AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0150480

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0150480 MtrunA17_Chr1g0158151 79.104 67 14 0 1 67 544 610 9.45e-31 112
Msa0150480 MtrunA17_Chr1g0157791 83.607 61 10 0 1 61 545 605 3.10e-30 111
Msa0150480 MtrunA17_Chr1g0157811 81.967 61 11 0 1 61 358 418 6.15e-30 110
Msa0150480 MtrunA17_Chr1g0158091 81.967 61 11 0 1 61 230 290 1.19e-29 107
Msa0150480 MtrunA17_Chr1g0157951 81.967 61 11 0 1 61 339 399 1.79e-29 108
Msa0150480 MtrunA17_Chr1g0157991 81.967 61 11 0 1 61 552 612 1.80e-29 108
Msa0150480 MtrunA17_Chr1g0158191 81.967 61 11 0 1 61 549 609 3.22e-29 108
Msa0150480 MtrunA17_Chr1g0160621 75.410 61 15 0 1 61 41 101 4.41e-29 100
Msa0150480 MtrunA17_Chr3g0088321 62.195 82 27 1 1 78 211 292 1.58e-28 104
Msa0150480 MtrunA17_Chr1g0158481 73.770 61 16 0 1 61 84 144 3.29e-28 101
Msa0150480 MtrunA17_Chr1g0158041 81.967 61 11 0 1 61 549 609 3.63e-28 105
Msa0150480 MtrunA17_Chr1g0158411 77.049 61 14 0 1 61 563 623 8.16e-28 104
Msa0150480 MtrunA17_Chr1g0158441 75.410 61 15 0 1 61 187 247 8.25e-28 102
Msa0150480 MtrunA17_Chr1g0160631 70.492 61 18 0 1 61 41 101 1.03e-27 99.0
Msa0150480 MtrunA17_Chr6g0467711 77.049 61 14 0 1 61 559 619 1.11e-27 103
Msa0150480 MtrunA17_Chr1g0158341 73.770 61 16 0 1 61 187 247 2.05e-27 101
Msa0150480 MtrunA17_Chr1g0158751 70.492 61 18 0 1 61 254 314 4.15e-27 101
Msa0150480 MtrunA17_Chr1g0158541 77.049 61 14 0 1 61 554 614 6.04e-27 102
Msa0150480 MtrunA17_Chr1g0158761 70.968 62 18 0 1 62 493 554 7.24e-27 101
Msa0150480 MtrunA17_Chr1g0158131 88.889 54 6 0 1 54 362 415 1.57e-26 99.8
Msa0150480 MtrunA17_Chr1g0158301 77.049 61 14 0 1 61 552 612 2.10e-26 100
Msa0150480 MtrunA17_Chr1g0157911 75.410 61 15 0 1 61 557 617 2.27e-26 100
Msa0150480 MtrunA17_Chr1g0160761 68.750 64 20 0 1 64 494 557 4.18e-26 99.4
Msa0150480 MtrunA17_Chr1g0157931 73.770 61 16 0 1 61 431 491 5.08e-26 99.4
Msa0150480 MtrunA17_Chr1g0157881 73.770 61 16 0 1 61 624 684 5.16e-26 99.4
Msa0150480 MtrunA17_Chr1g0160721 72.131 61 17 0 1 61 510 570 6.90e-26 99.0
Msa0150480 MtrunA17_Chr1g0160561 72.131 61 17 0 1 61 505 565 1.16e-25 98.2
Msa0150480 MtrunA17_Chr1g0158571 67.213 61 20 0 1 61 371 431 1.84e-25 97.4
Msa0150480 MtrunA17_Chr1g0158631 67.213 61 20 0 1 61 542 602 4.81e-25 96.3
Msa0150480 MtrunA17_Chr1g0157861 70.492 61 18 0 1 61 593 653 8.41e-25 95.9
Msa0150480 MtrunA17_Chr1g0160711 67.742 62 20 0 1 62 487 548 1.16e-24 95.5
Msa0150480 MtrunA17_Chr1g0160701 68.852 61 19 0 1 61 504 564 1.56e-24 95.1
Msa0150480 MtrunA17_Chr1g0160531 70.492 61 17 1 1 61 283 342 2.67e-23 91.3
Msa0150480 MtrunA17_Chr1g0158661 63.934 61 22 0 1 61 528 588 3.87e-23 90.9
Msa0150480 MtrunA17_Chr1g0160521 72.549 51 14 0 1 51 6 56 5.56e-23 83.2
Msa0150480 MtrunA17_Chr1g0160741 73.333 45 12 0 1 45 41 85 5.90e-20 75.9
Msa0150480 MtrunA17_Chr1g0158311 45.000 80 41 1 1 77 447 526 8.14e-19 78.6
Msa0150480 MtrunA17_Chr6g0484051 55.932 59 26 0 1 59 509 567 1.22e-18 78.2
Msa0150480 MtrunA17_Chr1g0209471 56.140 57 25 0 5 61 229 285 1.83e-18 77.4
Msa0150480 MtrunA17_Chr7g0232441 58.182 55 23 0 5 59 489 543 1.96e-18 77.8
Msa0150480 MtrunA17_Chr1g0209501 56.364 55 24 0 5 59 474 528 4.58e-18 76.6
Msa0150480 MtrunA17_Chr6g0483851 52.542 59 28 0 1 59 571 629 4.93e-18 76.6
Msa0150480 MtrunA17_Chr1g0209401 56.364 55 24 0 5 59 219 273 5.64e-18 75.9
Msa0150480 MtrunA17_Chr6g0484031 51.613 62 30 0 1 62 364 425 6.19e-18 76.3
Msa0150480 MtrunA17_Chr4g0036991 68.750 48 15 0 1 48 474 521 7.02e-18 75.9
Msa0150480 MtrunA17_Chr7g0232421 54.386 57 26 0 5 61 229 285 8.85e-18 75.5
Msa0150480 MtrunA17_Chr6g0483821 50.820 61 30 0 1 61 520 580 8.90e-18 75.9
Msa0150480 MtrunA17_Chr6g0483981 50.820 61 30 0 1 61 428 488 1.13e-17 75.5
Msa0150480 MtrunA17_Chr6g0484021 52.542 59 28 0 1 59 467 525 1.19e-17 75.5
Msa0150480 MtrunA17_Chr6g0467661 55.000 60 26 1 1 59 423 482 3.02e-17 74.3
Msa0150480 MtrunA17_Chr6g0467681 55.000 60 26 1 1 59 423 482 3.02e-17 74.3
Msa0150480 MtrunA17_Chr6g0484041 50.820 61 30 0 1 61 483 543 5.33e-17 73.6
Msa0150480 MtrunA17_Chr1g0158321 56.667 60 25 1 1 59 193 252 7.15e-17 72.8
Msa0150480 MtrunA17_Chr1g0158771 57.627 59 25 0 1 59 448 506 8.66e-17 72.8
Msa0150480 MtrunA17_Chr6g0484071 48.387 62 32 0 1 62 219 280 9.45e-17 72.4
Msa0150480 MtrunA17_Chr1g0157901 51.667 60 28 1 1 59 131 190 1.24e-16 71.6
Msa0150480 MtrunA17_Chr1g0157941 53.333 60 27 1 1 59 418 477 1.26e-16 72.4
Msa0150480 MtrunA17_Chr6g0467641 53.333 60 27 1 1 59 352 411 1.48e-16 72.4
Msa0150480 MtrunA17_Chr1g0158651 49.153 59 30 0 1 59 466 524 1.67e-16 72.0
Msa0150480 MtrunA17_Chr6g0467701 53.333 60 27 1 1 59 193 252 1.96e-16 71.6
Msa0150480 MtrunA17_Chr1g0158511 65.957 47 16 0 1 47 437 483 2.04e-16 72.0
Msa0150480 MtrunA17_Chr1g0158471 65.957 47 16 0 1 47 437 483 2.12e-16 72.0
Msa0150480 MtrunA17_Chr7g0251081 45.946 74 37 1 1 71 270 343 2.41e-16 71.6
Msa0150480 MtrunA17_Chr7g0251071 54.386 57 26 0 3 59 516 572 2.70e-16 71.6
Msa0150480 MtrunA17_Chr1g0158531 41.250 80 44 1 1 77 449 528 2.85e-16 71.6
Msa0150480 MtrunA17_Chr7g0251031 50.847 59 29 0 1 59 87 145 2.85e-16 70.1
Msa0150480 MtrunA17_Chr7g0251051 50.820 61 30 0 1 61 474 534 2.91e-16 71.6
Msa0150480 MtrunA17_Chr8g0391231 51.562 64 30 1 1 63 503 566 3.03e-16 71.2
Msa0150480 MtrunA17_Chr1g0158711 66.667 45 15 0 1 45 420 464 3.22e-16 71.2
Msa0150480 MtrunA17_Chr7g0251061 56.364 55 24 0 5 59 513 567 3.28e-16 71.2
Msa0150480 MtrunA17_Chr7g0251101 54.545 55 25 0 5 59 524 578 3.84e-16 71.2
Msa0150480 MtrunA17_Chr1g0157871 63.830 47 17 0 1 47 420 466 4.11e-16 70.9
Msa0150480 MtrunA17_Chr1g0158611 47.458 59 31 0 1 59 210 268 1.53e-15 69.3
Msa0150480 MtrunA17_Chr1g0160731 50.847 59 29 0 1 59 456 514 1.55e-15 69.3
Msa0150480 MtrunA17_Chr1g0158391 66.667 45 15 0 1 45 416 460 1.90e-15 69.3
Msa0150480 MtrunA17_Chr1g0157781 52.459 61 25 1 1 61 462 518 3.08e-15 68.6
Msa0150480 MtrunA17_Chr1g0212821 49.153 59 30 0 1 59 243 301 3.15e-15 68.6
Msa0150480 MtrunA17_Chr1g0158181 47.458 59 31 0 1 59 485 543 3.64e-15 68.2
Msa0150480 MtrunA17_Chr1g0160681 49.153 59 30 0 1 59 224 282 3.93e-15 68.2
Msa0150480 MtrunA17_Chr1g0157801 52.459 61 25 1 1 61 457 513 4.37e-15 68.2
Msa0150480 MtrunA17_Chr4g0037001 39.241 79 46 1 1 77 467 545 5.16e-15 67.8
Msa0150480 MtrunA17_Chr7g0251001 50.847 59 29 0 1 59 220 278 5.64e-15 67.8
Msa0150480 MtrunA17_Chr1g0160581 49.153 59 30 0 1 59 464 522 7.93e-15 67.4
Msa0150480 MtrunA17_Chr7g0253471 50.000 56 28 0 3 58 45 100 8.09e-15 65.5
Msa0150480 MtrunA17_Chr1g0158051 47.458 59 31 0 1 59 463 521 1.24e-14 67.0
Msa0150480 MtrunA17_Chr1g0157971 58.696 46 19 0 1 46 461 506 1.51e-14 66.6
Msa0150480 MtrunA17_Chr1g0160771 47.458 59 31 0 1 59 460 518 1.54e-14 66.6
Msa0150480 MtrunA17_Chr6g0483811 47.458 59 30 1 1 59 219 276 1.59e-14 66.2
Msa0150480 MtrunA17_Chr4g0022331 45.763 59 32 0 1 59 693 751 1.82e-14 66.2
Msa0150480 MtrunA17_Chr3g0088341 61.364 44 17 0 1 44 439 482 2.04e-14 66.2
Msa0150480 MtrunA17_Chr6g0483791 45.763 59 31 1 1 59 530 587 3.98e-14 65.5
Msa0150480 MtrunA17_Chr1g0209511 43.836 73 37 2 1 69 479 551 4.17e-14 65.5
Msa0150480 MtrunA17_Chr1g0158101 49.180 61 28 1 1 61 440 497 5.79e-14 65.1
Msa0150480 MtrunA17_Chr7g0250931 47.458 59 31 0 1 59 709 767 7.14e-14 64.7
Msa0150480 MtrunA17_Chr1g0208841 58.140 43 18 0 5 47 188 230 1.55e-13 63.5
Msa0150480 MtrunA17_Chr1g0158701 87.097 31 4 0 2 32 130 160 1.84e-13 61.2
Msa0150480 MtrunA17_Chr1g0160551 64.865 37 13 0 1 37 29 65 4.35e-13 58.9
Msa0150480 MtrunA17_Chr7g0250991 47.458 59 29 1 1 59 68 124 2.79e-12 59.3
Msa0150480 MtrunA17_Chr7g0250741 42.373 59 34 0 1 59 695 753 3.31e-12 60.1
Msa0150480 MtrunA17_Chr4g0022301 43.103 58 33 0 1 58 1 58 3.85e-12 57.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0150480 AT4G18250.1 48.485 66 32 1 1 64 514 579 1.34e-15 70.1
Msa0150480 AT5G38280.1 42.857 63 34 1 1 61 489 551 2.03e-12 60.8
Msa0150480 AT5G38240.3 54.386 57 24 2 5 59 426 482 2.29e-12 60.8
Msa0150480 AT5G38280.2 42.857 63 34 1 1 61 489 551 2.33e-12 60.8
Msa0150480 AT5G38240.2 54.386 57 24 2 5 59 472 528 2.49e-12 60.8
Msa0150480 AT5G38240.1 54.386 57 24 2 5 59 490 546 2.64e-12 60.5
Msa0150480 AT1G66930.2 47.368 57 28 1 5 59 717 773 3.22e-12 60.5
Msa0150480 AT1G66930.3 47.368 57 28 1 5 59 477 533 3.86e-12 60.1
Msa0150480 AT1G66930.1 47.368 57 28 1 5 59 508 564 4.10e-12 60.1
Msa0150480 AT5G38250.1 54.386 57 24 2 5 59 469 525 5.07e-12 59.7
Msa0150480 AT1G70250.1 47.619 63 31 2 1 61 617 679 5.33e-12 59.7
Msa0150480 AT1G67000.1 46.552 58 28 1 5 59 718 775 1.17e-11 58.9
Msa0150480 AT1G66980.3 45.161 62 31 1 1 59 989 1050 2.18e-11 58.2
Msa0150480 AT5G39020.1 42.373 59 34 0 1 59 653 711 2.52e-11 57.8
Msa0150480 AT1G66980.1 43.750 64 33 1 1 61 962 1025 3.25e-11 57.4
Msa0150480 AT1G66980.4 43.750 64 33 1 1 61 945 1008 3.31e-11 57.4
Msa0150480 AT1G66980.2 43.750 64 33 1 1 61 991 1054 3.87e-11 57.4
Msa0150480 AT5G38260.1 50.877 57 26 2 5 59 482 538 6.06e-11 56.6

Find 15 sgRNAs with CRISPR-Local

Find 21 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAGCTGATGTTTATAGCTT+TGG 0.269684 1_4:-11875170 Msa0150480:CDS
GCTATAAACATCAGCTTTGT+AGG 0.273810 1_4:+11875175 None:intergenic
GTAACAATGACCGCAGTTAA+AGG 0.288549 1_4:-11875251 None:intergenic
AATGATCCGCATTGTACTTA+AGG 0.315298 1_4:+11875111 None:intergenic
AAGCTGATGTTTATAGCTTT+GGG 0.337810 1_4:-11875169 Msa0150480:CDS
CTCATTGACGGGTGATCGAT+TGG 0.394432 1_4:+11875052 None:intergenic
TCCACTACTTTGCTCATTGA+CGG 0.404672 1_4:+11875040 None:intergenic
ACCGCAGTTAAAGGAACAAT+TGG 0.416123 1_4:-11875242 Msa0150480:CDS
AAAGTAGTGGAGATGCTTGA+AGG 0.493093 1_4:-11875028 None:intergenic
CCACTACTTTGCTCATTGAC+GGG 0.506241 1_4:+11875041 None:intergenic
TCCAATTGTTCCTTTAACTG+CGG 0.536755 1_4:+11875241 None:intergenic
TAAAGGAACAATTGGATACA+TGG 0.557877 1_4:-11875234 Msa0150480:CDS
TGATGGTGATGGCAAGCAAG+AGG 0.592812 1_4:-11875139 Msa0150480:CDS
CCCGTCAATGAGCAAAGTAG+TGG 0.607744 1_4:-11875041 Msa0150480:CDS
TTGGCTTCAATTGTATACAG+AGG 0.652781 1_4:+11875071 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTGTTCTACAAAAATATT+GGG - chr1_4:11875071-11875090 Msa0150480:CDS 15.0%
!!! ATATTTTTGTAGAACAATTC+TGG + chr1_4:11875070-11875089 None:intergenic 20.0%
!! GAATTGTTCTACAAAAATAT+TGG - chr1_4:11875070-11875089 Msa0150480:CDS 20.0%
!! ATTGTTCTACAAAAATATTG+GGG - chr1_4:11875072-11875091 Msa0150480:CDS 20.0%
! TTGTTCTACAAAAATATTGG+GGG - chr1_4:11875073-11875092 Msa0150480:CDS 25.0%
TAAAGGAACAATTGGATACA+TGG - chr1_4:11875042-11875061 Msa0150480:CDS 30.0%
AAAGCTGATGTTTATAGCTT+TGG - chr1_4:11875106-11875125 Msa0150480:CDS 30.0%
AAGCTGATGTTTATAGCTTT+GGG - chr1_4:11875107-11875126 Msa0150480:CDS 30.0%
GAAAAACCTTAAGTACAATG+CGG - chr1_4:11875159-11875178 Msa0150480:CDS 30.0%
TCCAATTGTTCCTTTAACTG+CGG + chr1_4:11875038-11875057 None:intergenic 35.0%
! GCTATAAACATCAGCTTTGT+AGG + chr1_4:11875104-11875123 None:intergenic 35.0%
AATGATCCGCATTGTACTTA+AGG + chr1_4:11875168-11875187 None:intergenic 35.0%
TTGGCTTCAATTGTATACAG+AGG + chr1_4:11875208-11875227 None:intergenic 35.0%
ACCGCAGTTAAAGGAACAAT+TGG - chr1_4:11875034-11875053 Msa0150480:CDS 40.0%
!!! TAGCTTTGGGATGCTTTTGA+TGG - chr1_4:11875120-11875139 Msa0150480:CDS 40.0%
TCCACTACTTTGCTCATTGA+CGG + chr1_4:11875239-11875258 None:intergenic 40.0%
!!! TGGGATGCTTTTGATGGTGA+TGG - chr1_4:11875126-11875145 Msa0150480:CDS 45.0%
CCACTACTTTGCTCATTGAC+GGG + chr1_4:11875238-11875257 None:intergenic 45.0%
!! TGATGGTGATGGCAAGCAAG+AGG - chr1_4:11875137-11875156 Msa0150480:CDS 50.0%
! CTCATTGACGGGTGATCGAT+TGG + chr1_4:11875227-11875246 None:intergenic 50.0%
CCCGTCAATGAGCAAAGTAG+TGG - chr1_4:11875235-11875254 Msa0150480:CDS 50.0%
Chromosome Type Strat End Strand Name
chr1_4 gene 11875031 11875267 11875031 ID=Msa0150480;Name=Msa0150480
chr1_4 mRNA 11875031 11875267 11875031 ID=Msa0150480-mRNA-1;Parent=Msa0150480;Name=Msa0150480-mRNA-1;_AED=0.48;_eAED=0.60;_QI=0|-1|0|1|-1|1|1|0|78
chr1_4 exon 11875031 11875267 11875031 ID=Msa0150480-mRNA-1:exon:4916;Parent=Msa0150480-mRNA-1
chr1_4 CDS 11875031 11875267 11875031 ID=Msa0150480-mRNA-1:cds;Parent=Msa0150480-mRNA-1
Gene Sequence

>Msa0150480

ATGACCGCAGTTAAAGGAACAATTGGATACATGGCTCCAGAATTGTTCTACAAAAATATTGGGGGAGTGTCCTACAAAGCTGATGTTTATAGCTTTGGGATGCTTTTGATGGTGATGGCAAGCAAGAGGAAAAACCTTAAGTACAATGCGGATCATTCAAGCAAGATTTATTTTCCTCTGTATACAATTGAAGCCAATCGATCACCCGTCAATGAGCAAAGTAGTGGAGATGCTTGA
Protein sequence

>Msa0150480

MTAVKGTIGYMAPELFYKNIGGVSYKADVYSFGMLLMVMASKRKNLKYNADHSSKIYFPLYTIEANRSPVNEQSSGDA*