AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG045016

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG045016 MtrunA17_Chr4g0058651 69.000 100 24 2 11 103 32 131 4.24e-39 129
MsaG045016 MtrunA17_Chr3g0117121 83.099 71 12 0 11 81 31 101 2.80e-38 127
MsaG045016 MtrunA17_Chr7g0227511 90.000 60 6 0 11 70 32 91 6.84e-35 117
MsaG045016 MtrunA17_Chr6g0449641 86.667 60 8 0 11 70 30 89 1.59e-34 116
MsaG045016 MtrunA17_Chr6g0449651 75.758 66 16 0 11 76 88 153 9.03e-33 113
MsaG045016 MtrunA17_Chr8g0353981 85.000 60 9 0 11 70 28 87 1.20e-32 114
MsaG045016 MtrunA17_Chr3g0115431 70.000 70 21 0 11 80 30 99 6.14e-29 103
MsaG045016 MtrunA17_Chr5g0437571 69.014 71 19 1 8 75 21 91 6.46e-29 102
MsaG045016 MtrunA17_Chr4g0043421 73.333 60 16 0 11 70 36 95 2.25e-27 99.0
MsaG045016 MtrunA17_Chr5g0402611 67.143 70 23 0 11 80 29 98 3.78e-27 101
MsaG045016 MtrunA17_Chr2g0311601 71.667 60 17 0 11 70 34 93 6.92e-27 97.1
MsaG045016 MtrunA17_Chr3g0097221 63.014 73 24 1 8 77 22 94 2.40e-26 99.0
MsaG045016 MtrunA17_Chr3g0106101 58.571 70 29 0 11 80 28 97 6.25e-26 95.1
MsaG045016 MtrunA17_Chr3g0114061 64.615 65 23 0 11 75 29 93 4.31e-25 92.4
MsaG045016 MtrunA17_Chr5g0438091 62.687 67 25 0 13 79 62 128 2.03e-24 91.7
MsaG045016 MtrunA17_Chr3g0113891 66.129 62 21 0 15 76 39 100 1.55e-23 89.4
MsaG045016 MtrunA17_Chr3g0129071 56.757 74 32 0 13 86 70 143 1.59e-23 90.5
MsaG045016 MtrunA17_Chr5g0437401 64.516 62 22 0 14 75 35 96 2.48e-23 88.6
MsaG045016 MtrunA17_Chr5g0432451 70.175 57 17 0 13 69 66 122 2.73e-22 87.0
MsaG045016 MtrunA17_Chr4g0030001 62.712 59 22 0 11 69 46 104 1.04e-21 84.7
MsaG045016 MtrunA17_Chr1g0200201 46.739 92 43 1 12 103 94 179 2.69e-20 82.0
MsaG045016 MtrunA17_Chr7g0225111 55.000 60 27 0 11 70 26 85 1.07e-19 77.8
MsaG045016 MtrunA17_Chr5g0444351 53.333 60 28 0 11 70 26 85 9.63e-18 73.2
MsaG045016 MtrunA17_Chr7g0260971 58.929 56 23 0 14 69 39 94 1.27e-17 74.7
MsaG045016 MtrunA17_Chr1g0184281 58.929 56 23 0 14 69 40 95 4.53e-17 73.2
MsaG045016 MtrunA17_Chr8g0351701 60.784 51 20 0 19 69 53 103 8.05e-16 70.1
MsaG045016 MtrunA17_Chr8g0374591 45.070 71 35 1 1 67 15 85 1.20e-15 67.4
MsaG045016 MtrunA17_Chr8g0374601 47.541 61 32 0 7 67 43 103 1.21e-15 70.5
MsaG045016 MtrunA17_Chr7g0245871 62.745 51 19 0 19 69 57 107 1.97e-15 69.3
MsaG045016 MtrunA17_Chr8g0351721 64.706 51 18 0 19 69 48 98 1.98e-15 68.9
MsaG045016 MtrunA17_Chr7g0245861 58.491 53 22 0 14 66 39 91 4.27e-15 66.2
MsaG045016 MtrunA17_Chr8g0374581 41.026 78 46 0 3 80 22 99 4.44e-14 65.5
MsaG045016 MtrunA17_Chr6g0460951 53.846 52 24 0 18 69 69 120 6.23e-14 65.1
MsaG045016 MtrunA17_Chr5g0435641 52.941 51 24 0 19 69 37 87 5.47e-13 62.0
MsaG045016 MtrunA17_Chr7g0261031 54.902 51 23 0 19 69 38 88 5.94e-13 62.4
MsaG045016 MtrunA17_Chr6g0460941 44.068 59 33 0 19 77 37 95 7.87e-13 59.3
MsaG045016 MtrunA17_Chr6g0452691 42.857 63 35 1 11 72 30 92 8.44e-13 61.2
MsaG045016 MtrunA17_Chr6g0452661 40.299 67 39 1 7 72 26 92 9.84e-13 62.0
MsaG045016 MtrunA17_Chr6g0452671 37.333 75 43 1 11 85 32 102 1.35e-12 61.2
MsaG045016 MtrunA17_Chr1g0184271 52.941 51 24 0 19 69 42 92 2.24e-12 60.8
MsaG045016 MtrunA17_Chr2g0326051 71.429 35 10 0 35 69 5 39 5.40e-12 58.2
MsaG045016 MtrunA17_Chr4g0059901 42.373 59 34 0 11 69 31 89 6.11e-11 57.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG045016 AT5G63090.4 89.231 65 7 0 11 75 32 96 9.12e-37 123
MsaG045016 AT5G63090.3 89.231 65 7 0 11 75 32 96 9.12e-37 123
MsaG045016 AT5G63090.2 89.231 65 7 0 11 75 32 96 9.12e-37 123
MsaG045016 AT5G63090.1 89.231 65 7 0 11 75 32 96 9.12e-37 123
MsaG045016 AT3G27650.1 83.333 60 10 0 11 70 60 119 2.09e-32 111
MsaG045016 AT1G65620.1 83.333 60 10 0 11 70 30 89 2.98e-31 109
MsaG045016 AT1G65620.4 83.333 60 10 0 11 70 30 89 2.98e-31 109
MsaG045016 AT1G65620.3 83.333 60 10 0 11 70 30 89 2.98e-31 109
MsaG045016 AT1G65620.5 83.333 60 10 0 11 70 30 89 2.98e-31 109
MsaG045016 AT1G65620.2 83.333 60 10 0 11 70 30 89 2.98e-31 109
MsaG045016 AT5G66870.1 56.000 100 43 1 11 109 28 127 2.37e-28 105
MsaG045016 AT2G30130.1 64.286 70 25 0 11 80 29 98 5.80e-28 101
MsaG045016 AT1G31320.1 75.000 60 15 0 11 70 34 93 1.22e-27 99.8
MsaG045016 AT2G23660.2 63.889 72 26 0 11 82 26 97 1.81e-27 102
MsaG045016 AT2G23660.3 63.889 72 26 0 11 82 26 97 1.81e-27 102
MsaG045016 AT2G23660.1 63.889 72 26 0 11 82 26 97 1.81e-27 102
MsaG045016 AT1G07900.1 60.606 66 26 0 4 69 47 112 3.06e-23 89.0
MsaG045016 AT1G16530.1 66.667 60 20 0 11 70 36 95 3.67e-23 88.2
MsaG045016 AT2G40470.2 68.966 58 18 0 13 70 43 100 7.84e-23 88.2
MsaG045016 AT2G40470.1 68.966 58 18 0 13 70 68 125 1.61e-22 87.8
MsaG045016 AT3G11090.1 63.793 58 21 0 19 76 40 97 1.85e-21 84.0
MsaG045016 AT2G28500.1 63.793 58 21 0 12 69 77 134 1.99e-21 85.1
MsaG045016 AT2G30340.1 53.165 79 36 1 13 90 75 153 2.49e-21 85.9
MsaG045016 AT2G30340.2 53.165 79 36 1 13 90 76 154 2.69e-21 85.5
MsaG045016 AT3G26620.1 53.731 67 31 0 11 77 26 92 6.22e-21 81.3
MsaG045016 AT3G26660.1 53.731 67 31 0 11 77 26 92 6.78e-21 81.3
MsaG045016 AT5G35900.1 50.769 65 32 0 17 81 32 96 6.02e-17 73.2
MsaG045016 AT4G00220.1 62.745 51 19 0 19 69 47 97 1.63e-16 72.4
MsaG045016 AT2G45420.1 62.745 51 19 0 19 69 67 117 2.12e-16 72.4
MsaG045016 AT3G03760.1 59.615 52 21 0 18 69 80 131 1.08e-15 70.9
MsaG045016 AT2G45410.1 64.000 50 18 0 18 67 45 94 4.08e-15 67.8
MsaG045016 AT2G31310.1 51.786 56 27 0 14 69 32 87 5.85e-15 67.4
MsaG045016 AT4G00210.1 58.929 56 23 0 14 69 36 91 1.63e-14 67.0
MsaG045016 AT2G42430.1 59.615 52 21 0 18 69 44 95 2.12e-14 67.0
MsaG045016 AT5G06080.1 55.357 56 25 0 14 69 32 87 1.03e-13 63.9
MsaG045016 AT3G50510.1 35.000 100 56 1 11 101 33 132 2.77e-13 63.2
MsaG045016 AT3G50510.2 35.000 100 56 1 11 101 33 132 2.77e-13 63.2
MsaG045016 AT3G58190.1 52.941 51 24 0 19 69 41 91 1.44e-12 61.6
MsaG045016 AT2G42440.1 50.980 51 25 0 19 69 37 87 2.14e-12 61.6
MsaG045016 AT3G13850.1 38.095 63 39 0 7 69 53 115 1.59e-11 59.3
MsaG045016 AT4G22700.1 39.241 79 45 2 7 82 19 97 6.88e-11 57.0

Find 33 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCAAACGTACACAAAATATT+TGG 0.186655 8:+67560404 MsaT045016.1:CDS
CGAGTTAGGGATCCAGTTTA+TGG 0.289758 8:+67560515 MsaT045016.1:CDS
AGAGAGGCTGGAGGAGGTGG+AGG 0.297872 8:-67560640 None:intergenic
ACGAAGCCGAAGCACGAGTT+AGG 0.305462 8:+67560501 MsaT045016.1:CDS
GCTCCTACACATCCATAAAC+TGG 0.405024 8:-67560527 None:intergenic
GAAAGAGAGGCTGGAGGAGG+TGG 0.409459 8:-67560643 None:intergenic
AGGCTCTTCTGGAGGAAGTA+AGG 0.422866 8:-67560372 None:intergenic
TGGAGGAGGTGGAGGGATAT+CGG 0.435988 8:-67560632 None:intergenic
AGTTAACTGCATCCTCCCTT+TGG 0.438074 8:-67560469 None:intergenic
TGGATCCCTAACTCGTGCTT+CGG 0.456667 8:-67560507 None:intergenic
TGAGGCACAGAAAGAGAGGC+TGG 0.482119 8:-67560652 None:intergenic
TTGAGGAGAAAATGCATGCC+AGG 0.496470 8:+67560336 None:intergenic
ACAAGTTCAAAGGCTTCAAA+AGG 0.500774 8:+67560567 MsaT045016.1:CDS
CTGCATCCTCCCTTTGGTGA+GGG 0.501198 8:-67560463 None:intergenic
GCCTCTCTTTCTGTGCCTCA+AGG 0.505853 8:+67560655 MsaT045016.1:CDS
CGAAGCCGAAGCACGAGTTA+GGG 0.512333 8:+67560502 MsaT045016.1:CDS
GAGAGGCTGGAGGAGGTGGA+GGG 0.516068 8:-67560639 None:intergenic
CTTGTCTTTGTAGAAAGAGA+TGG 0.526723 8:-67560549 None:intergenic
CATCCTCCCTTTGGTGAGGG+AGG 0.527585 8:-67560460 None:intergenic
TTCTACAAAGACAAGTTCAA+AGG 0.528529 8:+67560557 MsaT045016.1:CDS
GAGGTGGAGGGATATCGGTG+AGG 0.544709 8:-67560627 None:intergenic
AGGTGGAGGGATATCGGTGA+GGG 0.546572 8:-67560626 None:intergenic
ACAGAAAGAGAGGCTGGAGG+AGG 0.555018 8:-67560646 None:intergenic
CGAACTCCTCCCTCACCAAA+GGG 0.555403 8:+67560454 MsaT045016.1:CDS
ACTGCATCCTCCCTTTGGTG+AGG 0.557366 8:-67560464 None:intergenic
GAGGGTATAGCGAAGAAGAT+CGG 0.563089 8:-67560608 None:intergenic
ACGAACTCCTCCCTCACCAA+AGG 0.580542 8:+67560453 MsaT045016.1:CDS
GATCCAGTTTATGGATGTGT+AGG 0.582057 8:+67560524 MsaT045016.1:CDS
TCCTTGAGGCACAGAAAGAG+AGG 0.595065 8:-67560656 None:intergenic
TAAGGTGCAAAGATGCAACC+TGG 0.617157 8:-67560354 None:intergenic
TGGACTGATATCATTCCTTG+AGG 0.655168 8:-67560670 None:intergenic
ACTCCTCCCTCACCAAAGGG+AGG 0.660217 8:+67560457 MsaT045016.1:CDS
GGCACAGAAAGAGAGGCTGG+AGG 0.697106 8:-67560649 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 67560347 67560682 67560347 ID=MsaG045016
Chr8 mRNA 67560347 67560682 67560347 ID=MsaT045016.1;Parent=MsaG045016
Chr8 exon 67560347 67560682 67560347 ID=MsaT045016.1.exon1;Parent=MsaT045016.1
Chr8 CDS 67560347 67560682 67560347 ID=cds.MsaT045016.1;Parent=MsaT045016.1
Gene Sequence

>MsaT045016.1

ATGCATGCCAGGTTGCATCTTTGCACCTTACTTCCTCCAGAAGAGCCTCAAAAATTTGCAAACGTACACAAAATATTTGGTGCTAGCAATGTCACAAAGCTTCTCAACGAACTCCTCCCTCACCAAAGGGAGGATGCAGTTAACTCACTTGCTTACGAAGCCGAAGCACGAGTTAGGGATCCAGTTTATGGATGTGTAGGAGCCATCTCTTTCTACAAAGACAAGTTCAAAGGCTTCAAAAGGAACTCGACGCTGCTAACACCGATCTTCTTCGCTATACCCTCACCGATATCCCTCCACCTCCTCCAGCCTCTCTTTCTGTGCCTCAAGGAATGA
Protein sequence

>MsaT045016.1

MHARLHLCTLLPPEEPQKFANVHKIFGASNVTKLLNELLPHQREDAVNSLAYEAEARVRDPVYGCVGAISFYKDKFKGFKRNSTLLTPIFFAIPSPISLHLLQPLFLCLKE*