AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG000360

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG000360 MtrunA17_Chr1g0152651 91.218 353 26 3 1 352 1 349 0.0 599
MsaG000360 MtrunA17_Chr3g0134741 49.737 380 119 12 1 368 1 320 1.35e-97 293
MsaG000360 MtrunA17_Chr5g0393721 52.821 195 78 5 179 363 120 310 4.17e-51 173
MsaG000360 MtrunA17_Chr1g0207301 50.532 188 74 4 189 363 193 374 2.08e-48 167
MsaG000360 MtrunA17_Chr1g0207311 51.124 178 81 3 190 365 111 284 5.57e-47 161
MsaG000360 MtrunA17_Chr5g0435021 65.000 60 21 0 286 345 227 286 1.50e-22 96.7
MsaG000360 MtrunA17_Chr4g0074161 52.564 78 37 0 263 340 192 269 1.09e-19 89.7
MsaG000360 MtrunA17_Chr8g0384141 66.071 56 19 0 286 341 123 178 8.19e-19 85.1
MsaG000360 MtrunA17_Chr3g0134001 62.963 54 20 0 286 339 180 233 6.85e-18 82.8
MsaG000360 MtrunA17_Chr7g0243041 56.364 55 24 0 284 338 33 87 7.53e-17 77.0
MsaG000360 MtrunA17_Chr1g0190731 56.923 65 28 0 276 340 192 256 8.09e-17 80.9
MsaG000360 MtrunA17_Chr4g0035101 40.517 116 62 3 230 340 94 207 3.89e-15 75.9
MsaG000360 MtrunA17_Chr4g0014771 57.576 66 27 1 276 340 117 182 2.87e-14 70.9
MsaG000360 MtrunA17_Chr3g0144641 38.136 118 67 3 226 340 141 255 7.79e-14 72.4
MsaG000360 MtrunA17_Chr5g0415291 34.307 137 70 3 224 340 40 176 4.87e-13 68.2
MsaG000360 MtrunA17_Chr1g0153241 35.354 99 59 1 261 354 64 162 6.29e-13 68.2
MsaG000360 MtrunA17_Chr5g0421111 35.915 142 75 4 215 340 288 429 1.01e-12 69.3
MsaG000360 MtrunA17_Chr6g0484271 50.769 65 31 1 277 340 155 219 1.16e-12 67.8
MsaG000360 MtrunA17_Chr8g0365941 34.247 146 81 4 201 340 233 369 1.32e-12 68.9
MsaG000360 MtrunA17_Chr8g0339091 52.308 65 30 1 277 340 291 355 1.36e-12 68.9
MsaG000360 MtrunA17_Chr1g0193321 45.455 66 36 0 275 340 460 525 1.43e-12 68.9
MsaG000360 MtrunA17_Chr7g0234761 53.125 64 29 1 278 340 318 381 1.59e-12 68.6
MsaG000360 MtrunA17_Chr8g0363921 49.231 65 32 1 277 340 151 215 1.88e-12 67.0
MsaG000360 MtrunA17_Chr1g0152131 50.769 65 31 1 277 340 260 324 2.07e-12 68.2
MsaG000360 MtrunA17_Chr3g0095391 36.364 99 50 3 279 369 311 404 2.84e-12 67.8
MsaG000360 MtrunA17_Chr1g0174271 54.545 66 29 1 276 340 297 362 2.85e-12 67.4
MsaG000360 MtrunA17_Chr1g0182791 39.506 81 47 1 275 355 315 393 3.43e-12 67.8
MsaG000360 MtrunA17_Chr3g0131771 52.308 65 30 1 277 340 147 211 6.45e-12 65.9
MsaG000360 MtrunA17_Chr4g0032951 53.030 66 30 1 276 340 354 419 6.57e-12 66.6
MsaG000360 MtrunA17_Chr8g0385911 49.231 65 32 1 277 340 145 209 1.43e-11 65.1
MsaG000360 MtrunA17_Chr7g0258181 53.846 65 29 1 278 341 244 308 1.78e-11 64.7
MsaG000360 MtrunA17_Chr1g0213791 50.000 68 33 1 276 342 264 331 2.20e-11 64.3
MsaG000360 MtrunA17_Chr5g0402031 42.188 64 37 0 290 353 118 181 2.58e-11 64.3
MsaG000360 MtrunA17_Chr7g0258161 42.308 78 44 1 264 340 160 237 6.47e-11 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG000360 AT2G14760.1 86.316 95 13 0 271 365 231 325 7.47e-54 181
MsaG000360 AT1G27740.1 63.514 148 45 3 220 367 119 257 9.52e-54 178
MsaG000360 AT4G33880.1 79.612 103 21 0 258 360 247 349 4.07e-53 179
MsaG000360 AT2G14760.3 75.926 108 13 1 271 365 231 338 4.00e-50 171
MsaG000360 AT5G43175.1 56.463 147 63 1 221 367 77 222 1.34e-46 159
MsaG000360 AT1G66470.1 54.255 94 38 2 253 345 174 263 5.70e-25 103
MsaG000360 AT5G37800.1 56.667 90 34 2 257 345 184 269 7.90e-25 103
MsaG000360 AT2G24260.2 56.410 78 31 1 266 340 21 98 8.78e-21 90.9
MsaG000360 AT4G30980.1 46.465 99 47 2 244 340 99 193 1.52e-20 91.3
MsaG000360 AT4G30980.2 46.465 99 47 2 244 340 147 241 2.17e-20 91.7
MsaG000360 AT2G24260.1 56.410 78 31 1 266 340 124 201 2.99e-20 91.3
MsaG000360 AT3G21330.1 62.500 56 21 0 284 339 276 331 6.92e-18 84.7
MsaG000360 AT5G58010.1 56.923 65 28 0 276 340 98 162 1.29e-17 82.8
MsaG000360 AT5G01305.1 51.515 66 29 1 274 336 31 96 9.38e-17 77.8
MsaG000360 AT4G00120.1 46.970 66 34 1 286 351 121 185 9.63e-16 75.5
MsaG000360 AT5G50915.3 51.724 87 38 4 278 361 137 222 4.56e-15 75.1
MsaG000360 AT5G50915.4 51.724 87 38 4 278 361 137 222 4.56e-15 75.1
MsaG000360 AT5G50915.1 51.724 87 38 4 278 361 137 222 4.58e-15 75.1
MsaG000360 AT5G50915.2 51.724 87 38 4 278 361 137 222 4.58e-15 75.1
MsaG000360 AT1G18400.2 53.846 65 29 1 277 340 145 209 7.33e-14 71.2
MsaG000360 AT1G18400.1 54.688 64 28 1 278 340 146 209 1.29e-13 70.5
MsaG000360 AT2G18300.2 31.875 160 92 4 185 340 103 249 1.64e-13 71.2
MsaG000360 AT2G18300.1 31.875 160 92 4 185 340 103 249 1.95e-13 70.9
MsaG000360 AT1G26260.3 36.364 132 74 3 212 340 112 236 2.00e-13 70.9
MsaG000360 AT1G35460.1 54.545 66 29 1 276 340 180 245 2.24e-13 70.1
MsaG000360 AT1G26260.5 36.424 151 86 4 195 340 120 265 2.25e-13 71.2
MsaG000360 AT1G26260.4 36.424 151 86 4 195 340 142 287 2.37e-13 71.2
MsaG000360 AT1G26260.1 36.424 151 86 4 195 340 142 287 2.37e-13 71.2
MsaG000360 AT1G26260.6 36.424 151 86 4 195 340 142 287 2.37e-13 71.2
MsaG000360 AT1G26260.2 36.424 151 86 4 195 340 142 287 2.37e-13 71.2
MsaG000360 AT2G18300.3 31.875 160 92 4 185 340 103 249 2.65e-13 70.9
MsaG000360 AT1G25330.1 46.341 82 43 1 277 357 104 185 4.36e-13 68.6
MsaG000360 AT4G09180.1 52.941 68 31 1 276 342 183 250 4.43e-13 68.9
MsaG000360 AT3G07340.2 34.337 166 83 5 189 340 169 322 4.55e-13 70.5
MsaG000360 AT1G73830.2 40.187 107 60 2 247 352 117 220 4.80e-13 68.9
MsaG000360 AT1G73830.1 40.187 107 60 2 247 352 117 220 4.86e-13 68.9
MsaG000360 AT3G07340.1 34.337 166 83 5 189 340 169 322 4.91e-13 70.5
MsaG000360 AT2G42280.1 55.385 65 28 1 276 339 278 342 2.23e-12 68.2
MsaG000360 AT1G59640.1 49.231 65 32 1 277 340 136 200 2.53e-12 67.0
MsaG000360 AT3G23690.1 37.168 113 54 2 245 340 143 255 2.81e-12 67.8
MsaG000360 AT1G09530.3 37.864 103 58 2 253 349 307 409 2.90e-12 68.2
MsaG000360 AT1G09530.2 37.864 103 58 2 253 349 307 409 2.90e-12 68.2
MsaG000360 AT1G09530.5 37.864 103 58 2 253 349 307 409 2.90e-12 68.2
MsaG000360 AT1G09530.1 37.864 103 58 2 253 349 307 409 2.90e-12 68.2
MsaG000360 AT1G09530.4 37.864 103 58 2 253 349 307 409 2.90e-12 68.2
MsaG000360 AT1G09530.6 37.864 103 58 2 253 349 307 409 2.90e-12 68.2
MsaG000360 AT1G51140.1 52.308 65 30 1 276 339 303 367 3.89e-12 67.4
MsaG000360 AT5G48560.1 52.308 65 30 1 277 340 301 365 3.92e-12 67.8
MsaG000360 AT5G48560.2 53.125 64 29 1 278 340 302 365 4.47e-12 67.4
MsaG000360 AT4G34530.1 50.769 65 31 1 277 340 172 236 5.64e-12 66.6
MsaG000360 AT1G10120.2 51.562 64 30 1 278 340 207 270 5.79e-12 67.0
MsaG000360 AT1G10120.1 51.562 64 30 1 278 340 207 270 5.79e-12 67.0
MsaG000360 AT1G59640.2 49.231 65 32 1 277 340 136 200 7.17e-12 66.2
MsaG000360 AT4G00050.2 41.463 82 43 2 263 344 96 172 1.06e-11 65.5
MsaG000360 AT2G42280.3 54.688 64 28 1 276 338 278 341 1.36e-11 65.5
MsaG000360 AT1G68920.3 50.769 65 31 1 277 340 302 366 1.63e-11 65.9
MsaG000360 AT1G68920.1 50.769 65 31 1 277 340 303 367 1.65e-11 65.9
MsaG000360 AT1G68920.4 50.769 65 31 1 277 340 303 367 1.65e-11 65.9
MsaG000360 AT1G68920.2 50.769 65 31 1 277 340 303 367 1.65e-11 65.9
MsaG000360 AT4G00050.1 41.463 82 43 2 263 344 198 274 2.10e-11 65.5
MsaG000360 AT4G00050.3 41.463 82 43 2 263 344 198 274 2.19e-11 65.1
MsaG000360 AT2G20180.4 46.875 64 34 0 277 340 278 341 3.48e-11 64.7
MsaG000360 AT2G20180.6 46.875 64 34 0 277 340 278 341 3.48e-11 64.7
MsaG000360 AT2G20180.2 46.875 64 34 0 277 340 278 341 3.48e-11 64.7
MsaG000360 AT2G20180.3 46.875 64 34 0 277 340 278 341 3.48e-11 64.7
MsaG000360 AT4G36540.1 47.692 65 33 1 277 340 141 205 3.84e-11 63.9
MsaG000360 AT4G28790.1 39.560 91 52 2 264 354 260 347 3.91e-11 64.7
MsaG000360 AT4G36540.2 47.692 65 33 1 277 340 141 205 3.93e-11 63.9
MsaG000360 AT2G20180.7 46.875 64 34 0 277 340 207 270 4.20e-11 64.3
MsaG000360 AT2G20180.1 46.875 64 34 0 277 340 207 270 4.20e-11 64.3
MsaG000360 AT2G20180.5 46.875 64 34 0 277 340 207 270 4.20e-11 64.3
MsaG000360 AT2G46970.1 32.967 91 56 1 276 361 222 312 5.65e-11 63.9
MsaG000360 AT2G46970.2 32.967 91 56 1 276 361 191 281 5.94e-11 63.9
MsaG000360 AT2G46970.3 32.967 91 56 1 276 361 200 290 6.57e-11 63.9
MsaG000360 AT4G36930.1 39.189 74 45 0 284 357 198 271 7.00e-11 63.5

Find 52 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTCCATTACAATCTCATTA+AGG 0.173245 1:-4885043 None:intergenic
TGCAAGTGATGATCATATTT+TGG 0.179137 1:+4885091 MsaT000360.1:CDS
GATCAAAATTCACTTCTTCT+AGG 0.206106 1:+4884741 MsaT000360.1:CDS
GAGAAATATAGTTAGAGTTT+TGG 0.293615 1:-4884863 None:intergenic
TACCCTTGCATATAGACTTT+GGG 0.321694 1:-4885651 None:intergenic
AAGAAATCCCATTCTCCTTC+AGG 0.327986 1:-4884666 None:intergenic
TTCCATTACAATCTCATTAA+GGG 0.348435 1:-4885042 None:intergenic
TATGCACCACTTGCTTATAA+TGG 0.352026 1:+4886203 MsaT000360.1:CDS
TGGTTATAATACTCAAATAA+TGG 0.360333 1:+4885121 MsaT000360.1:CDS
ATCAAAATTCACTTCTTCTA+GGG 0.385839 1:+4884742 MsaT000360.1:CDS
ATTAATAATAGAGGATCAAA+TGG 0.401696 1:+4885512 MsaT000360.1:CDS
CCTTCAGGGAAAGTACCTAT+AGG 0.408509 1:-4884651 None:intergenic
GGAACTACTCTCAACTCAAA+TGG 0.413988 1:+4885593 MsaT000360.1:CDS
TTACCCTTGCATATAGACTT+TGG 0.415798 1:-4885652 None:intergenic
TACTTTCCCTGAAGGAGAAT+GGG 0.424302 1:+4884659 MsaT000360.1:CDS
TGCTTGGTGTGAAGATCAAC+AGG 0.425932 1:-4885146 None:intergenic
TTATTTACTAGTACTTGATC+AGG 0.442578 1:-4884954 None:intergenic
AGTTGCAAATGCAGCTCAAA+AGG 0.443724 1:+4885171 MsaT000360.1:CDS
AATATTACCTTTGTTCCGTT+CGG 0.447590 1:-4885844 None:intergenic
CTGCATTTGCAACTCATGCT+TGG 0.451532 1:-4885162 None:intergenic
ATCCCTTAATGAGATTGTAA+TGG 0.463322 1:+4885040 MsaT000360.1:CDS
CTTCTTCTAGGGGAAAATGA+TGG 0.464779 1:+4884753 MsaT000360.1:CDS
ACAGAAGAGATTAATAATAG+AGG 0.477922 1:+4885503 MsaT000360.1:CDS
GAACTACTCTCAACTCAAAT+GGG 0.480885 1:+4885594 MsaT000360.1:CDS
GCTTATAATGGACTTGACCT+TGG 0.488445 1:+4886215 MsaT000360.1:CDS
AATGCTTCTCAAGAAAATAG+TGG 0.493032 1:+4885569 MsaT000360.1:CDS
GTACTTTCCCTGAAGGAGAA+TGG 0.496433 1:+4884658 MsaT000360.1:CDS
TTATAGAATATGGAACCTAT+AGG 0.524720 1:+4884636 None:intergenic
ACCCTTGCATATAGACTTTG+GGG 0.534775 1:-4885650 None:intergenic
ATCCCCAAAGTCTATATGCA+AGG 0.542852 1:+4885648 MsaT000360.1:CDS
AGAAATCCCATTCTCCTTCA+GGG 0.544452 1:-4884665 None:intergenic
ATTTCAATTATATAGGGCCA+AGG 0.547971 1:+4885419 MsaT000360.1:intron
TCAAAATTCACTTCTTCTAG+GGG 0.551527 1:+4884743 MsaT000360.1:CDS
TGAGGTTGAGATTGAGTCCA+AGG 0.556070 1:-4886232 None:intergenic
GAAAGTTGCTAACAATGAAG+AGG 0.569015 1:+4885475 MsaT000360.1:CDS
ATTACAATCTCATTAAGGGA+TGG 0.572980 1:-4885038 None:intergenic
GAAACTTGATGTGATAGAAG+TGG 0.575721 1:+4885193 MsaT000360.1:CDS
TATAAGTACAATGCTTGAAG+AGG 0.587398 1:+4885986 MsaT000360.1:CDS
TATATCTTTGAAGCTCATAG+TGG 0.590762 1:-4886266 None:intergenic
GAAAATGATGGATTGAACAA+TGG 0.593371 1:+4884765 MsaT000360.1:CDS
TCCCCAAAGTCTATATGCAA+GGG 0.597305 1:+4885649 MsaT000360.1:CDS
TCTTGTACCGAACGGAACAA+AGG 0.602216 1:+4885837 MsaT000360.1:CDS
CCTATAGGTACTTTCCCTGA+AGG 0.620831 1:+4884651 MsaT000360.1:CDS
AATTTCAGCAGTGCAAAATG+TGG 0.624595 1:-4884796 None:intergenic
CTCTAGTAGTAACATTTCTG+AGG 0.625639 1:+4885541 MsaT000360.1:CDS
TTACAAAATCTTGTACCGAA+CGG 0.632772 1:+4885829 MsaT000360.1:CDS
AAGGATGCATGAAAATTGCA+AGG 0.634976 1:+4885438 MsaT000360.1:CDS
ACTTGATGTGATAGAAGTGG+AGG 0.635683 1:+4885196 MsaT000360.1:CDS
GGGAAGACAAGAGCTAGTAG+AGG 0.635890 1:+4885614 MsaT000360.1:CDS
TCAAGTCCATTATAAGCAAG+TGG 0.638289 1:-4886209 None:intergenic
GCTTCTCAAGAAAATAGTGG+AGG 0.669375 1:+4885572 MsaT000360.1:CDS
ATAGTGGTAGAGAACTGTTG+AGG 0.720764 1:-4886250 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 4884645 4886274 4884645 ID=MsaG000360
Chr1 mRNA 4884645 4886274 4884645 ID=MsaT000360.1;Parent=MsaG000360
Chr1 exon 4884645 4885286 4884645 ID=MsaT000360.1.exon1;Parent=MsaT000360.1
Chr1 CDS 4884645 4885286 4884645 ID=cds.MsaT000360.1;Parent=MsaT000360.1
Chr1 exon 4885434 4885670 4885434 ID=MsaT000360.1.exon2;Parent=MsaT000360.1
Chr1 CDS 4885434 4885670 4885434 ID=cds.MsaT000360.1;Parent=MsaT000360.1
Chr1 exon 4885793 4885858 4885793 ID=MsaT000360.1.exon3;Parent=MsaT000360.1
Chr1 CDS 4885793 4885858 4885793 ID=cds.MsaT000360.1;Parent=MsaT000360.1
Chr1 exon 4885981 4886046 4885981 ID=MsaT000360.1.exon4;Parent=MsaT000360.1
Chr1 CDS 4885981 4886046 4885981 ID=cds.MsaT000360.1;Parent=MsaT000360.1
Chr1 exon 4886176 4886274 4886176 ID=MsaT000360.1.exon5;Parent=MsaT000360.1
Chr1 CDS 4886176 4886274 4886176 ID=cds.MsaT000360.1;Parent=MsaT000360.1
Gene Sequence

>MsaT000360.1

ATGGAACCTATAGGTACTTTCCCTGAAGGAGAATGGGATTTCTTTCGCAAAATGTTTGCTAGTGAAGATCATGAATATTACTCACAACAATTTCTTGATCAAAATTCACTTCTTCTAGGGGAAAATGATGGATTGAACAATGGAACACAGTCCACATTTTGCACTGCTGAAATTGGTGAAAATGAGCGTATGTTTTATTCTTTTGATCATGCTCATATCCAAAACTCTAACTATATTTCTCAATCTCAAGAGAATAGTTACAATAGCAATTCTAGTGCTAGTGATGATACAAATTACTATTTTAGTTATCCTGATCAAGTACTAGTAAATAATATTAATAATTGTATATCCAATGATTTTTGCATGGATGAGAATTTGTTTGCTTCTTCTGTTCCATCCCTTAATGAGATTGTAATGGAAGAGAATGTGAGAATGAATGAAGATTCTGCAAGTGATGATCATATTTTGGAGAAAAATGGTTATAATACTCAAATAATGGAACCTGTTGATCTTCACACCAAGCATGAGTTGCAAATGCAGCTCAAAAGGAAACTTGATGTGATAGAAGTGGAGGTTCCTGTTGAAGAAAAAATTAACAACAAATCAGAGAATCCGAAGAAAAAACCTCGCATTTCAAAAGATGGCCAAGGATGCATGAAAATTGCAAGGTCAAAGAAGAATAAGAAAGTTGCTAACAATGAAGAGGAGATTACAGAAGAGATTAATAATAGAGGATCAAATGGAAATAGCTCTAGTAGTAACATTTCTGAGGATGATAATGCTTCTCAAGAAAATAGTGGAGGAACTACTCTCAACTCAAATGGGAAGACAAGAGCTAGTAGAGGATCAGCAACAGATCCCCAAAGTCTATATGCAAGGAAAAGAAGAGAGAGAATAAATGAGCGACTAAGAGTCTTACAAAATCTTGTACCGAACGGAACAAAGGTTGATATAAGTACAATGCTTGAAGAGGCAGTCAATTATGTGAAATTTTTACAGACTCAAATCAAGCTTTTGAGCTCTGATGATATGTGGATGTATGCACCACTTGCTTATAATGGACTTGACCTTGGACTCAATCTCAACCTCAACAGTTCTCTACCACTATGA
Protein sequence

>MsaT000360.1

MEPIGTFPEGEWDFFRKMFASEDHEYYSQQFLDQNSLLLGENDGLNNGTQSTFCTAEIGENERMFYSFDHAHIQNSNYISQSQENSYNSNSSASDDTNYYFSYPDQVLVNNINNCISNDFCMDENLFASSVPSLNEIVMEENVRMNEDSASDDHILEKNGYNTQIMEPVDLHTKHELQMQLKRKLDVIEVEVPVEEKINNKSENPKKKPRISKDGQGCMKIARSKKNKKVANNEEEITEEINNRGSNGNSSSSNISEDDNASQENSGGTTLNSNGKTRASRGSATDPQSLYARKRRERINERLRVLQNLVPNGTKVDISTMLEEAVNYVKFLQTQIKLLSSDDMWMYAPLAYNGLDLGLNLNLNSSLPL*