAATCATGAGAATGAGCAGAACATTCTTATGTTTTGGTACATGCAAAACAACAAGCTGCCAGATGATGTGACTGTTTCTGATTTGAAAGACTTGGATAAGTTAATTGAAAAAATATGA

>MsG0780038385.01.T03

TCAGCATGTGCTATAATTTATGATCCTTTTGATTCTGAAACAGAGGTGTGGCCAAATCTAAAGGAAGCCAAACAGGTGATTGAGAGGTATCAAAACTCATATATGAAAGATGAGAGAAAAAATGTGAACCGAGAAAGTTTCCTTTTGCAAATGATTACTAAAGCTACGGAACATCTGAGAATGCAAAGACACGACAATCATGAGAATGAGCAGAACATTCTTATGTTTTGGTACATGCAAAACAACAAGCTGCCAGATGATGTGACTGTTTCTGATTTGAAAGACTTGGATAAGTTAATTGAAAAAATATGA

>MsG0780038385.01.T02

ATCAAGAAGGTGAGAGAACTCACTATTCTTTGTGGTATTTCAGCATGTGCTATAATTTATGATCCTTTTGATTCTGAAACAGAGGTGTGGCCAAATCTAAAGGAAGCCAAACAGGTGATTGAGAGGTATCAAAACTCATATATGAAAGATGAGAGAAAAAATGTGAACCGAGAAAGTTTCCTTTTGCAAATGATTACTAAAGCTACGGAACATCTGAGAATGCAAAGACACGACAATCATGAGAATGAGCAGAACATTCTTATGTTTTGGTACATGCAAAACAACAAGCTGCCAGATGATGTGACTGTTTCTGATTTGAAAGACTTGGATAAGTTAATTGAAAAAATATGA

Protein sequence

>MsG0780038385.01.T01

LQEEEEGIIKKVRELTILCGISACAIIYDPFDSETEVWPNLKEAKQVIERYQNSYMKDERKNVNRESFLLQMITKATEHLRMQRHDNHENEQNILMFWYMQNNKLPDDVTVSDLKDLDKLIEKI*

>MsG0780038385.01.T03

SACAIIYDPFDSETEVWPNLKEAKQVIERYQNSYMKDERKNVNRESFLLQMITKATEHLRMQRHDNHENEQNILMFWYMQNNKLPDDVTVSDLKDLDKLIEKI*

>MsG0780038385.01.T02

IKKVRELTILCGISACAIIYDPFDSETEVWPNLKEAKQVIERYQNSYMKDERKNVNRESFLLQMITKATEHLRMQRHDNHENEQNILMFWYMQNNKLPDDVTVSDLKDLDKLIEKI*