AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0680030324.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680030324.01.T02 MTR_6g004550 83.607 122 16 1 1 122 1 118 6.63e-58 177
MsG0680030324.01.T02 MTR_6g011200 48.026 152 53 3 1 133 37 181 5.24e-34 119
MsG0680030324.01.T02 MTR_4g099230 57.798 109 34 3 5 113 34 130 1.56e-33 115
MsG0680030324.01.T02 MTR_5g085390 58.120 117 40 3 1 116 37 145 4.48e-33 116
MsG0680030324.01.T02 MTR_6g011250 51.961 102 39 2 4 102 40 134 8.55e-29 104
MsG0680030324.01.T02 MTR_6g011230 50.926 108 46 3 1 108 39 139 5.37e-27 100
MsG0680030324.01.T02 MTR_3g452660 41.975 81 46 1 2 82 36 115 3.20e-13 65.1
MsG0680030324.01.T02 MTR_8g017090 46.575 73 38 1 4 76 43 114 5.00e-12 62.0
MsG0680030324.01.T02 MTR_4g107450 39.744 78 46 1 1 78 38 114 1.33e-11 60.8
MsG0680030324.01.T01 MTR_5g085390 63.399 153 47 3 1 152 1 145 3.75e-58 182
MsG0680030324.01.T01 MTR_6g011200 53.723 188 61 3 1 169 1 181 3.78e-58 182
MsG0680030324.01.T01 MTR_6g004550 83.607 122 16 1 37 158 1 118 4.59e-57 176
MsG0680030324.01.T01 MTR_4g099230 61.429 140 42 3 10 149 3 130 4.43e-54 169
MsG0680030324.01.T01 MTR_6g011250 56.552 145 53 2 1 142 1 138 5.94e-53 167
MsG0680030324.01.T01 MTR_6g011230 55.634 142 56 3 1 140 1 137 2.53e-48 155
MsG0680030324.01.T01 MTR_4g107450 51.402 107 51 1 8 114 9 114 2.09e-32 117
MsG0680030324.01.T01 MTR_8g017090 52.336 107 50 1 8 114 11 116 6.58e-31 114
MsG0680030324.01.T01 MTR_3g452660 45.536 112 60 1 7 118 5 115 2.62e-27 104
MsG0680030324.01.T01 MTR_7g033800 45.918 98 52 1 7 104 9 105 1.96e-26 99.4
MsG0680030324.01.T01 MTR_2g100020 44.954 109 59 1 8 116 18 125 2.91e-26 101
MsG0680030324.01.T01 MTR_4g105170 38.806 134 70 2 7 140 9 130 4.16e-26 98.6
MsG0680030324.01.T01 MTR_3g073690 44.118 102 56 1 10 111 10 110 1.57e-25 97.8
MsG0680030324.01.T01 MTR_5g017950 43.810 105 58 1 7 111 6 109 2.24e-25 99.8
MsG0680030324.01.T01 MTR_8g040900 49.398 83 41 1 7 89 5 86 3.30e-25 97.4
MsG0680030324.01.T01 MTR_3g077240 44.898 98 53 1 7 104 8 104 6.80e-25 95.9
MsG0680030324.01.T01 MTR_2g093310 34.940 166 105 3 10 174 34 197 2.09e-24 94.7
MsG0680030324.01.T01 MTR_6g005070 42.857 98 55 1 7 104 7 103 1.20e-23 91.3
MsG0680030324.01.T01 MTR_6g005080 41.837 98 56 1 7 104 8 104 4.68e-23 89.7
MsG0680030324.01.T01 MTR_4g083680 38.168 131 79 2 10 140 16 144 5.85e-23 90.1
MsG0680030324.01.T01 MTR_5g083230 37.931 116 70 2 7 122 4 117 2.79e-22 88.2
MsG0680030324.01.T01 MTR_4g060950 40.000 130 74 4 10 138 25 151 3.06e-22 89.0
MsG0680030324.01.T01 MTR_5g083010 36.697 109 68 1 5 113 7 114 3.94e-22 88.2
MsG0680030324.01.T01 MTR_5g083960 32.031 128 86 1 10 137 40 166 4.91e-22 88.6
MsG0680030324.01.T01 MTR_7g028905 37.273 110 68 1 10 119 6 114 8.87e-22 85.5
MsG0680030324.01.T01 MTR_2g068760 37.037 108 67 1 10 117 14 120 2.32e-21 85.9
MsG0680030324.01.T01 MTR_3g031660 32.099 162 100 3 10 163 8 167 3.58e-21 85.5
MsG0680030324.01.T01 MTR_5g093010 34.545 110 71 1 10 119 6 114 7.25e-21 84.0
MsG0680030324.01.T01 MTR_8g079660 39.423 104 62 1 8 111 7 109 2.15e-20 85.5
MsG0680030324.01.T01 MTR_1g095850 36.585 123 74 3 10 131 73 192 2.24e-20 84.7
MsG0680030324.01.T01 MTR_8g079620 39.423 104 62 1 8 111 7 109 3.02e-20 84.7
MsG0680030324.01.T01 MTR_3g071420 40.594 101 55 2 5 105 10 105 3.20e-20 83.6
MsG0680030324.01.T01 MTR_3g071590 39.423 104 61 2 10 113 9 110 7.35e-20 81.6
MsG0680030324.01.T01 MTR_5g075020 32.824 131 83 2 10 140 44 169 2.36e-19 82.0
MsG0680030324.01.T01 MTR_3g094690 36.735 98 61 1 10 107 48 144 2.58e-19 82.0
MsG0680030324.01.T01 MTR_5g075020 32.824 131 83 2 10 140 48 173 3.12e-19 82.0
MsG0680030324.01.T01 MTR_3g094690 35.714 98 61 1 10 107 48 143 3.74e-18 79.0
MsG0680030324.01.T01 MTR_7g096530 39.806 103 60 2 10 111 15 116 6.75e-18 78.2
MsG0680030324.01.T01 MTR_8g036105 35.780 109 68 2 4 111 13 120 1.65e-16 74.3
MsG0680030324.01.T01 MTR_7g074990 36.364 99 61 2 10 107 21 118 5.89e-16 73.2
MsG0680030324.01.T01 MTR_6g027710 34.314 102 65 2 10 110 41 141 1.47e-15 72.0
MsG0680030324.01.T01 MTR_8g036085 34.951 103 65 2 10 111 24 125 1.49e-15 72.0
MsG0680030324.01.T01 MTR_1g070220 36.364 99 61 2 10 107 16 113 4.16e-15 70.5
MsG0680030324.01.T01 MTR_4g088035 37.500 88 54 1 9 96 6 92 9.02e-15 70.5
MsG0680030324.01.T01 MTR_8g079580 35.577 104 65 2 8 110 7 109 2.48e-14 68.6
MsG0680030324.01.T01 MTR_6g027700 33.929 112 65 3 10 120 8 111 2.71e-14 68.2
MsG0680030324.01.T01 MTR_1g070205 34.000 100 64 2 10 108 13 111 5.66e-14 67.8
MsG0680030324.01.T01 MTR_7g096610 28.834 163 90 6 10 168 9 149 1.00e-13 67.0
MsG0680030324.01.T01 MTR_5g080470 29.091 110 76 2 8 116 6 114 1.37e-13 66.2
MsG0680030324.01.T01 MTR_7g075230 34.906 106 65 3 10 112 13 117 1.45e-13 66.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680030324.01.T02 AT3G47870 46.154 78 41 1 1 78 64 140 7.11e-15 70.1
MsG0680030324.01.T02 AT3G13850 43.836 73 40 1 4 76 67 138 7.00e-12 61.6
MsG0680030324.01.T02 AT5G63090 32.727 110 71 2 2 109 40 148 3.18e-11 58.5
MsG0680030324.01.T02 AT5G63090 32.727 110 71 2 2 109 40 148 3.18e-11 58.5
MsG0680030324.01.T02 AT5G63090 32.727 110 71 2 2 109 40 148 3.18e-11 58.5
MsG0680030324.01.T02 AT5G63090 32.727 110 71 2 2 109 40 148 3.18e-11 58.5
MsG0680030324.01.T01 AT3G47870 55.660 106 46 1 9 114 36 140 3.40e-36 128
MsG0680030324.01.T01 AT3G13850 51.429 105 50 1 8 112 35 138 2.46e-30 111
MsG0680030324.01.T01 AT5G63090 38.298 141 84 2 7 145 9 148 9.86e-27 100
MsG0680030324.01.T01 AT5G63090 38.298 141 84 2 7 145 9 148 9.86e-27 100
MsG0680030324.01.T01 AT5G63090 38.298 141 84 2 7 145 9 148 9.86e-27 100
MsG0680030324.01.T01 AT5G63090 38.298 141 84 2 7 145 9 148 9.86e-27 100
MsG0680030324.01.T01 AT3G27650 43.000 100 56 1 7 106 37 135 4.11e-25 95.5
MsG0680030324.01.T01 AT1G65620 48.193 83 42 1 7 89 7 88 4.82e-24 93.6
MsG0680030324.01.T01 AT1G65620 48.193 83 42 1 7 89 7 88 4.82e-24 93.6
MsG0680030324.01.T01 AT1G65620 48.193 83 42 1 7 89 7 88 4.82e-24 93.6
MsG0680030324.01.T01 AT1G65620 48.193 83 42 1 7 89 7 88 4.82e-24 93.6
MsG0680030324.01.T01 AT1G65620 48.193 83 42 1 7 89 7 88 4.82e-24 93.6
MsG0680030324.01.T01 AT5G66870 42.157 102 58 1 10 111 8 108 1.52e-23 94.7
MsG0680030324.01.T01 AT3G26660 39.130 115 67 2 8 120 4 117 3.30e-23 89.4
MsG0680030324.01.T01 AT1G31320 45.977 87 46 1 10 96 14 99 1.83e-22 89.0
MsG0680030324.01.T01 AT3G26620 38.393 112 66 2 8 117 4 114 7.41e-22 85.9
MsG0680030324.01.T01 AT1G72980 41.071 112 64 2 9 119 13 123 1.15e-21 87.8
MsG0680030324.01.T01 AT1G07900 42.553 94 53 1 10 103 34 126 3.05e-21 86.3
MsG0680030324.01.T01 AT2G28500 38.261 115 69 2 10 124 56 168 2.66e-20 84.7
MsG0680030324.01.T01 AT2G23660 41.584 101 58 1 10 110 6 105 5.17e-20 85.5
MsG0680030324.01.T01 AT2G23660 41.584 101 58 1 10 110 6 105 5.17e-20 85.5
MsG0680030324.01.T01 AT2G23660 41.584 101 58 1 10 110 6 105 5.17e-20 85.5
MsG0680030324.01.T01 AT2G30130 40.385 104 60 2 10 113 9 110 5.35e-20 83.2
MsG0680030324.01.T01 AT3G11090 36.364 99 62 1 5 103 7 104 1.89e-19 80.9
MsG0680030324.01.T01 AT2G30340 38.776 98 59 1 10 107 54 150 2.00e-19 83.2
MsG0680030324.01.T01 AT2G30340 38.776 98 59 1 10 107 53 149 2.47e-19 82.8
MsG0680030324.01.T01 AT5G15060 47.945 73 37 1 10 81 18 90 2.87e-19 79.7
MsG0680030324.01.T01 AT2G40470 37.755 98 60 1 10 107 21 117 6.45e-19 80.5
MsG0680030324.01.T01 AT1G16530 36.283 113 63 3 5 109 10 121 1.00e-18 79.0
MsG0680030324.01.T01 AT2G40470 37.755 98 60 1 10 107 46 142 1.45e-18 80.1
MsG0680030324.01.T01 AT1G06280 29.341 167 109 5 8 174 23 180 2.08e-17 76.6
MsG0680030324.01.T01 AT3G50510 38.095 105 63 2 10 113 13 116 7.23e-17 75.1
MsG0680030324.01.T01 AT3G50510 38.095 105 63 2 10 113 13 116 7.23e-17 75.1
MsG0680030324.01.T01 AT2G19820 34.343 99 62 1 1 96 1 99 2.11e-16 72.0
MsG0680030324.01.T01 AT4G00220 35.238 105 66 2 12 115 20 123 1.02e-15 72.4
MsG0680030324.01.T01 AT4G00210 33.571 140 85 4 10 147 12 145 1.50e-15 72.0
MsG0680030324.01.T01 AT2G42430 32.479 117 77 2 10 125 16 131 5.53e-15 70.9
MsG0680030324.01.T01 AT2G45420 34.286 105 67 2 12 115 40 143 9.21e-15 70.5
MsG0680030324.01.T01 AT2G42440 34.000 100 64 2 10 108 8 106 1.29e-14 69.7
MsG0680030324.01.T01 AT3G58190 36.000 100 62 2 10 108 12 110 1.67e-14 68.9
MsG0680030324.01.T01 AT3G03760 35.294 102 64 2 10 110 52 152 5.00e-14 68.6
MsG0680030324.01.T01 AT5G35900 29.412 102 71 1 10 111 6 106 1.43e-13 66.2
MsG0680030324.01.T01 AT2G31310 29.508 122 76 3 10 122 8 128 2.94e-13 65.1
MsG0680030324.01.T01 AT5G06080 31.959 97 64 2 9 104 7 102 6.73e-13 63.9
MsG0680030324.01.T01 AT2G45410 35.644 101 63 2 12 111 19 118 1.00e-12 63.9

Find 23 sgRNAs with CRISPR-Local

Find 31 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTACCAACATTGCTAGATAT+TGG 0.233878 6:+610339 None:intergenic
CTTTCTTCTTTGATATTTGC+AGG 0.243555 6:+610734 None:intergenic
GGTTTATCGGCTGGAAAATA+AGG 0.273342 6:+610687 None:intergenic
TCTTCTACATTTCTCTTCAT+TGG 0.273693 6:-610409 MsG0680030324.01.T01:CDS
TGGATGTCTTGGTCTTATTA+TGG 0.281895 6:-610520 MsG0680030324.01.T01:CDS
GCCAATGCTCATCGTTTGTT+TGG 0.347008 6:-610654 MsG0680030324.01.T01:CDS
TAAGGAGCTAAAGGGCAATC+TGG 0.416523 6:+610705 None:intergenic
ATATTCGAATTTGTATATGA+TGG 0.420802 6:+610288 None:intergenic
ACCACTAGTTCTCAAATTCC+AGG 0.434386 6:-610369 MsG0680030324.01.T01:CDS
TTCCCAAGTCATGGATGTCT+TGG 0.482571 6:-610531 MsG0680030324.01.T01:CDS
GCTGGAAAATAAGGAGCTAA+AGG 0.488184 6:+610696 None:intergenic
CTAGATATTGGATTAATACC+TGG 0.493908 6:+610351 None:intergenic
CTGGAAAATAAGGAGCTAAA+GGG 0.495690 6:+610697 None:intergenic
CTTTAGCGTCTTCACCATGT+TGG 0.497302 6:+610626 None:intergenic
AATCCAATATCTAGCAATGT+TGG 0.514330 6:-610342 MsG0680030324.01.T01:CDS
AGACCAAGACATCCATGACT+TGG 0.541471 6:+610528 None:intergenic
ACCAAACAAACGATGAGCAT+TGG 0.553402 6:+610653 None:intergenic
CGTGCAAGATTCCCAAGTCA+TGG 0.565788 6:-610540 MsG0680030324.01.T01:CDS
GGAAATTTGTTGACATCATG+AGG 0.566777 6:+610309 None:intergenic
ACCTGGAATTTGAGAACTAG+TGG 0.587717 6:+610368 None:intergenic
GACCAAGACATCCATGACTT+GGG 0.599785 6:+610529 None:intergenic
TTTGTTTGGTATTTCCAACA+TGG 0.612102 6:-610640 MsG0680030324.01.T01:CDS
GGAATTTGAGAACTAGTGGT+AGG 0.664884 6:+610372 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAATTCGAATATAAATTTTA+AGG - Chr6:610748-610767 MsG0680030324.01.T01:CDS 10.0%
!!! AATTCGAATATAAATTTTAA+GGG - Chr6:610749-610768 MsG0680030324.01.T01:CDS 10.0%
!! ATATTCGAATTTGTATATGA+TGG + Chr6:610740-610759 None:intergenic 20.0%
!!! ATATAAATTTTAAGGGTACA+TGG - Chr6:610756-610775 MsG0680030324.01.T01:CDS 20.0%
AATCCAATATCTAGCAATGT+TGG - Chr6:610683-610702 MsG0680030324.01.T01:CDS 30.0%
CTAGATATTGGATTAATACC+TGG + Chr6:610677-610696 None:intergenic 30.0%
CTTTCTTCTTTGATATTTGC+AGG + Chr6:610294-610313 None:intergenic 30.0%
GGATATTCACAGAAAAAACA+AGG - Chr6:610259-610278 MsG0680030324.01.T01:CDS 30.0%
TCTTCTACATTTCTCTTCAT+TGG - Chr6:610616-610635 MsG0680030324.01.T01:CDS 30.0%
TTACCAACATTGCTAGATAT+TGG + Chr6:610689-610708 None:intergenic 30.0%
TTTGTTTGGTATTTCCAACA+TGG - Chr6:610385-610404 MsG0680030324.01.T01:CDS 30.0%
!!! GAAGTCGATTATTTTTGAGT+CGG - Chr6:610457-610476 MsG0680030324.01.T01:CDS 30.0%
CTGGAAAATAAGGAGCTAAA+GGG + Chr6:610331-610350 None:intergenic 35.0%
!! GGAAATTTGTTGACATCATG+AGG + Chr6:610719-610738 None:intergenic 35.0%
!! TGGATGTCTTGGTCTTATTA+TGG - Chr6:610505-610524 MsG0680030324.01.T01:CDS 35.0%
ACCAAACAAACGATGAGCAT+TGG + Chr6:610375-610394 None:intergenic 40.0%
ACCTGGAATTTGAGAACTAG+TGG + Chr6:610660-610679 None:intergenic 40.0%
GCTGGAAAATAAGGAGCTAA+AGG + Chr6:610332-610351 None:intergenic 40.0%
GGAATTTGAGAACTAGTGGT+AGG + Chr6:610656-610675 None:intergenic 40.0%
! ACCACTAGTTCTCAAATTCC+AGG - Chr6:610656-610675 MsG0680030324.01.T01:CDS 40.0%
! GGTTTATCGGCTGGAAAATA+AGG + Chr6:610341-610360 None:intergenic 40.0%
AGACCAAGACATCCATGACT+TGG + Chr6:610500-610519 None:intergenic 45.0%
CTTTAGCGTCTTCACCATGT+TGG + Chr6:610402-610421 None:intergenic 45.0%
GACCAAGACATCCATGACTT+GGG + Chr6:610499-610518 None:intergenic 45.0%
GCCAATGCTCATCGTTTGTT+TGG - Chr6:610371-610390 MsG0680030324.01.T01:CDS 45.0%
TAAGGAGCTAAAGGGCAATC+TGG + Chr6:610323-610342 None:intergenic 45.0%
TTCCCAAGTCATGGATGTCT+TGG - Chr6:610494-610513 MsG0680030324.01.T01:CDS 45.0%
! AGCATTTTCGGTTTATCGGC+TGG + Chr6:610350-610369 None:intergenic 45.0%
! GGCGAGCATTTTCGGTTTAT+CGG + Chr6:610354-610373 None:intergenic 45.0%
!!! TGAGCATTGGCGAGCATTTT+CGG + Chr6:610362-610381 None:intergenic 45.0%
CGTGCAAGATTCCCAAGTCA+TGG - Chr6:610485-610504 MsG0680030324.01.T01:CDS 50.0%
Chromosome Type Strat End Strand Name
Chr6 gene 610257 610790 610257 ID=MsG0680030324.01;Name=MsG0680030324.01
Chr6 mRNA 610257 610790 610257 ID=MsG0680030324.01.T01;Parent=MsG0680030324.01;Name=MsG0680030324.01.T01;_AED=0.46;_eAED=0.46;_QI=0|-1|0|1|-1|1|1|0|177
Chr6 exon 610257 610790 610257 ID=MsG0680030324.01.T01:exon:2191;Parent=MsG0680030324.01.T01
Chr6 CDS 610257 610790 610257 ID=MsG0680030324.01.T01:cds;Parent=MsG0680030324.01.T01
Chr6 mRNA 610257 610682 610257 ID=MsG0680030324.01.T02;Parent=MsG0680030324.01;Name=MsG0680030324.01.T02;_AED=0.49;_eAED=0.49;_QI=0|-1|0|1|-1|0|1|0|141
Chr6 exon 610257 610682 610257 ID=MsG0680030324.01.T02:exon:2192;Parent=MsG0680030324.01.T02
Chr6 CDS 610257 610682 610257 ID=MsG0680030324.01.T02:cds;Parent=MsG0680030324.01.T02
Gene Sequence

>MsG0680030324.01.T02

ATGCTCGCCAATGCTCATCGTTTGTTTGGTATTTCCAACATGGTGAAGACGCTAAAGTCTATTGATGATGATGATCATAAAGATGAAGCAATGAAGTCGATTATTTTTGAGTCGGAAATGCGTGCAAGATTCCCAAGTCATGGATGTCTTGGTCTTATTATGGAGTATCAAGATATGATAATTGAGTCTATGAAAGAGTTAGATCATGTAAAACAGTTACTAAGTTTGTGTAAGCTATCACAACAACAAAATCTTCTACATTTCTCTTCATTGGATCATTCTTCTGTACCTACCACTAGTTCTCAAATTCCAGGTATTAATCCAATATCTAGCAATGTTGGTAACATCATTCCTCATGATGTCAACAAATTTCCATCATATACAAATTCGAATATAAATTTTAAGGGTACATGGTTGCACAACTGA

>MsG0680030324.01.T01

ATGGATATTCACAGAAAAAACAAGGCTTGTGCAGCCTGCAAATATCAAAGAAGAAAGTGTACTCCAGATTGCCCTTTAGCTCCTTATTTTCCAGCCGATAAACCGAAAATGCTCGCCAATGCTCATCGTTTGTTTGGTATTTCCAACATGGTGAAGACGCTAAAGTCTATTGATGATGATGATCATAAAGATGAAGCAATGAAGTCGATTATTTTTGAGTCGGAAATGCGTGCAAGATTCCCAAGTCATGGATGTCTTGGTCTTATTATGGAGTATCAAGATATGATAATTGAGTCTATGAAAGAGTTAGATCATGTAAAACAGTTACTAAGTTTGTGTAAGCTATCACAACAACAAAATCTTCTACATTTCTCTTCATTGGATCATTCTTCTGTACCTACCACTAGTTCTCAAATTCCAGGTATTAATCCAATATCTAGCAATGTTGGTAACATCATTCCTCATGATGTCAACAAATTTCCATCATATACAAATTCGAATATAAATTTTAAGGGTACATGGTTGCACAACTGA

Protein sequence

>MsG0680030324.01.T02

MLANAHRLFGISNMVKTLKSIDDDDHKDEAMKSIIFESEMRARFPSHGCLGLIMEYQDMIIESMKELDHVKQLLSLCKLSQQQNLLHFSSLDHSSVPTTSSQIPGINPISSNVGNIIPHDVNKFPSYTNSNINFKGTWLHN*

>MsG0680030324.01.T01

MDIHRKNKACAACKYQRRKCTPDCPLAPYFPADKPKMLANAHRLFGISNMVKTLKSIDDDDHKDEAMKSIIFESEMRARFPSHGCLGLIMEYQDMIIESMKELDHVKQLLSLCKLSQQQNLLHFSSLDHSSVPTTSSQIPGINPISSNVGNIIPHDVNKFPSYTNSNINFKGTWLHN*