AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG023960


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG023960 MtrunA17_Chr8g0383981 92.857 490 33 2 1 488 18 507 0.0 929
MsaG023960 MtrunA17_Chr8g0383561 86.861 137 17 1 1 136 16 152 4.11e-76 235
MsaG023960 MtrunA17_Chr3g0114841 38.000 400 192 12 118 477 117 500 4.58e-65 218
MsaG023960 MtrunA17_Chr5g0424131 37.750 400 213 13 107 477 107 499 2.90e-64 216
MsaG023960 MtrunA17_Chr4g0038761 32.345 371 221 11 126 480 89 445 1.32e-41 154
MsaG023960 MtrunA17_Chr2g0306641 31.053 380 226 12 118 476 122 486 1.87e-40 152
MsaG023960 MtrunA17_Chr3g0110971 32.558 387 217 15 118 476 216 586 6.30e-38 146
MsaG023960 MtrunA17_Chr4g0057291 29.177 401 232 17 118 485 289 670 1.46e-35 140
MsaG023960 MtrunA17_Chr7g0224271 29.975 407 226 16 108 476 287 672 3.37e-35 139
MsaG023960 MtrunA17_Chr8g0376381 29.333 375 230 12 118 476 166 521 5.02e-33 131
MsaG023960 MtrunA17_Chr7g0245601 27.224 371 232 13 126 478 443 793 2.28e-32 131
MsaG023960 MtrunA17_Chr4g0039661 30.914 372 221 16 126 476 198 554 7.41e-30 122
MsaG023960 MtrunA17_Chr7g0230731 27.297 381 239 11 115 476 366 727 2.39e-26 112
MsaG023960 MtrunA17_Chr1g0200401 30.280 393 229 16 118 476 77 458 3.67e-26 110
MsaG023960 MtrunA17_Chr1g0183641 25.326 383 240 12 117 477 119 477 2.33e-25 108
MsaG023960 MtrunA17_Chr7g0230771 26.772 381 241 11 115 476 369 730 4.13e-25 109
MsaG023960 MtrunA17_Chr2g0319091 28.272 382 239 16 118 476 209 578 5.50e-25 108
MsaG023960 MtrunA17_Chr4g0076091 24.810 395 264 14 105 477 160 543 3.21e-23 102
MsaG023960 MtrunA17_Chr5g0401131 26.823 384 251 16 120 478 113 491 1.09e-22 100
MsaG023960 MtrunA17_Chr5g0445331 25.243 412 272 15 93 476 128 531 1.54e-22 100
MsaG023960 MtrunA17_Chr5g0447691 27.407 405 255 18 96 476 154 543 2.12e-22 100
MsaG023960 MtrunA17_Chr8g0357601 26.289 388 242 15 118 476 179 551 2.84e-22 100
MsaG023960 MtrunA17_Chr3g0125811 26.525 377 246 12 121 476 203 569 5.23e-22 99.4
MsaG023960 MtrunA17_Chr1g0159461 27.249 378 242 14 121 476 225 591 7.37e-22 99.0
MsaG023960 MtrunA17_Chr2g0294461 26.914 405 243 16 108 476 197 584 7.61e-22 99.0
MsaG023960 MtrunA17_Chr4g0031711 25.495 404 251 17 109 479 349 735 1.41e-21 98.2
MsaG023960 MtrunA17_Chr2g0294471 26.866 402 244 17 108 476 191 575 2.31e-21 97.4
MsaG023960 MtrunA17_Chr7g0238891 25.366 410 261 17 97 479 351 742 2.37e-21 97.8
MsaG023960 MtrunA17_Chr3g0101141 26.650 394 255 16 105 476 160 541 6.46e-21 95.9
MsaG023960 MtrunA17_Chr2g0328391 23.990 396 265 15 109 479 287 671 9.54e-21 95.5
MsaG023960 MtrunA17_Chr2g0290241 26.124 356 222 15 150 476 81 424 2.55e-20 93.2
MsaG023960 MtrunA17_Chr2g0328431 23.545 378 250 15 126 479 294 656 3.38e-20 94.0
MsaG023960 MtrunA17_Chr4g0031741 25.641 390 238 15 121 479 284 652 4.09e-20 93.6
MsaG023960 MtrunA17_Chr4g0057891 27.296 392 234 15 118 476 146 519 1.80e-19 91.3
MsaG023960 MtrunA17_Chr4g0031701 25.559 313 195 12 118 405 251 550 1.81e-18 88.6
MsaG023960 MtrunA17_Chr2g0328411 23.280 378 247 16 126 477 294 654 2.27e-18 88.2
MsaG023960 MtrunA17_Chr8g0373561 26.190 378 244 12 118 476 179 540 6.81e-18 86.7
MsaG023960 MtrunA17_Chr4g0012071 26.247 381 242 15 115 476 190 550 1.10e-17 85.9
MsaG023960 MtrunA17_Chr4g0031731 24.841 314 196 12 118 405 251 550 4.54e-17 84.3
MsaG023960 MtrunA17_Chr2g0328381 22.335 394 280 13 104 479 258 643 1.42e-15 79.3
MsaG023960 MtrunA17_Chr2g0328341 23.575 386 265 14 114 479 265 640 2.34e-15 79.0
MsaG023960 MtrunA17_Chr4g0031721 24.936 393 245 17 118 479 313 686 3.65e-15 78.2
MsaG023960 MtrunA17_Chr7g0270031 27.852 298 175 13 201 476 274 553 6.02e-15 77.4
MsaG023960 MtrunA17_Chr1g0194621 23.929 397 262 14 108 476 133 517 2.61e-14 75.1
MsaG023960 MtrunA17_Chr2g0329591 24.581 358 217 14 159 478 110 452 7.60e-14 73.6
MsaG023960 MtrunA17_Chr5g0396491 29.834 181 116 7 118 292 53 228 9.67e-14 73.2
MsaG023960 MtrunA17_Chr5g0401421 22.170 424 255 12 121 479 35 448 2.41e-13 72.0
MsaG023960 MtrunA17_Chr2g0328361 25.517 290 189 11 104 377 257 535 3.68e-13 72.0
MsaG023960 MtrunA17_Chr4g0038851 28.155 206 134 7 118 314 45 245 2.04e-12 69.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG023960 AT4G08250.1 32.558 387 231 13 118 482 104 482 3.95e-47 170
MsaG023960 AT1G55580.1 34.194 310 171 10 191 476 144 444 2.51e-40 151
MsaG023960 AT5G41920.1 32.061 393 227 14 107 476 24 399 1.16e-39 148
MsaG023960 AT3G03450.1 29.708 377 235 14 118 476 180 544 1.16e-35 139
MsaG023960 AT5G17490.1 28.442 443 279 15 55 476 90 515 1.87e-34 135
MsaG023960 AT1G66350.1 28.267 375 232 14 118 476 152 505 1.41e-31 127
MsaG023960 AT3G54220.1 27.273 374 231 13 126 478 298 651 6.96e-30 124
MsaG023960 AT5G66770.1 28.783 337 213 10 159 476 255 583 1.19e-29 122
MsaG023960 AT1G63100.1 24.752 404 251 14 111 477 242 629 1.65e-29 122
MsaG023960 AT2G01570.1 28.982 383 225 16 118 476 221 580 2.25e-29 122
MsaG023960 AT1G63100.2 24.752 404 251 14 111 477 267 654 2.45e-29 122
MsaG023960 AT1G14920.1 28.052 385 226 16 118 476 169 528 7.31e-29 120
MsaG023960 AT5G59450.1 27.696 408 234 19 118 487 224 608 1.11e-28 120
MsaG023960 AT3G50650.1 29.014 355 211 13 149 476 201 541 2.82e-27 115
MsaG023960 AT4G17230.1 28.715 397 241 16 110 478 144 526 3.02e-26 112
MsaG023960 AT4G17230.2 28.715 397 241 16 110 478 144 526 3.02e-26 112
MsaG023960 AT2G04890.1 28.109 402 247 18 101 476 27 412 2.11e-25 108
MsaG023960 AT1G50600.3 25.781 384 260 13 111 476 149 525 3.57e-25 108
MsaG023960 AT3G46600.1 26.700 397 248 14 109 478 200 580 3.64e-25 109
MsaG023960 AT3G46600.2 27.461 386 237 14 120 478 3 372 3.69e-25 107
MsaG023960 AT3G46600.3 26.700 397 248 14 109 478 168 548 4.72e-25 108
MsaG023960 AT1G50600.2 25.781 384 260 13 111 476 224 600 6.70e-25 108
MsaG023960 AT1G50600.1 25.781 384 260 13 111 476 220 596 6.99e-25 108
MsaG023960 AT5G48150.1 27.970 404 248 16 100 476 102 489 8.27e-25 107
MsaG023960 AT5G48150.4 27.970 404 248 16 100 476 102 489 8.27e-25 107
MsaG023960 AT5G48150.2 27.970 404 248 16 100 476 102 489 8.27e-25 107
MsaG023960 AT5G48150.3 27.970 404 248 16 100 476 102 489 8.27e-25 107
MsaG023960 AT4G37650.1 26.667 390 251 14 121 479 146 531 3.49e-23 103
MsaG023960 AT1G21450.1 28.061 392 244 17 110 476 214 592 6.18e-23 102
MsaG023960 AT1G07530.1 26.952 397 241 16 114 479 389 767 2.19e-22 101
MsaG023960 AT2G37650.1 24.121 398 256 14 109 478 335 714 8.48e-19 90.1
MsaG023960 AT2G37650.2 24.121 398 256 14 109 478 323 702 8.74e-19 90.1
MsaG023960 AT4G00150.1 27.660 376 230 16 117 476 204 553 9.08e-19 89.7
MsaG023960 AT4G36710.1 26.613 372 246 14 120 476 125 484 3.10e-17 84.7
MsaG023960 AT1G07520.1 25.823 395 240 19 121 479 318 695 4.54e-16 81.6
MsaG023960 AT1G07520.3 25.823 395 240 19 121 479 319 696 4.63e-16 81.6
MsaG023960 AT1G07520.2 25.823 395 240 19 121 479 154 531 5.51e-16 80.9
MsaG023960 AT1G07520.4 25.823 395 240 19 121 479 154 531 5.51e-16 80.9
MsaG023960 AT5G52510.1 26.984 315 189 13 194 476 334 639 2.62e-15 79.0
MsaG023960 AT2G29065.1 26.140 329 188 15 185 479 323 630 4.23e-15 78.6
MsaG023960 AT2G45160.1 24.112 394 226 16 123 476 278 638 7.81e-15 77.8
MsaG023960 AT1G50420.1 29.717 212 125 9 118 314 54 256 5.81e-14 74.3
MsaG023960 AT3G60630.1 24.214 318 185 11 191 476 328 621 3.27e-13 72.4

Find 73 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCAATACCTCTTTCTCTATA+AGG 0.158083 4:-94114889 None:intergenic
ATTTCATCTAGGATTGTATT+TGG 0.213674 4:-94113786 None:intergenic
ATTTCGTCTAGGATTGTATT+TGG 0.226044 4:-94113846 None:intergenic
CTAAACAATGCCTCGTCTTT+AGG 0.252519 4:+94114149 MsaT023960.1:CDS
GGAAGTTCAAGAAGAGTTAA+TGG 0.258644 4:+94114037 MsaT023960.1:CDS
CTGTGATTGCTGTTACTCTA+AGG 0.272598 4:-94114475 None:intergenic
GCTTGTTTGGTAAAGGGTAT+TGG 0.274576 4:+94115056 MsaT023960.1:CDS
AAGCTATTGGTTAGCTTGTT+TGG 0.278423 4:+94115043 MsaT023960.1:CDS
AACAAGCCTTGGTGATGATT+TGG 0.290948 4:-94114720 None:intergenic
CTTTGACTTCTGTTTCAATC+TGG 0.297827 4:+94115125 MsaT023960.1:CDS
CTTGTTTGGTAAAGGGTATT+GGG 0.313644 4:+94115057 MsaT023960.1:CDS
CCAGGGAAGAAGATTCTTAT+TGG 0.318155 4:+94114012 MsaT023960.1:CDS
CAATACCTCTTTCTCTATAA+GGG 0.331359 4:-94114888 None:intergenic
TGTGGTGGAGTTACCGAAAA+AGG 0.334912 4:+94113972 MsaT023960.1:CDS
GCGAAAATGTGTTTGTTTCC+AGG 0.339623 4:+94113994 MsaT023960.1:CDS
TATTTCACAGGCTAAGCTAT+TGG 0.357597 4:+94115030 MsaT023960.1:CDS
TGGTTAGCTTGTTTGGTAAA+GGG 0.385802 4:+94115050 MsaT023960.1:CDS
TAAGGGCTAACTCCATCTTA+TGG 0.393772 4:-94114871 None:intergenic
AAGGCGATAGTTTATTGAAC+AGG 0.393824 4:+94114174 MsaT023960.1:CDS
CCTTATAGAGAAAGAGGTAT+TGG 0.394224 4:+94114889 MsaT023960.1:CDS
GATCAAACAATATTTCATCT+AGG 0.398157 4:-94113797 None:intergenic
AATCCAATGGCCACCGTTGA+TGG 0.402840 4:+94114421 MsaT023960.1:CDS
TTGGTTAGCTTGTTTGGTAA+AGG 0.407587 4:+94115049 MsaT023960.1:CDS
ATCAATGAGAAACTCCTGTT+TGG 0.411022 4:-94114674 None:intergenic
ACTCAAATCCATGTCCTTTG+TGG 0.411956 4:+94114778 MsaT023960.1:CDS
TTTGACTTCTGTTTCAATCT+GGG 0.412837 4:+94115126 MsaT023960.1:CDS
TACATCAGTGGATGCCAAAC+AGG 0.416877 4:+94114660 MsaT023960.1:CDS
AGCTTCGAAAATCGCTTGAT+TGG 0.418613 4:-94114348 None:intergenic
GACAGTTTCCTTGTGAAAAG+AGG 0.426025 4:+94114936 MsaT023960.1:CDS
CTAAGCTACATTCATGCAGC+TGG 0.426844 4:-94113725 None:intergenic
CTTATAGAGAAAGAGGTATT+GGG 0.435957 4:+94114890 MsaT023960.1:CDS
GAGATAAGAGATGTTGTGAT+TGG 0.464477 4:-94113824 None:intergenic
CGAAAATGTGTTTGTTTCCA+GGG 0.468711 4:+94113995 MsaT023960.1:CDS
CAACCATCAACGGTGGCCAT+TGG 0.475147 4:-94114424 None:intergenic
CCAATAAGAATCTTCTTCCC+TGG 0.475253 4:-94114012 None:intergenic
GAGACATGAGATCTTCTGCT+TGG 0.478088 4:-94113764 None:intergenic
GTTAGCCCTTATAGAGAAAG+AGG 0.487244 4:+94114883 MsaT023960.1:CDS
AATGCCTCGTCTTTAGGAAA+AGG 0.493064 4:+94114155 MsaT023960.1:CDS
TCGACTAAAACAACAAGCCT+TGG 0.505560 4:-94114731 None:intergenic
ACATGTTCTGAATGGAACTT+AGG 0.509744 4:-94114245 None:intergenic
GCAATATGAGAACTGTAAGT+TGG 0.510443 4:+94115081 MsaT023960.1:CDS
CATGTTCGATACAGTAATGA+TGG 0.510797 4:+94114577 MsaT023960.1:CDS
AAAAGAGGAGAGAATATTGT+GGG 0.515381 4:+94114951 MsaT023960.1:CDS
GAAGCCTCAGTTCAACAAAC+AGG 0.521298 4:+94114512 MsaT023960.1:CDS
TTACTCATATTATAATCTGT+TGG 0.522232 4:-94115151 None:intergenic
ACTGTAAGTTGGCTTTGTGT+TGG 0.525441 4:+94115092 MsaT023960.1:CDS
GAATTCAAAGAAATTGAACT+TGG 0.527275 4:+94114611 MsaT023960.1:CDS
GGAAGAAGATTCTTATTGGA+AGG 0.535054 4:+94114016 MsaT023960.1:CDS
GTGTAGAAACATGTTCTGAA+TGG 0.541579 4:-94114253 None:intergenic
CTTGATCGAAGATTTCGTCT+AGG 0.546863 4:-94113857 None:intergenic
AGATCTTCTGCTTGGAGTGG+TGG 0.557382 4:-94113756 None:intergenic
ATTGAAGGGTATAGACGTGT+TGG 0.559733 4:+94114992 MsaT023960.1:CDS
TTGCTGCAGCAATTCTTGCA+TGG 0.560772 4:-94113886 None:intergenic
GATTCATGATATTGAAGTCG+AGG 0.561299 4:-94113917 None:intergenic
CATGAATCATGAACAAGCAA+TGG 0.561832 4:+94113932 MsaT023960.1:CDS
TCTGTGGAGTAGCCATAAGA+TGG 0.563300 4:+94114859 MsaT023960.1:CDS
GAAAAGAGGAGAGAATATTG+TGG 0.569460 4:+94114950 MsaT023960.1:CDS
TCTGCCTGTTTGTTGAACTG+AGG 0.584240 4:-94114516 None:intergenic
TGTGATTGCTGTTACTCTAA+GGG 0.585072 4:-94114474 None:intergenic
GAGTACATGCAATATTTCAC+AGG 0.587078 4:+94115018 MsaT023960.1:CDS
CAGTTCAACAAACAGGCAGA+AGG 0.599250 4:+94114519 MsaT023960.1:CDS
ATTGCAAAGTCAACCATCAA+CGG 0.607337 4:-94114434 None:intergenic
CAGATTGAAACAGAAGTCAA+AGG 0.620209 4:-94115124 None:intergenic
ATTACTGTATCGAACATGAA+CGG 0.648207 4:-94114572 None:intergenic
ATGAGATCTTCTGCTTGGAG+TGG 0.651380 4:-94113759 None:intergenic
ATATCATGGAGGGAATCCAA+TGG 0.669550 4:+94114408 MsaT023960.1:CDS
CTAGAGAATGAATTGTGTGG+TGG 0.675354 4:+94113957 MsaT023960.1:CDS
ATTCACTTGTAAGTACTCTG+TGG 0.679195 4:+94114843 MsaT023960.1:CDS
TCAATTGTATGATACATCAG+TGG 0.691913 4:+94114648 MsaT023960.1:CDS
GCAAAGTCAACCATCAACGG+TGG 0.711871 4:-94114431 None:intergenic
ACGTAACCAAATCATCACCA+AGG 0.735440 4:+94114714 MsaT023960.1:CDS
TAGAGTAACAGCAATCACAG+TGG 0.741841 4:+94114478 MsaT023960.1:CDS
GCTCTAGAGAATGAATTGTG+TGG 0.769887 4:+94113954 MsaT023960.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 94113720 94115186 94113720 ID=MsaG023960
Chr4 mRNA 94113720 94115186 94113720 ID=MsaT023960.1;Parent=MsaG023960
Chr4 exon 94113720 94115186 94113720 ID=MsaT023960.1.exon1;Parent=MsaT023960.1
Chr4 CDS 94113720 94115186 94113720 ID=cds.MsaT023960.1;Parent=MsaT023960.1
Gene Sequence

>MsaT023960.1

ATGAACCAGCTGCATGAATGTAGCTTAGAAAATTTACCACCACTCCAAGCAGAAGATCTCATGTCTCCAAATACAATCCTAGATGAAATATTGTTTGATCAAGACCAATCACAACATCTCTTATCTCCAAATACAATCCTAGACGAAATCTTCGATCAAGAAGAGTCCATGCAAGAATTGCTGCAGCAACATACAAACCTCGACTTCAATATCATGAATCATGAACAAGCAATGGCTCTAGAGAATGAATTGTGTGGTGGAGTTACCGAAAAAGGCGAAAATGTGTTTGTTTCCAGGGAAGAAGATTCTTATTGGAAGGAAGTTCAAGAAGAGTTAATGGAAGAGACAAGTTTAGTTGATCTTTTGCTGATAGGAGCTGAAGCTGCTGAATCACAAAACATGACTCTTGCTTCTGACATAATCGAAAAACTAAACAATGCCTCGTCTTTAGGAAAAGGCGATAGTTTATTGAACAGGTTGTGTCTTTTCTTTACGCAAGGATTGTATTATAAAACTACAAATGCTCCTAAGTTCCATTCAGAACATGTTTCTACACAGACAAGCACATTCTGTGTGTTTCAGATACTTCAAGAACTCTCTCCCTATGTAAAATTTGCTCATTTTACTGCCAATCAAGCGATTTTCGAAGCTACAGCTGGTGTCGAAGATGTTCATGTCATTGATTTTGATATCATGGAGGGAATCCAATGGCCACCGTTGATGGTTGACTTTGCAATGAGAAAGAAGACTACTTCCCTTAGAGTAACAGCAATCACAGTGGATCAGCAAAGTGAAGCCTCAGTTCAACAAACAGGCAGAAGGCTCAAAGAGTTCGCTGATTCAATCAATTTTCCGTTCATGTTCGATACAGTAATGATGGTGAGTGAAGAAGAATTCAAAGAAATTGAACTTGGTGAAACATTTATTGTCAATTGTATGATACATCAGTGGATGCCAAACAGGAGTTTCTCATTGATCAAAGCTTTTCTCGATCACGTAACCAAATCATCACCAAGGCTTGTTGTTTTAGTCGAAGAAGAACTGTTTAATTTTTCTAGACTCAAATCCATGTCCTTTGTGGAGTTTTTCTGTGAGGCTTTGCATCACTATATTGCAGTTTCTGATTCACTTGTAAGTACTCTGTGGAGTAGCCATAAGATGGAGTTAGCCCTTATAGAGAAAGAGGTATTGGGAAATAGAATCTTAGACAGTGTAAGACAGTTTCCTTGTGAAAAGAGGAGAGAATATTGTGGGAAGAAAGATTTTTTATTCATTGAAGGGTATAGACGTGTTGGTATGAGTACATGCAATATTTCACAGGCTAAGCTATTGGTTAGCTTGTTTGGTAAAGGGTATTGGGTGCAATATGAGAACTGTAAGTTGGCTTTGTGTTGGAAGTCAAGACCTTTGACTTCTGTTTCAATCTGGGTACCAACAGATTATAATATGAGTAACAAAGTCAAATAG

Protein sequence

>MsaT023960.1

MNQLHECSLENLPPLQAEDLMSPNTILDEILFDQDQSQHLLSPNTILDEIFDQEESMQELLQQHTNLDFNIMNHEQAMALENELCGGVTEKGENVFVSREEDSYWKEVQEELMEETSLVDLLLIGAEAAESQNMTLASDIIEKLNNASSLGKGDSLLNRLCLFFTQGLYYKTTNAPKFHSEHVSTQTSTFCVFQILQELSPYVKFAHFTANQAIFEATAGVEDVHVIDFDIMEGIQWPPLMVDFAMRKKTTSLRVTAITVDQQSEASVQQTGRRLKEFADSINFPFMFDTVMMVSEEEFKEIELGETFIVNCMIHQWMPNRSFSLIKAFLDHVTKSSPRLVVLVEEELFNFSRLKSMSFVEFFCEALHHYIAVSDSLVSTLWSSHKMELALIEKEVLGNRILDSVRQFPCEKRREYCGKKDFLFIEGYRRVGMSTCNISQAKLLVSLFGKGYWVQYENCKLALCWKSRPLTSVSIWVPTDYNMSNKVK*