AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG015218

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG015218 MtrunA17_Chr1g0172971 83.750 80 12 1 1 79 1 80 2.06e-33 131
MsaG015218 MtrunA17_Chr3g0082121 34.749 259 139 8 171 410 246 493 5.97e-33 131
MsaG015218 MtrunA17_Chr2g0324011 37.500 192 97 6 171 343 220 407 2.44e-32 128
MsaG015218 MtrunA17_Chr8g0363841 32.870 216 120 6 171 367 228 437 9.30e-31 124
MsaG015218 MtrunA17_Chr1g0164591 36.559 186 95 4 171 337 126 307 1.12e-30 120
MsaG015218 MtrunA17_Chr3g0088371 72.857 70 16 1 343 409 85 154 5.88e-25 100
MsaG015218 MtrunA17_Chr2g0287651 31.455 213 119 8 171 365 288 491 1.56e-24 106
MsaG015218 MtrunA17_Chr6g0458391 34.574 188 100 6 171 339 418 601 1.58e-24 106
MsaG015218 MtrunA17_Chr6g0477261 31.925 213 122 7 171 365 92 299 3.51e-23 102
MsaG015218 MtrunA17_Chr1g0203721 31.937 191 107 6 171 342 276 462 2.43e-22 99.8
MsaG015218 MtrunA17_Chr2g0296781 33.010 206 115 7 178 365 210 410 3.12e-22 99.4
MsaG015218 MtrunA17_Chr5g0448761 28.516 256 148 10 177 411 283 524 1.56e-21 97.1
MsaG015218 MtrunA17_Chr5g0441581 23.776 429 216 15 32 365 26 438 3.15e-21 96.3
MsaG015218 MtrunA17_Chr1g0202341 30.476 210 116 6 178 365 268 469 4.14e-21 95.9
MsaG015218 MtrunA17_Chr1g0203051 29.412 187 108 6 171 340 290 469 4.38e-20 92.4
MsaG015218 MtrunA17_Chr5g0448511 29.126 206 122 6 171 357 49 249 1.38e-19 90.9
MsaG015218 MtrunA17_Chr1g0196541 24.221 417 219 16 39 365 1 410 5.49e-19 89.4
MsaG015218 MtrunA17_Chr5g0440451 29.756 205 116 8 171 355 258 454 4.40e-18 86.7
MsaG015218 MtrunA17_Chr3g0080351 29.851 201 116 7 170 350 275 470 1.13e-17 85.5
MsaG015218 MtrunA17_Chr2g0291591 28.972 214 129 8 170 365 269 477 1.31e-17 84.7
MsaG015218 MtrunA17_Chr2g0294841 28.146 302 167 10 103 365 182 472 3.88e-17 83.6
MsaG015218 MtrunA17_Chr2g0329031 30.412 194 112 7 176 350 220 409 8.20e-17 82.8
MsaG015218 MtrunA17_Chr1g0207551 28.846 208 124 7 177 365 248 450 8.93e-17 82.8
MsaG015218 MtrunA17_Chr1g0198761 29.439 214 123 8 178 370 275 481 1.77e-16 81.6
MsaG015218 MtrunA17_Chr2g0276841 29.817 218 127 9 176 373 291 502 5.66e-16 80.1
MsaG015218 MtrunA17_Chr2g0287061 26.291 213 129 7 171 365 358 560 8.90e-16 79.7
MsaG015218 MtrunA17_Chr7g0258861 54.054 74 29 2 171 239 221 294 2.60e-15 76.3
MsaG015218 MtrunA17_Chr3g0118611 28.947 190 112 5 171 341 155 340 4.25e-15 77.4
MsaG015218 MtrunA17_Chr5g0431001 27.536 207 116 6 178 360 289 485 2.08e-14 74.7
MsaG015218 MtrunA17_Chr2g0290391 28.272 191 110 6 182 349 286 472 3.77e-11 65.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG015218 AT4G38180.1 28.185 259 145 10 177 411 292 533 4.90e-21 96.3
MsaG015218 AT4G38170.1 30.952 210 114 8 171 357 50 251 1.24e-19 91.3
MsaG015218 AT4G15090.1 27.397 219 135 6 171 370 262 475 1.80e-17 85.1
MsaG015218 AT4G15090.5 27.397 219 135 6 171 370 262 475 1.80e-17 85.1
MsaG015218 AT4G15090.3 27.397 219 135 6 171 370 262 475 1.80e-17 85.1
MsaG015218 AT4G15090.2 27.397 219 135 6 171 370 262 475 1.80e-17 85.1
MsaG015218 AT4G15090.4 27.397 219 135 6 171 370 262 475 1.80e-17 85.1
MsaG015218 AT3G06250.2 28.161 174 103 4 181 337 372 540 2.56e-17 84.7
MsaG015218 AT3G06250.1 28.161 174 103 4 181 337 372 540 2.56e-17 84.7
MsaG015218 AT3G06250.3 28.161 174 103 4 181 337 372 540 2.56e-17 84.7
MsaG015218 AT5G18960.2 27.228 202 121 6 181 365 396 588 2.63e-17 84.7
MsaG015218 AT5G18960.1 27.228 202 121 6 181 365 396 588 2.63e-17 84.7
MsaG015218 AT2G27110.3 29.508 183 106 5 178 341 95 273 1.66e-16 82.0
MsaG015218 AT2G27110.2 29.508 183 106 5 178 341 240 418 1.70e-16 82.4
MsaG015218 AT2G27110.1 29.508 183 106 5 178 341 240 418 1.70e-16 82.4
MsaG015218 AT3G22170.2 25.581 215 136 7 170 365 270 479 6.02e-16 80.5
MsaG015218 AT3G22170.1 25.581 215 136 7 170 365 270 479 6.02e-16 80.5
MsaG015218 AT2G32250.5 22.581 403 244 13 4 350 10 400 1.15e-15 79.7
MsaG015218 AT2G32250.2 22.581 403 244 13 4 350 10 400 1.29e-15 79.3
MsaG015218 AT2G32250.4 22.581 403 244 13 4 350 10 400 1.29e-15 79.3
MsaG015218 AT2G32250.6 22.581 403 244 13 4 350 10 400 1.34e-15 79.3
MsaG015218 AT2G32250.1 22.581 403 244 13 4 350 10 400 1.34e-15 79.3
MsaG015218 AT2G32250.3 22.581 403 244 13 4 350 10 400 1.34e-15 79.3
MsaG015218 AT2G32250.8 22.191 356 214 10 50 350 12 359 5.99e-15 77.4
MsaG015218 AT1G80010.1 28.037 214 132 8 170 365 307 516 6.42e-15 77.4
MsaG015218 AT2G32250.7 22.191 356 214 10 50 350 12 359 6.92e-15 77.0
MsaG015218 AT1G76320.3 26.168 214 134 7 176 370 204 412 2.18e-14 75.5
MsaG015218 AT1G76320.2 26.168 214 134 7 176 370 204 412 3.22e-14 75.1
MsaG015218 AT1G76320.1 26.168 214 134 7 176 370 204 412 3.28e-14 75.1
MsaG015218 AT1G76320.4 26.168 214 134 7 176 370 204 412 3.28e-14 75.1
MsaG015218 AT5G28530.1 27.854 219 114 9 176 365 284 487 6.61e-14 73.9
MsaG015218 AT5G28530.3 27.854 219 114 9 176 365 284 487 8.38e-14 73.9
MsaG015218 AT5G28530.2 27.854 219 114 9 176 365 284 487 8.38e-14 73.9
MsaG015218 AT1G10240.2 29.864 221 123 11 176 373 269 480 2.54e-12 69.3
MsaG015218 AT1G10240.1 29.864 221 123 11 176 373 269 480 2.54e-12 69.3

Find 55 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTCGATGAGTTAACTAATT+TGG 0.156761 3:+84065289 MsaT015218.1:CDS
CAACAAGATTATGCTCTATT+TGG 0.198611 3:+84064514 MsaT015218.1:CDS
TTCATTTCAGCTGCCTTTCT+TGG 0.201003 3:+84065012 MsaT015218.1:intron
CATCGTAAGAGTGTGTTATT+TGG 0.276792 3:+84065045 MsaT015218.1:CDS
TATGGTTTGAGGTTTCTTAT+TGG 0.280533 3:-84065139 None:intergenic
AATCAGATTTCGACTACAAT+TGG 0.318540 3:+84065330 MsaT015218.1:CDS
TGTTCTTGAGGCAGGGAAAA+AGG 0.322946 3:+84066262 MsaT015218.1:CDS
GCACTAGCACTCGGTGTATA+TGG 0.331960 3:-84065157 None:intergenic
GGCGATATTTATTGTTTGTT+CGG 0.335033 3:-84064564 None:intergenic
TATGCATTGGTCTTCAGTTT+GGG 0.370760 3:+84065430 MsaT015218.1:CDS
CACTCGGTGTATATGGTTTG+AGG 0.371863 3:-84065150 None:intergenic
CTCAACGGTGTTCTTGAGGC+AGG 0.386173 3:+84066254 MsaT015218.1:CDS
GTATGCATTGGTCTTCAGTT+TGG 0.392120 3:+84065429 MsaT015218.1:CDS
AAGAAAGACCAAATCCAATT+AGG 0.397771 3:+84066402 MsaT015218.1:CDS
TTTGGTCTTTCTTTGAACTT+TGG 0.398856 3:-84066392 None:intergenic
GAGGAGTTTCTTATTTCTAA+AGG 0.403538 3:+84066287 MsaT015218.1:CDS
TAAAGAATCATGGAAGTCTT+TGG 0.408500 3:+84063811 MsaT015218.1:CDS
ATAACACTGGATTCTCTGTT+AGG 0.417808 3:+84063882 MsaT015218.1:CDS
CGAGAAGTAAATGAAGTTCA+AGG 0.430014 3:+84064213 MsaT015218.1:CDS
AGCTGGAATATATTTGAAGT+TGG 0.433136 3:+84064095 MsaT015218.1:CDS
GAAAGGGTTGGTTGTAAAGC+TGG 0.447509 3:+84064078 MsaT015218.1:CDS
GCTTTAATAAATTCTAAAGC+TGG 0.450264 3:+84064243 MsaT015218.1:CDS
ATCTGAGAGTGGACAATTGA+CGG 0.452529 3:+84063736 MsaT015218.1:CDS
TGGTCTTTGCTCATGGCACA+TGG 0.452802 3:+84065220 MsaT015218.1:CDS
GGCCTACTTCGGACTTTAAG+TGG 0.458978 3:+84065384 MsaT015218.1:CDS
ACAAAATAAGAAATCGGATA+AGG 0.469178 3:+84063931 MsaT015218.1:CDS
TTACAACCAACCCTTTCCTC+TGG 0.485330 3:-84064072 None:intergenic
TTTAATTATGCATATAACAC+TGG 0.485542 3:+84063869 MsaT015218.1:CDS
CTCAAGTAGCACAAATGCTC+TGG 0.489977 3:-84064183 None:intergenic
CAATTCACAAAATAAGAAAT+CGG 0.490263 3:+84063925 MsaT015218.1:CDS
ATGATTGTCAAAACCAAGAA+AGG 0.491378 3:-84065025 None:intergenic
CTGTCTATGAACCATCTGTT+GGG 0.491412 3:+84066363 MsaT015218.1:CDS
ATCAGATTTCGACTACAATT+GGG 0.491708 3:+84065331 MsaT015218.1:CDS
AAATGCTCTGGTTTATGTAA+TGG 0.504865 3:-84064171 None:intergenic
CTCATTCAAATCGTATGCAT+TGG 0.507227 3:+84065417 MsaT015218.1:CDS
ATTGGTCTTCAGTTTGGGTG+AGG 0.509410 3:+84065435 MsaT015218.1:CDS
TGTCTATAAGATATATAAGT+GGG 0.514682 3:+84064131 MsaT015218.1:CDS
GAGAACATCTTATGAAGCGA+TGG 0.538371 3:+84064275 MsaT015218.1:CDS
CATTTAGTGATAAAGAATCA+TGG 0.546005 3:+84063801 MsaT015218.1:CDS
TTTCTCATACTCAACAAGAA+TGG 0.548165 3:-84064037 None:intergenic
TGAAAATTCAGTTATTGATG+CGG 0.565546 3:+84063760 MsaT015218.1:CDS
GCTGTCTATGAACCATCTGT+TGG 0.568181 3:+84066362 MsaT015218.1:CDS
ATGTCTATAAGATATATAAG+TGG 0.572287 3:+84064130 MsaT015218.1:CDS
TTTGGTGCAGTCCCAACAGA+TGG 0.581566 3:-84066374 None:intergenic
ATATTAACTTCATCTGAGAG+TGG 0.588105 3:+84063725 MsaT015218.1:CDS
TCTCGCTCTCGTGCAAACAA+AGG 0.590091 3:+84065262 MsaT015218.1:CDS
TCAACGGTGTTCTTGAGGCA+GGG 0.590097 3:+84066255 MsaT015218.1:CDS
ATTTCTCAACGGTGTTCTTG+AGG 0.591378 3:+84066250 MsaT015218.1:CDS
TGAAGACTTAGAAGGCGTAA+CGG 0.598405 3:-84066330 None:intergenic
ACAAGAATGGTATCACATGT+TGG 0.599438 3:-84064024 None:intergenic
AGAACATCTTATGAAGCGAT+GGG 0.621635 3:+84064276 MsaT015218.1:CDS
AGCCACTTAAAGTCCGAAGT+AGG 0.621799 3:-84065386 None:intergenic
ACACGTGTTTGCAGATGCGG+AGG 0.623686 3:+84066217 MsaT015218.1:intron
GGTCTTTGCTCATGGCACAT+GGG 0.639768 3:+84065221 MsaT015218.1:CDS
GCATCTGAAATATTTCTCAA+CGG 0.661104 3:+84066239 MsaT015218.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 84063716 84066439 84063716 ID=MsaG015218
Chr3 mRNA 84063716 84066439 84063716 ID=MsaT015218.1;Parent=MsaG015218
Chr3 exon 84063716 84063952 84063716 ID=MsaT015218.1.exon1;Parent=MsaT015218.1
Chr3 CDS 84063716 84063952 84063716 ID=cds.MsaT015218.1;Parent=MsaT015218.1
Chr3 exon 84064024 84064297 84064024 ID=MsaT015218.1.exon2;Parent=MsaT015218.1
Chr3 CDS 84064024 84064297 84064024 ID=cds.MsaT015218.1;Parent=MsaT015218.1
Chr3 exon 84064503 84064583 84064503 ID=MsaT015218.1.exon3;Parent=MsaT015218.1
Chr3 CDS 84064503 84064583 84064503 ID=cds.MsaT015218.1;Parent=MsaT015218.1
Chr3 exon 84065022 84065171 84065022 ID=MsaT015218.1.exon4;Parent=MsaT015218.1
Chr3 CDS 84065022 84065171 84065022 ID=cds.MsaT015218.1;Parent=MsaT015218.1
Chr3 exon 84065210 84065494 84065210 ID=MsaT015218.1.exon5;Parent=MsaT015218.1
Chr3 CDS 84065210 84065494 84065210 ID=cds.MsaT015218.1;Parent=MsaT015218.1
Chr3 exon 84066231 84066439 84066231 ID=MsaT015218.1.exon6;Parent=MsaT015218.1
Chr3 CDS 84066231 84066439 84066231 ID=cds.MsaT015218.1;Parent=MsaT015218.1
Gene Sequence

>MsaT015218.1

ATGGATTTGATATTAACTTCATCTGAGAGTGGACAATTGACGGTTGAAAATTCAGTTATTGATGCGGATAGTTCTCAATGTTACTCATTTAGTGATAAAGAATCATGGAAGTCTTTGGTCTTTAAATCTATAAAAGAGATTGAAGATTTTTATTTTAATTATGCATATAACACTGGATTCTCTGTTAGGAGTATGTTGAAGTCCAAGAACAATTCACAAAATAAGAAATCGGATAAGCCAACATGTGATACCATTCTTGTTGAGTATGAGAAAGCTAAAGAAAAACCAGAGGAAAGGGTTGGTTGTAAAGCTGGAATATATTTGAAGTTGGATGAAGCGTTGAATGTCTATAAGATATATAAGTGGGAAGTTGATCACTGTCATCCATTACATAAACCAGAGCATTTGTGCTACTTGAGATCATTTCGAGAAGTAAATGAAGTTCAAGGACAACTTGCTTTAATAAATTCTAAAGCTGGAATGTCGATGAGAACATCTTATGAAGCGATGGATGGAATTATGCAACAAGATTATGCTCTATTTGGTGAAGTTGTCAGTTTTGATACAACTTACCGAACAAACAATAAATATCCTGCCTTTCTTGGTTTTGACAATCATCGTAAGAGTGTGTTATTTGGTGCTGCGCTACTGTATGATGAGACATCAGCTACTTTTGATTGGTTGTTTACAACTTTTTTGAAGTGTATGTCCAATAAGAAACCTCAAACCATATACACCGAGTGTGTTTTTCATGGTCTTTGCTCATGGCACATGGGAGAGAATGCAAAGAAAAATCTCGCTCTCGTGCAAACAAAGGCATTTTTCGATGAGTTAACTAATTTGGTTTCAAATGTCGAAGATGAATCAGATTTCGACTACAATTGGGATCAGATGATGAAAAACTGTTTTAATGGAAGGCCTACTTCGGACTTTAAGTGGCTTGTTCAAACTCATTCAAATCGTATGCATTGGTCTTCAGTTTGGGTGAGGTCACATTTTACAGCTGGTTTGAAAACGACACAGTTAAATGCGGAGGCATCTGAAATATTTCTCAACGGTGTTCTTGAGGCAGGGAAAAAGGCAGAGGAGTTTCTTATTTCTAAAGGTATTCATACAGATCGATCATCCGTTACGCCTTCTAAGTCTTCAAAAGTAGTTGCTGTCTATGAACCATCTGTTGGGACTGCACCAAAGTTCAAAGAAAGACCAAATCCAATTAGGTCAAAAGCGACTTAA
Protein sequence

>MsaT015218.1

MDLILTSSESGQLTVENSVIDADSSQCYSFSDKESWKSLVFKSIKEIEDFYFNYAYNTGFSVRSMLKSKNNSQNKKSDKPTCDTILVEYEKAKEKPEERVGCKAGIYLKLDEALNVYKIYKWEVDHCHPLHKPEHLCYLRSFREVNEVQGQLALINSKAGMSMRTSYEAMDGIMQQDYALFGEVVSFDTTYRTNNKYPAFLGFDNHRKSVLFGAALLYDETSATFDWLFTTFLKCMSNKKPQTIYTECVFHGLCSWHMGENAKKNLALVQTKAFFDELTNLVSNVEDESDFDYNWDQMMKNCFNGRPTSDFKWLVQTHSNRMHWSSVWVRSHFTAGLKTTQLNAEASEIFLNGVLEAGKKAEEFLISKGIHTDRSSVTPSKSSKVVAVYEPSVGTAPKFKERPNPIRSKAT*