AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0398150

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0398150 MtrunA17_Chr3g0086151 76.667 90 21 0 1 90 717 806 8.09e-42 144
Msa0398150 MtrunA17_Chr3g0086071 74.444 90 23 0 1 90 337 426 7.34e-40 138
Msa0398150 MtrunA17_Chr3g0086221 75.000 92 21 1 1 90 716 807 9.34e-39 136
Msa0398150 MtrunA17_Chr3g0086161 73.913 92 21 2 1 90 717 807 1.74e-38 135
Msa0398150 MtrunA17_Chr3g0086091 73.913 92 22 1 1 90 528 619 2.83e-38 134
Msa0398150 MtrunA17_Chr3g0086621 72.222 90 25 0 1 90 717 806 6.90e-38 133
Msa0398150 MtrunA17_Chr3g0086181 72.222 90 23 1 1 90 717 804 9.94e-38 133
Msa0398150 MtrunA17_Chr7g0221481 68.478 92 27 1 1 90 728 819 4.58e-37 131
Msa0398150 MtrunA17_Chr3g0087581 66.304 92 29 1 1 90 718 809 1.75e-34 124
Msa0398150 MtrunA17_Chr3g0085451 71.429 77 22 0 14 90 721 797 3.09e-33 120
Msa0398150 MtrunA17_Chr3g0087701 66.667 90 30 0 1 90 721 810 6.80e-33 119
Msa0398150 MtrunA17_Chr3g0085431 60.000 95 33 1 1 90 330 424 1.86e-32 117
Msa0398150 MtrunA17_Chr3g0087541 61.702 94 27 1 6 90 737 830 4.14e-31 114
Msa0398150 MtrunA17_Chr3g0085651 61.111 90 32 1 1 90 727 813 1.84e-30 112
Msa0398150 MtrunA17_Chr3g0085481 62.500 88 27 1 9 90 66 153 2.71e-30 110
Msa0398150 MtrunA17_Chr3g0085331 62.222 90 29 1 6 90 742 831 4.53e-30 111
Msa0398150 MtrunA17_Chr3g0085501 63.636 88 26 1 9 90 741 828 6.61e-30 110
Msa0398150 MtrunA17_Chr3g0084041 57.609 92 37 1 1 90 70 161 3.43e-29 103
Msa0398150 MtrunA17_Chr3g0085801 59.140 93 29 1 7 90 699 791 1.09e-28 107
Msa0398150 MtrunA17_Chr3g0084061 56.522 92 38 1 1 90 730 821 3.69e-28 105
Msa0398150 MtrunA17_Chr3g0084081 65.854 82 26 1 11 90 737 818 3.88e-27 103
Msa0398150 MtrunA17_Chr3g0091011 64.474 76 27 0 14 89 718 793 2.16e-26 100
Msa0398150 MtrunA17_Chr3g0085711 56.989 93 36 1 1 89 289 381 3.69e-26 100
Msa0398150 MtrunA17_Chr3g0085091 63.158 76 28 0 14 89 742 817 6.89e-26 99.4
Msa0398150 MtrunA17_Chr3g0086741 61.842 76 29 0 14 89 763 838 8.29e-26 99.4
Msa0398150 MtrunA17_Chr3g0085471 61.364 88 26 3 9 90 731 816 2.02e-25 98.2
Msa0398150 MtrunA17_Chr3g0085551 61.039 77 30 0 13 89 625 701 2.35e-25 97.8
Msa0398150 MtrunA17_Chr3g0085561 56.667 90 33 2 6 90 718 806 7.35e-25 96.7
Msa0398150 MtrunA17_Chr3g0085161 52.688 93 40 1 1 89 583 675 2.39e-24 95.1
Msa0398150 MtrunA17_Chr3g0085751 59.740 77 31 0 13 89 733 809 3.00e-24 94.7
Msa0398150 MtrunA17_Chr3g0085701 55.556 90 31 1 9 89 529 618 3.65e-24 94.7
Msa0398150 MtrunA17_Chr3g0085111 53.763 93 39 1 1 89 720 812 6.85e-24 94.0
Msa0398150 MtrunA17_Chr3g0085521 59.459 74 30 0 16 89 733 806 2.70e-23 92.0
Msa0398150 MtrunA17_Chr3g0084051 55.844 77 34 0 12 88 744 820 6.36e-23 90.9
Msa0398150 MtrunA17_Chr3g0082791 57.895 76 32 0 13 88 746 821 3.64e-22 89.0
Msa0398150 MtrunA17_Chr3g0084031 54.545 77 35 0 12 88 751 827 1.58e-21 87.0
Msa0398150 MtrunA17_Chr3g0089871 45.455 77 42 0 3 79 737 813 6.53e-19 79.7
Msa0398150 MtrunA17_Chr3g0085131 52.632 76 28 1 14 89 736 803 2.18e-18 78.2
Msa0398150 MtrunA17_Chr8g0352861 46.341 82 44 0 8 89 749 830 6.37e-18 76.6
Msa0398150 MtrunA17_Chr3g0085171 57.143 77 32 1 14 89 726 802 7.86e-18 76.6
Msa0398150 MtrunA17_Chr3g0090401 40.449 89 53 0 1 89 923 1011 1.38e-17 75.9
Msa0398150 MtrunA17_Chr3g0082371 51.351 74 36 0 16 89 352 425 1.52e-17 75.5
Msa0398150 MtrunA17_Chr3g0090431 39.326 89 54 0 1 89 604 692 3.69e-17 74.7
Msa0398150 MtrunA17_Chr3g0090141 38.202 89 55 0 1 89 732 820 1.37e-16 73.2
Msa0398150 MtrunA17_Chr3g0091061 39.506 81 49 0 1 81 733 813 2.50e-16 72.4
Msa0398150 MtrunA17_Chr3g0090651 39.506 81 49 0 1 81 733 813 2.61e-16 72.0
Msa0398150 MtrunA17_Chr3g0084811 47.297 74 39 0 16 89 898 971 3.69e-16 71.6
Msa0398150 MtrunA17_Chr1g0169901 47.887 71 37 0 19 89 743 813 4.78e-16 71.6
Msa0398150 MtrunA17_Chr5g0415551 40.698 86 51 0 4 89 592 677 5.54e-16 71.2
Msa0398150 MtrunA17_Chr3g0091081 39.506 81 49 0 1 81 731 811 6.25e-16 71.2
Msa0398150 MtrunA17_Chr3g0092241 41.772 79 46 0 3 81 734 812 7.86e-16 70.9
Msa0398150 MtrunA17_Chr4g0025391 38.202 89 55 0 1 89 730 818 8.80e-16 70.9
Msa0398150 MtrunA17_Chr1g0164581 38.824 85 52 0 5 89 721 805 9.05e-16 70.9
Msa0398150 MtrunA17_Chr3g0082131 38.824 85 52 0 5 89 745 829 9.40e-16 70.5
Msa0398150 MtrunA17_Chr3g0091121 43.243 74 42 0 16 89 358 431 1.05e-15 70.5
Msa0398150 MtrunA17_Chr3g0082321 47.297 74 39 0 16 89 694 767 1.23e-15 70.1
Msa0398150 MtrunA17_Chr3g0087841 38.202 89 55 0 1 89 732 820 1.57e-15 70.1
Msa0398150 MtrunA17_Chr3g0083621 48.649 74 38 0 16 89 758 831 1.82e-15 69.7
Msa0398150 MtrunA17_Chr3g0090371 38.202 89 55 0 1 89 731 819 2.03e-15 69.7
Msa0398150 MtrunA17_Chr1g0164391 47.297 74 39 0 16 89 760 833 2.30e-15 69.7
Msa0398150 MtrunA17_Chr3g0078351 46.667 75 40 0 16 90 30 104 2.96e-15 68.9
Msa0398150 MtrunA17_Chr3g0089541 37.931 87 54 0 3 89 737 823 3.15e-15 69.3
Msa0398150 MtrunA17_Chr3g0089961 43.243 74 42 0 16 89 750 823 3.24e-15 68.9
Msa0398150 MtrunA17_Chr3g0083751 42.045 88 49 1 4 89 740 827 3.24e-15 68.9
Msa0398150 MtrunA17_Chr1g0147141 40.909 88 51 1 3 89 732 819 3.29e-15 68.9
Msa0398150 MtrunA17_Chr3g0083721 40.698 86 51 0 4 89 678 763 3.37e-15 68.9
Msa0398150 MtrunA17_Chr3g0090691 38.272 81 50 0 1 81 732 812 3.72e-15 68.9
Msa0398150 MtrunA17_Chr3g0089441 37.931 87 54 0 3 89 240 326 4.98e-15 68.6
Msa0398150 MtrunA17_Chr3g0080871 39.535 86 52 0 4 89 723 808 5.17e-15 68.6
Msa0398150 MtrunA17_Chr3g0089211 41.176 85 49 1 6 89 783 867 6.75e-15 68.2
Msa0398150 MtrunA17_Chr3g0089251 40.000 85 50 1 6 89 765 849 8.70e-15 67.8
Msa0398150 MtrunA17_Chr3g0089781 43.243 74 42 0 16 89 747 820 8.70e-15 67.8
Msa0398150 MtrunA17_Chr2g0299121 41.463 82 48 0 8 89 744 825 1.30e-14 67.4
Msa0398150 MtrunA17_Chr3g0089941 40.260 77 46 0 3 79 22 98 1.35e-14 65.9
Msa0398150 MtrunA17_Chr3g0089651 37.931 87 54 0 3 89 738 824 1.36e-14 67.4
Msa0398150 MtrunA17_Chr3g0082311 45.946 74 40 0 16 89 748 821 1.54e-14 67.0
Msa0398150 MtrunA17_Chr5g0446611 39.759 83 50 0 7 89 740 822 1.57e-14 67.0
Msa0398150 MtrunA17_Chr1g0164631 41.892 74 43 0 16 89 761 834 2.54e-14 66.6
Msa0398150 MtrunA17_Chr3g0082391 50.000 62 31 0 16 77 751 812 2.67e-14 66.6
Msa0398150 MtrunA17_Chr3g0092261 40.506 79 47 0 3 81 778 856 3.43e-14 66.2
Msa0398150 MtrunA17_Chr3g0089501 37.931 87 54 0 3 89 732 818 3.84e-14 65.9
Msa0398150 MtrunA17_Chr2g0299091 41.463 82 48 0 8 89 718 799 4.02e-14 65.9
Msa0398150 MtrunA17_Chr3g0089601 37.931 87 54 0 3 89 732 818 4.04e-14 65.9
Msa0398150 MtrunA17_Chr3g0083591 37.500 88 55 0 2 89 698 785 4.72e-14 65.9
Msa0398150 MtrunA17_Chr3g0083681 43.243 74 42 0 16 89 724 797 5.80e-14 65.5
Msa0398150 MtrunA17_Chr3g0089421 37.931 87 54 0 3 89 736 822 6.78e-14 65.5
Msa0398150 MtrunA17_Chr6g0484551 36.709 79 50 0 3 81 708 786 7.59e-14 65.1
Msa0398150 MtrunA17_Chr2g0309721 40.541 74 44 0 16 89 744 817 8.74e-14 65.1
Msa0398150 MtrunA17_Chr3g0083641 41.892 74 43 0 16 89 725 798 8.81e-14 65.1
Msa0398150 MtrunA17_Chr3g0089591 38.202 89 55 0 1 89 783 871 1.60e-13 64.3
Msa0398150 MtrunA17_Chr3g0113791 40.541 74 44 0 16 89 730 803 1.76e-13 64.3
Msa0398150 MtrunA17_Chr5g0413811 43.421 76 42 1 16 90 503 578 1.89e-13 63.9
Msa0398150 MtrunA17_Chr3g0113781 40.541 74 44 0 16 89 525 598 2.20e-13 63.9
Msa0398150 MtrunA17_Chr3g0089811 35.632 87 56 0 3 89 734 820 2.48e-13 63.9
Msa0398150 MtrunA17_Chr3g0082351 41.860 86 48 2 5 89 737 821 2.52e-13 63.5
Msa0398150 MtrunA17_Chr2g0299101 40.244 82 49 0 8 89 744 825 3.31e-13 63.5
Msa0398150 MtrunA17_Chr3g0089471 38.202 89 55 0 1 89 780 868 3.70e-13 63.2
Msa0398150 MtrunA17_Chr3g0089991 36.782 87 55 0 3 89 738 824 4.86e-13 62.8
Msa0398150 MtrunA17_Chr3g0087731 65.217 46 14 1 14 59 538 581 7.22e-13 62.4
Msa0398150 MtrunA17_Chr7g0248531 32.584 89 60 0 1 89 719 807 8.12e-13 62.4
Msa0398150 MtrunA17_Chr8g0348931 41.333 75 44 0 16 90 753 827 8.88e-13 62.0
Msa0398150 MtrunA17_Chr3g0085931 39.130 92 52 2 1 88 705 796 9.68e-13 62.0
Msa0398150 MtrunA17_Chr3g0084971 36.471 85 54 0 4 88 727 811 1.06e-12 62.0
Msa0398150 MtrunA17_Chr2g0299151 39.744 78 47 0 8 85 728 805 1.20e-12 61.6
Msa0398150 MtrunA17_Chr3g0089761 37.931 87 53 1 3 89 734 819 1.61e-12 61.6
Msa0398150 MtrunA17_Chr6g0470021 38.824 85 48 2 1 81 597 681 2.66e-12 60.8
Msa0398150 MtrunA17_Chr4g0008461 40.541 74 44 0 16 89 731 804 2.83e-12 60.8
Msa0398150 MtrunA17_Chr3g0089921 44.286 70 39 0 20 89 2 71 4.54e-12 60.1
Msa0398150 MtrunA17_Chr6g0467961 44.776 67 36 1 16 81 716 782 6.34e-12 59.7
Msa0398150 MtrunA17_Chr6g0468451 40.217 92 51 2 1 88 703 794 6.35e-12 59.7
Msa0398150 MtrunA17_Chr5g0429961 47.143 70 35 1 16 85 722 789 6.83e-12 59.7
Msa0398150 MtrunA17_Chr4g0020501 34.146 82 54 0 8 89 611 692 7.95e-12 59.3
Msa0398150 MtrunA17_Chr1g0155991 47.692 65 32 1 16 80 726 788 9.34e-12 59.3
Msa0398150 MtrunA17_Chr6g0468271 40.964 83 46 2 1 80 700 782 1.19e-11 58.9
Msa0398150 MtrunA17_Chr3g0091971 36.047 86 55 0 4 89 665 750 1.75e-11 58.5
Msa0398150 MtrunA17_Chr3g0123111 38.043 92 53 2 1 88 702 793 2.46e-11 58.2
Msa0398150 MtrunA17_Chr8g0356251 36.047 86 55 0 4 89 761 846 2.57e-11 58.2
Msa0398150 MtrunA17_Chr5g0417291 46.875 64 32 1 16 79 80 141 3.35e-11 56.6
Msa0398150 MtrunA17_Chr1g0189521 58.537 41 17 0 14 54 75 115 4.00e-11 55.5
Msa0398150 MtrunA17_Chr5g0414201 37.500 72 44 1 15 85 730 801 4.57e-11 57.4
Msa0398150 MtrunA17_Chr2g0282991 35.227 88 57 0 2 89 732 819 4.61e-11 57.4
Msa0398150 MtrunA17_Chr1g0168901 34.884 86 56 0 4 89 706 791 6.11e-11 57.0
Msa0398150 MtrunA17_Chr6g0468201 35.955 89 56 1 1 88 308 396 8.33e-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
Msa0398150 AT3G14470.1 46.154 78 42 0 13 90 754 831 1.94e-20 84.3
Msa0398150 AT3G14470.2 46.154 78 42 0 13 90 754 831 1.94e-20 84.3
Msa0398150 AT3G14460.1 38.667 75 46 0 15 89 750 824 8.76e-13 62.8

Find 26 sgRNAs with CRISPR-Local

Find 25 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCAGAGAGGTTTCAATTTC+AGG 0.090068 3_2:-18698793 Msa0398150:CDS
AGCCTCTTCAAGTTGCTATT+TGG 0.275433 3_2:+18698949 None:intergenic
TTTCAGGCTGTGATGGAATA+TGG 0.296746 3_2:-18698777 Msa0398150:CDS
GAAGAATTATATATGAATTA+TGG 0.327613 3_2:-18699024 None:intergenic
AAGGTAATAACTTTCCGAAT+TGG 0.350969 3_2:-18698909 Msa0398150:CDS
TGTGATGGAATATGGATCAT+AGG 0.387442 3_2:-18698769 Msa0398150:CDS
CAGTTTAATAGATACTAAGT+TGG 0.416856 3_2:+18698867 None:intergenic
AACTTTCCGAATTGGATAAC+GGG 0.423803 3_2:-18698901 Msa0398150:CDS
AAGAGAACTGGATGTCTTTG+AGG 0.449663 3_2:-18698980 Msa0398150:CDS
TGACAACCCGTTATCCAATT+CGG 0.453178 3_2:+18698895 None:intergenic
TAACTTTCCGAATTGGATAA+CGG 0.453832 3_2:-18698902 Msa0398150:CDS
TTGTCCAAGTGGTGGCAAAC+AGG 0.455298 3_2:+18698825 None:intergenic
TAACAACAATGGAAGAGAAC+TGG 0.462116 3_2:-18698992 Msa0398150:CDS
TGTTCCTGTTTGCCACCACT+TGG 0.473572 3_2:-18698829 Msa0398150:CDS
GTTTCAATTTCAGGCTGTGA+TGG 0.474749 3_2:-18698784 Msa0398150:CDS
AGTTTAATAGATACTAAGTT+GGG 0.482937 3_2:+18698868 None:intergenic
TTGAAACCTCTCTGAGAGAT+GGG 0.487799 3_2:+18698800 None:intergenic
ATTGAAACCTCTCTGAGAGA+TGG 0.487862 3_2:+18698799 None:intergenic
AACCAAATAGCAACTTGAAG+AGG 0.515741 3_2:-18698951 Msa0398150:CDS
GTGATGGAATATGGATCATA+GGG 0.535464 3_2:-18698768 Msa0398150:CDS
GGTGACAAATTTAACAACAA+TGG 0.541578 3_2:-18699003 Msa0398150:CDS
TCTATTAAACTGAAGCATTG+TGG 0.568520 3_2:-18698856 Msa0398150:CDS
CTTTACATCGAAAGATACAA+AGG 0.651376 3_2:-18698928 Msa0398150:CDS
GATGGGAGTTGTCCAAGTGG+TGG 0.654456 3_2:+18698817 None:intergenic
ACAACTCCCATCTCTCAGAG+AGG 0.689954 3_2:-18698806 Msa0398150:CDS
AGAGATGGGAGTTGTCCAAG+TGG 0.737072 3_2:+18698814 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AGTTTAATAGATACTAAGTT+GGG + chr3_2:18698909-18698928 None:intergenic 20.0%
! CAGTTTAATAGATACTAAGT+TGG + chr3_2:18698910-18698929 None:intergenic 25.0%
GGTGACAAATTTAACAACAA+TGG - chr3_2:18698771-18698790 Msa0398150:CDS 30.0%
CTTTACATCGAAAGATACAA+AGG - chr3_2:18698846-18698865 Msa0398150:CDS 30.0%
AAGGTAATAACTTTCCGAAT+TGG - chr3_2:18698865-18698884 Msa0398150:CDS 30.0%
TAACTTTCCGAATTGGATAA+CGG - chr3_2:18698872-18698891 Msa0398150:CDS 30.0%
!! TCTATTAAACTGAAGCATTG+TGG - chr3_2:18698918-18698937 Msa0398150:CDS 30.0%
TAACAACAATGGAAGAGAAC+TGG - chr3_2:18698782-18698801 Msa0398150:CDS 35.0%
AACCAAATAGCAACTTGAAG+AGG - chr3_2:18698823-18698842 Msa0398150:CDS 35.0%
AACTTTCCGAATTGGATAAC+GGG - chr3_2:18698873-18698892 Msa0398150:CDS 35.0%
! TGTGATGGAATATGGATCAT+AGG - chr3_2:18699005-18699024 Msa0398150:CDS 35.0%
! GTGATGGAATATGGATCATA+GGG - chr3_2:18699006-18699025 Msa0398150:CDS 35.0%
AAGAGAACTGGATGTCTTTG+AGG - chr3_2:18698794-18698813 Msa0398150:CDS 40.0%
!! AGCCTCTTCAAGTTGCTATT+TGG + chr3_2:18698828-18698847 None:intergenic 40.0%
TGACAACCCGTTATCCAATT+CGG + chr3_2:18698882-18698901 None:intergenic 40.0%
! TTGAAACCTCTCTGAGAGAT+GGG + chr3_2:18698977-18698996 None:intergenic 40.0%
! ATTGAAACCTCTCTGAGAGA+TGG + chr3_2:18698978-18698997 None:intergenic 40.0%
CTCAGAGAGGTTTCAATTTC+AGG - chr3_2:18698981-18699000 Msa0398150:CDS 40.0%
GTTTCAATTTCAGGCTGTGA+TGG - chr3_2:18698990-18699009 Msa0398150:CDS 40.0%
! TTTCAGGCTGTGATGGAATA+TGG - chr3_2:18698997-18699016 Msa0398150:CDS 40.0%
TGTTCCTGTTTGCCACCACT+TGG - chr3_2:18698945-18698964 Msa0398150:CDS 50.0%
TTGTCCAAGTGGTGGCAAAC+AGG + chr3_2:18698952-18698971 None:intergenic 50.0%
AGAGATGGGAGTTGTCCAAG+TGG + chr3_2:18698963-18698982 None:intergenic 50.0%
ACAACTCCCATCTCTCAGAG+AGG - chr3_2:18698968-18698987 Msa0398150:CDS 50.0%
GATGGGAGTTGTCCAAGTGG+TGG + chr3_2:18698960-18698979 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
chr3_2 gene 18698762 18699034 18698762 ID=Msa0398150;Name=Msa0398150
chr3_2 mRNA 18698762 18699034 18698762 ID=Msa0398150-mRNA-1;Parent=Msa0398150;Name=Msa0398150-mRNA-1;_AED=0.47;_eAED=0.47;_QI=0|-1|0|1|-1|1|1|0|90
chr3_2 exon 18698762 18699034 18698762 ID=Msa0398150-mRNA-1:exon:4167;Parent=Msa0398150-mRNA-1
chr3_2 CDS 18698762 18699034 18698762 ID=Msa0398150-mRNA-1:cds;Parent=Msa0398150-mRNA-1
Gene Sequence

>Msa0398150

ATGAATTATGGTGACAAATTTAACAACAATGGAAGAGAACTGGATGTCTTTGAGGCTCTTCAACCAAATAGCAACTTGAAGAGGCTTTACATCGAAAGATACAAAGGTAATAACTTTCCGAATTGGATAACGGGTTGTCATTTACCCAACTTAGTATCTATTAAACTGAAGCATTGTGGATTATGTTCCTGTTTGCCACCACTTGGACAACTCCCATCTCTCAGAGAGGTTTCAATTTCAGGCTGTGATGGAATATGGATCATAGGGAAATAA
Protein sequence

>Msa0398150

MNYGDKFNNNGRELDVFEALQPNSNLKRLYIERYKGNNFPNWITGCHLPNLVSIKLKHCGLCSCLPPLGQLPSLREVSISGCDGIWIIGK*