AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280007636.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280007636.01.T01 MTR_7g094120 85.625 160 22 1 1 160 1 159 2.35e-98 280
MsG0280007636.01.T01 MTR_7g021400 78.125 160 31 2 1 160 1 156 2.15e-80 235
MsG0280007636.01.T01 MTR_7g094150 77.500 160 32 2 1 160 1 156 3.02e-79 232
MsG0280007636.01.T01 MTR_7g094280 71.698 159 42 2 3 160 2 158 2.27e-78 229
MsG0280007636.01.T01 MTR_7g094170 76.250 160 34 2 1 160 1 156 1.24e-76 225
MsG0280007636.01.T01 MTR_5g022710 75.625 160 34 2 1 160 1 155 1.57e-76 225
MsG0280007636.01.T01 MTR_5g022730 74.375 160 36 2 1 160 1 155 3.13e-75 222
MsG0280007636.01.T01 MTR_3g110048 69.375 160 47 1 1 160 1 158 3.50e-75 222
MsG0280007636.01.T01 MTR_4g032450 69.481 154 44 2 8 160 24 175 1.75e-73 218
MsG0280007636.01.T01 MTR_7g021380 74.375 160 37 2 1 160 1 156 9.44e-73 215
MsG0280007636.01.T01 MTR_4g032400 67.296 159 49 2 3 160 7 163 2.63e-70 209
MsG0280007636.01.T01 MTR_7g094310 66.667 159 40 3 3 160 2 148 6.73e-69 205
MsG0280007636.01.T01 MTR_8g056060 66.460 161 49 3 1 160 1 157 2.34e-68 204
MsG0280007636.01.T01 MTR_4g032510 62.963 162 49 4 1 160 1 153 1.51e-64 194
MsG0280007636.01.T01 MTR_8g468480 63.975 161 52 3 1 160 1 156 3.27e-64 194
MsG0280007636.01.T01 MTR_4g032500 60.870 161 53 3 1 160 1 152 1.14e-63 192
MsG0280007636.01.T01 MTR_4g032460 63.354 161 47 3 1 160 1 150 9.28e-61 185
MsG0280007636.01.T01 MTR_5g085030 59.375 160 59 3 1 159 1 155 7.64e-60 182
MsG0280007636.01.T01 MTR_4g033455 58.228 158 62 2 3 160 7 160 5.88e-59 181
MsG0280007636.01.T01 MTR_4g017860 50.746 201 58 3 1 160 20 220 8.40e-57 177
MsG0280007636.01.T01 MTR_4g033460 58.333 144 56 2 3 146 7 146 1.06e-52 167
MsG0280007636.01.T01 MTR_4g033460 61.053 95 27 2 43 137 161 245 1.84e-29 108
MsG0280007636.01.T01 MTR_5g082340 55.901 161 54 3 1 160 1 145 1.52e-49 156
MsG0280007636.01.T01 MTR_4g021390 53.125 160 70 2 1 160 1 155 6.23e-49 155
MsG0280007636.01.T01 MTR_1g099870 74.038 104 23 2 59 160 2 103 1.75e-48 152
MsG0280007636.01.T01 MTR_8g089730 63.200 125 27 1 36 160 1 106 1.64e-45 145
MsG0280007636.01.T01 MTR_7g094320 50.000 160 37 2 1 160 1 117 2.02e-43 140
MsG0280007636.01.T01 MTR_4g032420 54.264 129 42 3 33 160 38 150 1.75e-41 136
MsG0280007636.01.T01 MTR_7g094410 51.852 162 28 3 1 118 1 156 1.74e-40 134
MsG0280007636.01.T01 MTR_4g032470 47.945 146 30 2 16 160 34 134 6.28e-38 126
MsG0280007636.01.T01 MTR_4g131980 54.676 139 49 5 1 137 1 127 1.96e-37 125
MsG0280007636.01.T01 MTR_7g094360 45.402 174 42 4 1 123 1 172 4.96e-36 124
MsG0280007636.01.T01 MTR_4g127240 61.905 105 32 4 42 144 26 124 1.32e-34 117
MsG0280007636.01.T01 MTR_7g006370 47.945 146 65 3 1 146 1 135 5.20e-34 116
MsG0280007636.01.T01 MTR_7g094350 41.885 191 55 6 1 139 1 187 4.09e-31 111
MsG0280007636.01.T01 MTR_8g056090 46.875 160 48 8 1 158 1 125 3.52e-29 104
MsG0280007636.01.T01 MTR_4g119422 41.060 151 80 2 2 150 225 368 4.06e-27 104
MsG0280007636.01.T01 MTR_2g066010 38.365 159 84 4 4 159 14 161 1.64e-26 99.4
MsG0280007636.01.T01 MTR_4g032520 46.281 121 38 2 32 151 2 96 8.67e-26 95.9
MsG0280007636.01.T01 MTR_2g065720 38.312 154 81 4 9 159 36 178 2.73e-25 96.7
MsG0280007636.01.T01 MTR_1g112590 35.256 156 81 4 12 150 3 155 5.03e-24 92.0
MsG0280007636.01.T01 MTR_7g071200 59.420 69 27 1 93 160 4 72 1.39e-21 83.2
MsG0280007636.01.T01 MTR_5g096950 36.875 160 82 5 1 159 1 142 2.08e-21 85.1
MsG0280007636.01.T01 MTR_2g018980 34.416 154 82 4 10 160 3 140 2.09e-21 85.1
MsG0280007636.01.T01 MTR_4g032540 57.143 63 26 1 94 155 70 132 1.86e-18 77.0
MsG0280007636.01.T01 MTR_5g078680 30.769 156 68 3 12 150 3 135 3.82e-18 79.0
MsG0280007636.01.T01 MTR_1g112570 31.013 158 69 4 10 150 1 135 7.87e-17 75.9
MsG0280007636.01.T01 MTR_1g042510 31.013 158 69 4 10 150 1 135 1.53e-16 75.1
MsG0280007636.01.T01 MTR_8g007185 31.293 147 86 4 12 151 13 151 5.61e-16 73.6
MsG0280007636.01.T01 MTR_8g007205 31.293 147 86 4 12 151 13 151 9.69e-16 72.8
MsG0280007636.01.T01 MTR_8g007195 33.803 142 80 4 12 147 13 146 1.10e-15 72.8
MsG0280007636.01.T01 MTR_6g053620 32.667 150 87 4 7 150 14 155 6.24e-15 71.2
MsG0280007636.01.T01 MTR_6g053620 37.255 102 57 1 49 150 61 155 6.74e-15 70.9
MsG0280007636.01.T01 MTR_2g100830 30.464 151 89 4 7 150 8 149 9.53e-15 70.5
MsG0280007636.01.T01 MTR_2g100825 30.201 149 91 3 7 150 8 148 8.10e-14 67.8
MsG0280007636.01.T01 MTR_8g030670 34.314 102 60 1 49 150 62 156 1.66e-13 67.0
MsG0280007636.01.T01 MTR_7g077810 29.801 151 90 4 7 150 15 156 2.86e-12 63.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280007636.01.T01 AT1G20140 69.182 159 44 1 7 160 5 163 8.18e-76 223
MsG0280007636.01.T01 AT2G25700 67.296 159 47 1 7 160 5 163 7.92e-72 213
MsG0280007636.01.T01 AT1G75950 70.701 157 42 1 8 160 4 160 5.10e-71 211
MsG0280007636.01.T01 AT5G42190 63.953 172 46 2 3 160 2 171 2.75e-67 202
MsG0280007636.01.T01 AT4G34210 63.399 153 52 1 8 160 4 152 5.88e-67 201
MsG0280007636.01.T01 AT4G34470 61.438 153 55 1 8 160 4 152 3.44e-64 194
MsG0280007636.01.T01 AT3G60010 60.645 155 56 2 8 160 3 154 4.76e-61 186
MsG0280007636.01.T01 AT2G03190 55.556 162 61 2 10 160 6 167 9.51e-57 176
MsG0280007636.01.T01 AT3G21860 58.170 153 60 3 8 160 4 152 2.99e-56 174
MsG0280007636.01.T01 AT2G03170 56.579 152 57 2 10 160 6 149 1.14e-55 172
MsG0280007636.01.T01 AT3G21850 54.545 154 65 2 8 160 4 153 1.95e-53 166
MsG0280007636.01.T01 AT2G20160 54.248 153 62 2 8 159 4 149 1.57e-50 159
MsG0280007636.01.T01 AT3G25650 55.556 162 61 4 10 160 6 167 3.36e-50 159
MsG0280007636.01.T01 AT2G03160 48.663 187 62 4 8 160 4 190 6.81e-50 159
MsG0280007636.01.T01 AT3G60020 50.955 157 63 4 10 160 5 153 1.50e-48 154
MsG0280007636.01.T01 AT1G10230 54.305 151 68 1 10 159 6 156 5.34e-48 153
MsG0280007636.01.T01 AT3G21830 49.020 153 74 1 8 160 4 152 4.35e-45 145
MsG0280007636.01.T01 AT3G21840 50.820 122 54 4 4 125 2 117 9.70e-30 105
MsG0280007636.01.T01 AT3G53060 58.140 86 27 3 33 117 3 80 7.00e-25 92.0
MsG0280007636.01.T01 AT2G45950 31.613 155 94 4 1 150 9 156 1.73e-15 72.8
MsG0280007636.01.T01 AT2G45950 31.613 155 94 4 1 150 9 156 1.73e-15 72.8
MsG0280007636.01.T01 AT2G45950 31.613 155 94 4 1 150 9 156 2.25e-15 72.4
MsG0280007636.01.T01 AT2G45950 31.613 155 94 4 1 150 9 156 2.25e-15 72.4
MsG0280007636.01.T01 AT2G45950 31.613 155 94 4 1 150 9 156 2.25e-15 72.4
MsG0280007636.01.T01 AT3G61415 31.333 150 89 4 7 150 15 156 9.89e-14 67.8
MsG0280007636.01.T01 AT3G61415 31.333 150 89 4 7 150 15 156 1.02e-13 67.8

Find 42 sgRNAs with CRISPR-Local

Find 43 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGGGTGATCATCTTCTTCT+TGG 0.151438 2:-18376083 None:intergenic
CAGAAGATTATCTTAAGAAT+TGG 0.268289 2:+18376305 MsG0280007636.01.T01:CDS
TTTCACCGTCGAAACTCTTC+AGG 0.296550 2:-18376102 None:intergenic
TACCTTCGCTAATACCTTGC+CGG 0.357004 2:-18376224 None:intergenic
TGCCGGTAACGTTCTGAATC+GGG 0.375308 2:-18376207 None:intergenic
CATGTCCGCCGCAGCTTGGC+AGG 0.378684 2:-18376419 None:intergenic
CTGAATCGGGATTGCGTTGT+CGG 0.392692 2:-18376194 None:intergenic
AGAAGATTATCTTAAGAATT+GGG 0.396941 2:+18376306 MsG0280007636.01.T01:CDS
ATCCCGATTCAGAACGTTAC+CGG 0.408425 2:+18376205 MsG0280007636.01.T01:CDS
CATCCTTGCTGCAAACTACT+TGG 0.414458 2:+18376372 MsG0280007636.01.T01:CDS
CGAACTTCTTCCTCTTCCTC+CGG 0.424372 2:-18376502 None:intergenic
CTTCTTGGTTGTTGAAGACA+TGG 0.425563 2:-18376068 None:intergenic
TTGCCGGTAACGTTCTGAAT+CGG 0.445008 2:-18376208 None:intergenic
CTTGGATATCAAGAGTCTAC+TGG 0.463162 2:+18376390 MsG0280007636.01.T01:CDS
TCATCATGTCCGCCGCAGCT+TGG 0.472634 2:-18376423 None:intergenic
TGATTTCGTGAAGGTTGATA+AGG 0.476483 2:+18376333 MsG0280007636.01.T01:CDS
TGATTACACTCCGGAGGAAG+AGG 0.478345 2:+18376492 MsG0280007636.01.T01:CDS
CTTCGAGGTTTCCGAGGCTG+TGG 0.487029 2:+18376126 MsG0280007636.01.T01:CDS
TGATTCAAGCGCCACAGCCT+CGG 0.536432 2:-18376137 None:intergenic
AGATAATCTTCTGATTCTGA+AGG 0.536670 2:-18376295 None:intergenic
TCTTACCTGCCAAGCTGCGG+CGG 0.548433 2:+18376414 MsG0280007636.01.T01:CDS
TTCACCGTCGAAACTCTTCA+GGG 0.553987 2:-18376101 None:intergenic
TTTCGACGGTGAAACCTTCG+AGG 0.563465 2:+18376111 MsG0280007636.01.T01:CDS
GGAAGAGGAAGAAGTTCGAA+AGG 0.564146 2:+18376507 MsG0280007636.01.T01:CDS
AAGTTCGAAAGGAAAACGCA+TGG 0.586714 2:+18376518 MsG0280007636.01.T01:CDS
GATTCAGAACGTTACCGGCA+AGG 0.604913 2:+18376210 MsG0280007636.01.T01:CDS
ATCACCCTGAAGAGTTTCGA+CGG 0.609201 2:+18376097 MsG0280007636.01.T01:CDS
CACAGCCTCGGAAACCTCGA+AGG 0.613440 2:-18376125 None:intergenic
GACAATCAAGCACATGATCG+AGG 0.614315 2:+18376162 MsG0280007636.01.T01:CDS
TGAAACCTTCGAGGTTTCCG+AGG 0.616843 2:+18376120 MsG0280007636.01.T01:CDS
GCTGCGGCGGACATGATGAA+AGG 0.621251 2:+18376427 MsG0280007636.01.T01:CDS
TACCGGCAAGGTATTAGCGA+AGG 0.638623 2:+18376222 MsG0280007636.01.T01:CDS
AGTTCGAAAGGAAAACGCAT+GGG 0.640914 2:+18376519 MsG0280007636.01.T01:CDS
CTGCAAGAAGCACGTCGAGG+TGG 0.646155 2:+18376255 MsG0280007636.01.T01:CDS
CATGATGAAAGGAAAGCAAG+TGG 0.648020 2:+18376438 MsG0280007636.01.T01:CDS
TATCCAAGTAGTTTGCAGCA+AGG 0.660134 2:-18376375 None:intergenic
GGATCTTACCTGCCAAGCTG+CGG 0.660372 2:+18376411 MsG0280007636.01.T01:CDS
TTGGGATGCTGATTTCGTGA+AGG 0.669657 2:+18376324 MsG0280007636.01.T01:CDS
CAAGAATGATTACACTCCGG+AGG 0.672447 2:+18376486 MsG0280007636.01.T01:CDS
CATCAAGAATGATTACACTC+CGG 0.688170 2:+18376483 MsG0280007636.01.T01:CDS
GATGAAAGGAAAGCAAGTGG+AGG 0.701585 2:+18376441 MsG0280007636.01.T01:CDS
ATACTGCAAGAAGCACGTCG+AGG 0.756219 2:+18376252 MsG0280007636.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AGAAGATTATCTTAAGAATT+GGG + Chr2:18376306-18376325 MsG0280007636.01.T01:CDS 20.0%
! CAGAAGATTATCTTAAGAAT+TGG + Chr2:18376305-18376324 MsG0280007636.01.T01:CDS 25.0%
AGATAATCTTCTGATTCTGA+AGG - Chr2:18376298-18376317 None:intergenic 30.0%
!! TGATTCTGAAGGTTTTTCAT+CGG - Chr2:18376287-18376306 None:intergenic 30.0%
CATCAAGAATGATTACACTC+CGG + Chr2:18376483-18376502 MsG0280007636.01.T01:CDS 35.0%
!! TGATTTCGTGAAGGTTGATA+AGG + Chr2:18376333-18376352 MsG0280007636.01.T01:CDS 35.0%
AAGTTCGAAAGGAAAACGCA+TGG + Chr2:18376518-18376537 MsG0280007636.01.T01:CDS 40.0%
AGTTCGAAAGGAAAACGCAT+GGG + Chr2:18376519-18376538 MsG0280007636.01.T01:CDS 40.0%
CATGATGAAAGGAAAGCAAG+TGG + Chr2:18376438-18376457 MsG0280007636.01.T01:CDS 40.0%
CTTGGATATCAAGAGTCTAC+TGG + Chr2:18376390-18376409 MsG0280007636.01.T01:CDS 40.0%
GCAAGGATGAGTTCAAAAAG+CGG - Chr2:18376361-18376380 None:intergenic 40.0%
! TATCCAAGTAGTTTGCAGCA+AGG - Chr2:18376378-18376397 None:intergenic 40.0%
ATCACCCTGAAGAGTTTCGA+CGG + Chr2:18376097-18376116 MsG0280007636.01.T01:CDS 45.0%
ATCCCGATTCAGAACGTTAC+CGG + Chr2:18376205-18376224 MsG0280007636.01.T01:CDS 45.0%
CAAGAATGATTACACTCCGG+AGG + Chr2:18376486-18376505 MsG0280007636.01.T01:CDS 45.0%
CAGGGTGATCATCTTCTTCT+TGG - Chr2:18376086-18376105 None:intergenic 45.0%
CATCCTTGCTGCAAACTACT+TGG + Chr2:18376372-18376391 MsG0280007636.01.T01:CDS 45.0%
GACAATCAAGCACATGATCG+AGG + Chr2:18376162-18376181 MsG0280007636.01.T01:CDS 45.0%
GATGAAAGGAAAGCAAGTGG+AGG + Chr2:18376441-18376460 MsG0280007636.01.T01:CDS 45.0%
GGAAGAGGAAGAAGTTCGAA+AGG + Chr2:18376507-18376526 MsG0280007636.01.T01:CDS 45.0%
TACCTTCGCTAATACCTTGC+CGG - Chr2:18376227-18376246 None:intergenic 45.0%
TTCACCGTCGAAACTCTTCA+GGG - Chr2:18376104-18376123 None:intergenic 45.0%
TTTCACCGTCGAAACTCTTC+AGG - Chr2:18376105-18376124 None:intergenic 45.0%
! TTGCCGGTAACGTTCTGAAT+CGG - Chr2:18376211-18376230 None:intergenic 45.0%
!! TTGGGATGCTGATTTCGTGA+AGG + Chr2:18376324-18376343 MsG0280007636.01.T01:CDS 45.0%
CGAACTTCTTCCTCTTCCTC+CGG - Chr2:18376505-18376524 None:intergenic 50.0%
CTGAATCGGGATTGCGTTGT+CGG - Chr2:18376197-18376216 None:intergenic 50.0%
GATTCAGAACGTTACCGGCA+AGG + Chr2:18376210-18376229 MsG0280007636.01.T01:CDS 50.0%
TGAAACCTTCGAGGTTTCCG+AGG + Chr2:18376120-18376139 MsG0280007636.01.T01:CDS 50.0%
TGATTACACTCCGGAGGAAG+AGG + Chr2:18376492-18376511 MsG0280007636.01.T01:CDS 50.0%
TTTCGACGGTGAAACCTTCG+AGG + Chr2:18376111-18376130 MsG0280007636.01.T01:CDS 50.0%
! ATACTGCAAGAAGCACGTCG+AGG + Chr2:18376252-18376271 MsG0280007636.01.T01:CDS 50.0%
! TACCGGCAAGGTATTAGCGA+AGG + Chr2:18376222-18376241 MsG0280007636.01.T01:CDS 50.0%
! TGCCGGTAACGTTCTGAATC+GGG - Chr2:18376210-18376229 None:intergenic 50.0%
GGATCTTACCTGCCAAGCTG+CGG + Chr2:18376411-18376430 MsG0280007636.01.T01:CDS 55.0%
TGATTCAAGCGCCACAGCCT+CGG - Chr2:18376140-18376159 None:intergenic 55.0%
CACAGCCTCGGAAACCTCGA+AGG - Chr2:18376128-18376147 None:intergenic 60.0%
CTTCGAGGTTTCCGAGGCTG+TGG + Chr2:18376126-18376145 MsG0280007636.01.T01:CDS 60.0%
GCTGCGGCGGACATGATGAA+AGG + Chr2:18376427-18376446 MsG0280007636.01.T01:CDS 60.0%
TCATCATGTCCGCCGCAGCT+TGG - Chr2:18376426-18376445 None:intergenic 60.0%
TCTTACCTGCCAAGCTGCGG+CGG + Chr2:18376414-18376433 MsG0280007636.01.T01:CDS 60.0%
! CTGCAAGAAGCACGTCGAGG+TGG + Chr2:18376255-18376274 MsG0280007636.01.T01:CDS 60.0%
CATGTCCGCCGCAGCTTGGC+AGG - Chr2:18376422-18376441 None:intergenic 70.0%
Chromosome Type Strat End Strand Name
Chr2 gene 18376070 18376552 18376070 ID=MsG0280007636.01;Name=MsG0280007636.01
Chr2 mRNA 18376070 18376552 18376070 ID=MsG0280007636.01.T01;Parent=MsG0280007636.01;Name=MsG0280007636.01.T01;_AED=0.49;_eAED=0.49;_QI=0|-1|0|1|-1|1|1|0|160
Chr2 exon 18376070 18376552 18376070 ID=MsG0280007636.01.T01:exon:11064;Parent=MsG0280007636.01.T01
Chr2 CDS 18376070 18376552 18376070 ID=MsG0280007636.01.T01:cds;Parent=MsG0280007636.01.T01
Gene Sequence

>MsG0280007636.01.T01

ATGTCTTCAACAACCAAGAAGAAGATGATCACCCTGAAGAGTTTCGACGGTGAAACCTTCGAGGTTTCCGAGGCTGTGGCGCTTGAATCACAGACAATCAAGCACATGATCGAGGATGATTGTGCCGACAACGCAATCCCGATTCAGAACGTTACCGGCAAGGTATTAGCGAAGGTAATTGAATACTGCAAGAAGCACGTCGAGGTGGCGAGTGCCGATGAAAAACCTTCAGAATCAGAAGATTATCTTAAGAATTGGGATGCTGATTTCGTGAAGGTTGATAAGGAACCGCTTTTTGAACTCATCCTTGCTGCAAACTACTTGGATATCAAGAGTCTACTGGATCTTACCTGCCAAGCTGCGGCGGACATGATGAAAGGAAAGCAAGTGGAGGAAGTTCGCACGATGTTTAACATCAAGAATGATTACACTCCGGAGGAAGAGGAAGAAGTTCGAAAGGAAAACGCATGGGCATTTGAATGA

Protein sequence

>MsG0280007636.01.T01

MSSTTKKKMITLKSFDGETFEVSEAVALESQTIKHMIEDDCADNAIPIQNVTGKVLAKVIEYCKKHVEVASADEKPSESEDYLKNWDADFVKVDKEPLFELILAANYLDIKSLLDLTCQAAADMMKGKQVEEVRTMFNIKNDYTPEEEEEVRKENAWAFE*