AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1285850

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1285850 MtrunA17_Chr8g0361161 90.217 92 9 0 1 92 271 362 2.85e-54 172
Msa1285850 MtrunA17_Chr8g0361141 89.130 92 10 0 1 92 743 834 7.37e-50 167
Msa1285850 MtrunA17_Chr8g0360201 80.435 92 18 0 1 92 633 724 7.67e-46 155
Msa1285850 MtrunA17_Chr7g0236551 39.130 92 56 0 1 92 716 807 3.12e-17 75.1
Msa1285850 MtrunA17_Chr7g0236511 35.870 92 59 0 1 92 708 799 7.38e-16 70.9
Msa1285850 MtrunA17_Chr7g0236531 38.043 92 57 0 1 92 266 357 8.70e-16 70.5
Msa1285850 MtrunA17_Chr2g0280711 39.394 99 49 2 1 92 758 852 1.33e-15 70.1
Msa1285850 MtrunA17_Chr7g0236571 46.067 89 45 2 1 89 563 648 1.57e-15 70.1
Msa1285850 MtrunA17_Chr2g0280701 43.478 92 49 2 1 92 728 816 2.95e-15 69.3
Msa1285850 MtrunA17_Chr7g0236471 35.870 92 59 0 1 92 568 659 6.34e-15 68.2
Msa1285850 MtrunA17_Chr4g0048801 42.391 92 52 1 1 92 746 836 7.52e-15 68.2
Msa1285850 MtrunA17_Chr7g0236651 50.000 60 30 0 1 60 713 772 7.64e-15 68.2
Msa1285850 MtrunA17_Chr4g0023221 43.011 93 49 3 1 92 958 1047 1.49e-14 67.4
Msa1285850 MtrunA17_Chr7g0236341 43.182 88 44 2 1 86 745 828 2.24e-14 66.6
Msa1285850 MtrunA17_Chr2g0280691 40.217 92 51 1 1 92 753 840 3.24e-14 66.2
Msa1285850 MtrunA17_Chr8g0354351 60.417 48 19 0 17 64 577 624 4.67e-14 65.9
Msa1285850 MtrunA17_Chr4g0042351 50.000 60 30 0 1 60 681 740 5.30e-14 65.9
Msa1285850 MtrunA17_Chr8g0354271 53.226 62 26 2 1 60 563 623 5.85e-14 65.5
Msa1285850 MtrunA17_Chr1g0206221 39.080 87 51 1 1 85 53 139 6.83e-14 62.8
Msa1285850 MtrunA17_Chr4g0042381 48.333 60 31 0 1 60 681 740 8.30e-14 65.1
Msa1285850 MtrunA17_Chr3g0082941 50.000 60 30 0 1 60 401 460 9.19e-14 65.1
Msa1285850 MtrunA17_Chr4g0055011 38.043 92 57 0 1 92 299 390 1.05e-13 64.7
Msa1285850 MtrunA17_Chr8g0354281 45.570 79 43 0 1 79 563 641 1.19e-13 64.7
Msa1285850 MtrunA17_Chr8g0354391 38.710 93 56 1 1 92 162 254 1.21e-13 63.9
Msa1285850 MtrunA17_Chr7g0236561 40.000 85 50 1 1 85 733 816 1.70e-13 64.3
Msa1285850 MtrunA17_Chr8g0361341 39.130 92 48 2 1 92 66 149 1.73e-13 61.6
Msa1285850 MtrunA17_Chr4g0042441 38.710 93 56 1 1 92 728 820 2.12e-13 63.9
Msa1285850 MtrunA17_Chr3g0081011 39.130 92 56 0 1 92 567 658 2.55e-13 63.9
Msa1285850 MtrunA17_Chr7g0236201 41.758 91 52 1 3 92 699 789 3.58e-13 63.5
Msa1285850 MtrunA17_Chr4g0042391 49.153 59 30 0 1 59 681 739 5.39e-13 62.8
Msa1285850 MtrunA17_Chr8g0354431 39.130 92 47 2 1 89 570 655 5.45e-13 62.8
Msa1285850 MtrunA17_Chr3g0081001 48.333 60 31 0 1 60 571 630 7.81e-13 62.4
Msa1285850 MtrunA17_Chr4g0042401 40.217 92 52 2 3 92 733 823 8.39e-13 62.4
Msa1285850 MtrunA17_Chr5g0422921 45.055 91 49 1 2 92 727 816 9.24e-13 62.0
Msa1285850 MtrunA17_Chr1g0206351 48.333 60 31 0 1 60 581 640 9.97e-13 62.0
Msa1285850 MtrunA17_Chr8g0361251 39.130 92 48 2 1 92 734 817 1.17e-12 62.0
Msa1285850 MtrunA17_Chr4g0042431 36.957 92 58 0 1 92 59 150 1.21e-12 59.7
Msa1285850 MtrunA17_Chr4g0048631 37.634 93 57 1 1 92 760 852 1.23e-12 62.0
Msa1285850 MtrunA17_Chr8g0361261 40.217 92 47 3 1 92 765 848 1.30e-12 61.6
Msa1285850 MtrunA17_Chr7g0236121 50.000 58 29 0 3 60 733 790 1.45e-12 61.6
Msa1285850 MtrunA17_Chr7g0236691 50.000 60 30 0 1 60 728 787 1.45e-12 61.6
Msa1285850 MtrunA17_Chr8g0354331 61.364 44 17 0 17 60 344 387 1.66e-12 61.2
Msa1285850 MtrunA17_Chr7g0236161 50.000 58 29 0 3 60 680 737 1.67e-12 61.6
Msa1285850 MtrunA17_Chr8g0347571 35.294 85 55 0 1 85 798 882 1.68e-12 61.6
Msa1285850 MtrunA17_Chr1g0206231 40.000 90 50 3 1 87 574 662 1.95e-12 61.2
Msa1285850 MtrunA17_Chr8g0357691 45.000 60 33 0 1 60 706 765 2.26e-12 61.2
Msa1285850 MtrunA17_Chr3g0081031 48.438 64 25 2 1 60 580 639 2.42e-12 60.8
Msa1285850 MtrunA17_Chr8g0357781 43.939 66 37 0 1 66 59 124 2.44e-12 58.9
Msa1285850 MtrunA17_Chr8g0354421 50.000 60 30 0 1 60 591 650 2.57e-12 60.8
Msa1285850 MtrunA17_Chr8g0361301 40.217 92 47 3 1 92 734 817 2.67e-12 60.8
Msa1285850 MtrunA17_Chr4g0023111 49.153 59 30 0 2 60 943 1001 2.78e-12 60.8
Msa1285850 MtrunA17_Chr5g0394011 43.750 80 39 2 3 82 586 659 3.06e-12 60.8
Msa1285850 MtrunA17_Chr8g0357881 39.326 89 52 2 1 87 704 792 3.31e-12 60.5
Msa1285850 MtrunA17_Chr8g0358101 45.455 66 36 0 1 66 692 757 4.61e-12 60.1
Msa1285850 MtrunA17_Chr8g0358061 46.667 60 32 0 1 60 284 343 4.69e-12 60.1
Msa1285850 MtrunA17_Chr8g0357991 48.333 60 31 0 1 60 713 772 6.68e-12 59.7
Msa1285850 MtrunA17_Chr6g0453561 40.426 94 53 2 1 92 95 187 6.81e-12 58.2
Msa1285850 MtrunA17_Chr8g0357961 48.333 60 31 0 1 60 712 771 7.02e-12 59.7
Msa1285850 MtrunA17_Chr2g0323231 41.667 60 35 0 1 60 406 465 7.69e-12 59.7
Msa1285850 MtrunA17_Chr8g0358071 45.455 66 36 0 1 66 704 769 7.88e-12 59.7
Msa1285850 MtrunA17_Chr3g0084441 38.710 93 53 3 1 92 734 823 8.53e-12 59.3
Msa1285850 MtrunA17_Chr8g0357981 37.234 94 57 2 1 92 533 626 8.99e-12 59.3
Msa1285850 MtrunA17_Chr8g0358141 45.455 66 36 0 1 66 306 371 1.13e-11 58.9
Msa1285850 MtrunA17_Chr7g0236231 43.333 60 34 0 1 60 746 805 1.49e-11 58.9
Msa1285850 MtrunA17_Chr8g0358081 43.939 66 37 0 1 66 689 754 1.60e-11 58.5
Msa1285850 MtrunA17_Chr3g0084691 41.053 95 45 4 1 92 750 836 1.66e-11 58.5
Msa1285850 MtrunA17_Chr8g0354441 48.333 60 31 0 1 60 578 637 1.72e-11 58.5
Msa1285850 MtrunA17_Chr3g0081101 37.079 89 50 1 1 89 66 148 1.98e-11 56.6
Msa1285850 MtrunA17_Chr2g0280681 44.615 65 35 1 1 64 729 793 2.75e-11 58.2
Msa1285850 MtrunA17_Chr8g0357761 45.000 60 33 0 1 60 708 767 2.80e-11 58.2
Msa1285850 MtrunA17_Chr3g0081071 46.667 60 32 0 1 60 157 216 2.90e-11 57.4
Msa1285850 MtrunA17_Chr4g0042361 46.667 60 31 1 1 60 767 825 3.80e-11 57.8
Msa1285850 MtrunA17_Chr7g0236641 32.609 92 62 0 1 92 753 844 4.15e-11 57.4
Msa1285850 MtrunA17_Chr8g0357921 39.394 66 40 0 1 66 59 124 4.20e-11 55.5
Msa1285850 MtrunA17_Chr4g0065521 33.708 89 57 2 1 89 265 351 4.87e-11 57.0
Msa1285850 MtrunA17_Chr1g0154331 37.079 89 47 3 3 87 269 352 4.97e-11 57.0
Msa1285850 MtrunA17_Chr1g0206321 45.614 57 31 0 4 60 63 119 7.18e-11 55.1
Msa1285850 MtrunA17_Chr2g0280801 47.619 63 27 2 1 60 754 813 7.51e-11 56.6
Msa1285850 MtrunA17_Chr5g0394021 45.205 73 40 0 15 87 561 633 8.64e-11 56.6
Msa1285850 MtrunA17_Chr2g0280791 47.619 63 27 2 1 60 748 807 8.70e-11 56.6
Msa1285850 MtrunA17_Chr5g0393981 44.068 59 33 0 1 59 624 682 9.14e-11 56.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1285850 AT4G03230.8 49.180 61 30 1 1 60 759 819 1.48e-13 64.7
Msa1285850 AT4G03230.7 49.180 61 30 1 1 60 760 820 1.54e-13 64.7
Msa1285850 AT4G03230.3 49.180 61 30 1 1 60 752 812 1.56e-13 64.7
Msa1285850 AT4G23290.2 46.667 60 32 0 1 60 591 650 1.60e-13 64.7
Msa1285850 AT4G03230.2 49.180 61 30 1 1 60 817 877 1.64e-13 64.7
Msa1285850 AT4G03230.6 49.180 61 30 1 1 60 817 877 1.64e-13 64.7
Msa1285850 AT4G23290.1 46.667 60 32 0 1 60 548 607 1.72e-13 64.7
Msa1285850 AT4G03230.4 49.180 61 30 1 1 60 917 977 1.73e-13 64.7
Msa1285850 AT4G03230.1 49.180 61 30 1 1 60 917 977 1.73e-13 64.7
Msa1285850 AT4G03230.5 49.180 61 30 1 1 60 845 905 1.76e-13 64.7
Msa1285850 AT4G21380.1 37.755 98 55 2 1 92 753 850 4.73e-13 63.5
Msa1285850 AT1G61440.3 43.011 93 47 3 1 92 710 797 5.00e-13 63.2
Msa1285850 AT1G61440.1 43.011 93 47 3 1 92 705 792 5.05e-13 63.2
Msa1285850 AT4G23320.2 45.000 60 33 0 1 60 411 470 5.39e-13 63.2
Msa1285850 AT4G23320.1 45.000 60 33 0 1 60 411 470 5.39e-13 63.2
Msa1285850 AT4G11480.1 45.000 60 33 0 1 60 557 616 5.39e-13 63.2
Msa1285850 AT4G23250.1 49.153 59 30 0 2 60 588 646 5.57e-13 63.2
Msa1285850 AT4G23250.3 49.153 59 30 0 2 60 583 641 5.70e-13 63.2
Msa1285850 AT4G11480.3 45.000 60 33 0 1 60 552 611 5.72e-13 63.2
Msa1285850 AT4G11480.4 45.000 60 33 0 1 60 549 608 5.88e-13 63.2
Msa1285850 AT4G23250.2 49.153 59 30 0 2 60 583 641 5.91e-13 63.2
Msa1285850 AT4G23320.3 45.000 60 33 0 1 60 432 491 5.91e-13 63.2
Msa1285850 AT1G61500.3 38.710 93 50 3 1 92 723 809 1.41e-12 62.0
Msa1285850 AT4G23260.2 47.458 59 31 0 2 60 557 615 1.46e-12 62.0
Msa1285850 AT1G61500.1 38.710 93 50 3 1 92 718 804 1.52e-12 62.0
Msa1285850 AT4G23260.1 47.458 59 31 0 2 60 568 626 1.53e-12 62.0
Msa1285850 AT1G61500.2 38.710 93 50 3 1 92 700 786 1.96e-12 61.6
Msa1285850 AT1G61490.3 40.217 92 51 2 1 92 567 654 2.40e-12 61.2
Msa1285850 AT4G11470.1 43.333 60 34 0 1 60 567 626 2.40e-12 61.2
Msa1285850 AT1G61490.4 40.217 92 51 2 1 92 717 804 2.43e-12 61.2
Msa1285850 AT1G61490.1 40.217 92 51 2 1 92 717 804 2.43e-12 61.2
Msa1285850 AT1G61490.2 40.217 92 51 2 1 92 717 804 2.43e-12 61.2
Msa1285850 AT1G61490.5 40.217 92 51 2 1 92 717 804 2.43e-12 61.2
Msa1285850 AT1G61490.6 40.217 92 51 2 1 92 691 778 2.44e-12 61.2
Msa1285850 AT1G61490.7 40.217 92 51 2 1 92 691 778 2.44e-12 61.2
Msa1285850 AT4G11470.2 43.333 60 34 0 1 60 572 631 2.47e-12 61.2
Msa1285850 AT3G16030.6 42.105 95 51 3 2 92 777 871 2.87e-12 61.2
Msa1285850 AT3G16030.1 42.105 95 51 3 2 92 756 850 3.20e-12 61.2
Msa1285850 AT4G23240.2 46.667 60 32 0 1 60 256 315 3.56e-12 60.8
Msa1285850 AT4G23240.1 46.667 60 32 0 1 60 563 622 3.58e-12 60.8
Msa1285850 AT1G65790.1 40.816 98 52 4 1 92 746 843 3.77e-12 60.8
Msa1285850 AT1G65800.1 42.308 78 43 1 17 92 770 847 5.15e-12 60.5
Msa1285850 AT4G00970.1 37.931 87 54 0 6 92 579 665 5.82e-12 60.5
Msa1285850 AT1G11340.1 40.426 94 52 3 2 92 741 833 6.83e-12 60.1
Msa1285850 AT1G61430.9 38.298 94 50 3 1 92 716 803 7.51e-12 60.1
Msa1285850 AT1G61430.1 38.298 94 50 3 1 92 719 806 7.51e-12 60.1
Msa1285850 AT4G27300.1 56.000 50 21 1 17 66 744 792 7.89e-12 60.1
Msa1285850 AT1G61430.11 38.298 94 50 3 1 92 693 780 8.27e-12 59.7
Msa1285850 AT1G61430.12 38.298 94 50 3 1 92 693 780 8.27e-12 59.7
Msa1285850 AT1G61430.13 38.298 94 50 3 1 92 693 780 8.27e-12 59.7
Msa1285850 AT1G61440.2 43.956 91 45 3 3 92 737 822 1.16e-11 59.3
Msa1285850 AT1G61390.2 41.935 93 47 3 1 92 577 663 1.50e-11 59.3
Msa1285850 AT1G61390.1 41.935 93 47 3 1 92 745 831 1.53e-11 59.3
Msa1285850 AT4G23300.1 43.333 60 34 0 1 60 583 642 1.56e-11 58.9
Msa1285850 AT4G28670.1 42.373 59 34 0 2 60 562 620 1.61e-11 58.9
Msa1285850 AT1G61480.1 37.634 93 51 3 1 92 723 809 2.62e-11 58.5
Msa1285850 AT1G61460.1 36.957 92 53 2 1 92 663 749 2.76e-11 58.5
Msa1285850 AT1G11300.2 43.103 58 33 0 3 60 716 773 4.22e-11 57.8
Msa1285850 AT1G11300.1 43.103 58 33 0 3 60 731 788 4.22e-11 57.8
Msa1285850 AT4G11460.1 41.667 60 35 0 1 60 577 636 4.44e-11 57.8
Msa1285850 AT4G11460.2 41.667 60 35 0 1 60 499 558 4.85e-11 57.8
Msa1285850 AT4G11460.3 41.667 60 35 0 1 60 574 633 5.34e-11 57.4
Msa1285850 AT1G11410.3 44.615 65 35 1 1 64 724 788 5.77e-11 57.4
Msa1285850 AT1G11410.1 44.615 65 35 1 1 64 748 812 5.95e-11 57.4
Msa1285850 AT1G11410.4 44.615 65 35 1 1 64 755 819 6.07e-11 57.4
Msa1285850 AT4G11490.1 38.095 63 39 0 1 63 549 611 6.39e-11 57.4
Msa1285850 AT3G16030.2 42.105 95 51 3 2 92 633 727 6.44e-11 57.4
Msa1285850 AT1G11410.2 44.615 65 35 1 1 64 633 697 6.57e-11 57.4
Msa1285850 AT4G11900.9 40.541 74 38 2 19 92 713 780 8.02e-11 57.0
Msa1285850 AT4G11900.1 40.541 74 38 2 19 92 782 849 8.88e-11 57.0
Msa1285850 AT4G23180.1 41.667 60 35 0 1 60 575 634 9.19e-11 57.0
Msa1285850 AT4G23270.3 42.373 59 34 0 2 60 555 613 9.26e-11 57.0
Msa1285850 AT4G23270.2 42.373 59 34 0 2 60 555 613 9.92e-11 56.6
Msa1285850 AT4G23270.1 42.373 59 34 0 2 60 555 613 9.92e-11 56.6

Find 15 sgRNAs with CRISPR-Local

Find 18 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GACATGGTTGGCCTATCTTC+TGG 0.351103 8_3:-32081880 None:intergenic
TCTTGGTACTAAATCTTTGT+TGG 0.386862 8_3:-32081821 None:intergenic
GGAGCTAATTGACTCGGAAT+TGG 0.392234 8_3:+32081789 Msa1285850:CDS
AATGCTGGTGGCTTTGGACT+TGG 0.418768 8_3:-32081943 None:intergenic
GTACCAAGATACGTGAATAT+AGG 0.435772 8_3:+32081835 Msa1285850:CDS
TCTGATGTTGTATCAATGTT+TGG 0.453725 8_3:+32081901 Msa1285850:CDS
CCAGCATTTCAAAACATAAG+AGG 0.460254 8_3:+32081958 Msa1285850:CDS
GAAGAAAACTTCTCTGTGAA+TGG 0.467802 8_3:+32082012 Msa1285850:CDS
AGTCCTATATTCACGTATCT+TGG 0.468023 8_3:-32081838 None:intergenic
TTCAGCAAAGTCCAGAAGAT+AGG 0.523940 8_3:+32081869 Msa1285850:CDS
TGGTGGCTTTGGACTTGGAA+GGG 0.542988 8_3:-32081938 None:intergenic
CTGGTGGCTTTGGACTTGGA+AGG 0.562235 8_3:-32081939 None:intergenic
AGGAATGGAGCTAATTGACT+CGG 0.603802 8_3:+32081783 None:intergenic
CATTGATACAACATCAGACA+TGG 0.607136 8_3:-32081896 None:intergenic
GATACAACATCAGACATGGT+TGG 0.646414 8_3:-32081892 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAGTTTTCTTCTATGCTTTT+AGG - chr8_3:32082003-32082022 None:intergenic 25.0%
TCTTGGTACTAAATCTTTGT+TGG - chr8_3:32081824-32081843 None:intergenic 30.0%
TCTGATGTTGTATCAATGTT+TGG + chr8_3:32081901-32081920 Msa1285850:CDS 30.0%
GTACCAAGATACGTGAATAT+AGG + chr8_3:32081835-32081854 Msa1285850:CDS 35.0%
AGTCCTATATTCACGTATCT+TGG - chr8_3:32081841-32081860 None:intergenic 35.0%
CATTGATACAACATCAGACA+TGG - chr8_3:32081899-32081918 None:intergenic 35.0%
!!! CTTATGTTTTGAAATGCTGG+TGG - chr8_3:32081958-32081977 None:intergenic 35.0%
!!! CCTCTTATGTTTTGAAATGC+TGG - chr8_3:32081961-32081980 None:intergenic 35.0%
CCAGCATTTCAAAACATAAG+AGG + chr8_3:32081958-32081977 Msa1285850:CDS 35.0%
GAAGAAAACTTCTCTGTGAA+TGG + chr8_3:32082012-32082031 Msa1285850:CDS 35.0%
TTCAGCAAAGTCCAGAAGAT+AGG + chr8_3:32081869-32081888 Msa1285850:CDS 40.0%
GATACAACATCAGACATGGT+TGG - chr8_3:32081895-32081914 None:intergenic 40.0%
!!! TTTTGAAATGCTGGTGGCTT+TGG - chr8_3:32081952-32081971 None:intergenic 40.0%
!! GGAGCTAATTGACTCGGAAT+TGG + chr8_3:32081789-32081808 Msa1285850:CDS 45.0%
!! GACATGGTTGGCCTATCTTC+TGG - chr8_3:32081883-32081902 None:intergenic 50.0%
!! TGGTGGCTTTGGACTTGGAA+GGG - chr8_3:32081941-32081960 None:intergenic 50.0%
!! AATGCTGGTGGCTTTGGACT+TGG - chr8_3:32081946-32081965 None:intergenic 50.0%
!! CTGGTGGCTTTGGACTTGGA+AGG - chr8_3:32081942-32081961 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
chr8_3 gene 32081787 32082065 32081787 ID=Msa1285850;Name=Msa1285850
chr8_3 mRNA 32081787 32082065 32081787 ID=Msa1285850-mRNA-1;Parent=Msa1285850;Name=Msa1285850-mRNA-1;_AED=0.49;_eAED=0.49;_QI=0|-1|0|1|-1|1|1|0|92
chr8_3 exon 32081787 32082065 32081787 ID=Msa1285850-mRNA-1:exon:9987;Parent=Msa1285850-mRNA-1
chr8_3 CDS 32081787 32082065 32081787 ID=Msa1285850-mRNA-1:cds;Parent=Msa1285850-mRNA-1
Gene Sequence

>Msa1285850

ATGGAGCTAATTGACTCGGAATTGGATGATATATCCAACAAAGATTTAGTACCAAGATACGTGAATATAGGACTTCTCTGTGTTCAGCAAAGTCCAGAAGATAGGCCAACCATGTCTGATGTTGTATCAATGTTTGGTAATGACACTGCATCCCTTCCAAGTCCAAAGCCACCAGCATTTCAAAACATAAGAGGTATTGAATACTCAAGACTTCCTAAAAGCATAGAAGAAAACTTCTCTGTGAATGGCATCACAGATTCAGTCATTGAAGCAAGATGA
Protein sequence

>Msa1285850

MELIDSELDDISNKDLVPRYVNIGLLCVQQSPEDRPTMSDVVSMFGNDTASLPSPKPPAFQNIRGIEYSRLPKSIEENFSVNGITDSVIEAR*