AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG038731

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038731 MtrunA17_Chr5g0437571 50.000 124 38 5 16 139 1 100 2.51e-31 111
MsaG038731 MtrunA17_Chr3g0114061 45.238 126 43 5 16 139 1 102 5.01e-27 100
MsaG038731 MtrunA17_Chr4g0043421 74.074 54 14 0 14 67 8 61 3.25e-24 93.6
MsaG038731 MtrunA17_Chr2g0311601 74.074 54 14 0 14 67 6 59 5.14e-24 92.4
MsaG038731 MtrunA17_Chr3g0106101 58.228 79 23 2 17 95 3 71 5.30e-24 93.2
MsaG038731 MtrunA17_Chr3g0129071 57.895 76 22 2 20 95 46 111 3.38e-23 92.4
MsaG038731 MtrunA17_Chr5g0438091 70.588 51 15 0 16 66 34 84 1.24e-22 90.1
MsaG038731 MtrunA17_Chr6g0449641 55.844 77 24 2 19 95 7 73 2.75e-22 87.8
MsaG038731 MtrunA17_Chr5g0432451 76.596 47 11 0 20 66 42 88 5.68e-22 89.0
MsaG038731 MtrunA17_Chr6g0449651 58.209 67 24 1 18 84 64 126 1.97e-21 87.0
MsaG038731 MtrunA17_Chr7g0227511 75.510 49 12 0 19 67 9 57 3.10e-21 85.9
MsaG038731 MtrunA17_Chr3g0117121 59.091 66 23 1 19 84 8 69 1.26e-20 84.7
MsaG038731 MtrunA17_Chr4g0058651 59.091 66 23 1 19 84 9 70 1.32e-20 84.3
MsaG038731 MtrunA17_Chr8g0353981 51.948 77 27 2 19 95 5 71 1.71e-20 85.1
MsaG038731 MtrunA17_Chr3g0097221 54.688 64 29 0 19 82 5 68 1.02e-19 84.3
MsaG038731 MtrunA17_Chr5g0402611 70.833 48 14 0 19 66 6 53 1.43e-19 84.3
MsaG038731 MtrunA17_Chr3g0115431 63.636 55 18 1 18 72 6 58 3.79e-19 81.3
MsaG038731 MtrunA17_Chr2g0326041 67.347 49 16 0 20 68 32 80 1.52e-18 76.3
MsaG038731 MtrunA17_Chr3g0113891 71.429 49 14 0 18 66 11 59 5.99e-18 77.4
MsaG038731 MtrunA17_Chr6g0452671 35.593 118 63 3 22 134 12 121 1.03e-17 77.0
MsaG038731 MtrunA17_Chr5g0444351 63.043 46 17 0 22 67 6 51 1.41e-16 72.8
MsaG038731 MtrunA17_Chr7g0225111 60.417 48 19 0 20 67 4 51 1.53e-16 72.0
MsaG038731 MtrunA17_Chr6g0452691 55.769 52 23 0 16 67 4 55 2.82e-16 73.2
MsaG038731 MtrunA17_Chr7g0260971 62.745 51 18 1 17 66 10 60 3.60e-16 73.6
MsaG038731 MtrunA17_Chr5g0437401 65.306 49 17 0 18 66 8 56 6.49e-16 72.0
MsaG038731 MtrunA17_Chr4g0030001 65.306 49 16 1 20 67 23 71 7.13e-16 72.0
MsaG038731 MtrunA17_Chr7g0250171 48.750 80 39 2 67 145 95 173 4.66e-15 71.6
MsaG038731 MtrunA17_Chr1g0184281 63.830 47 16 1 21 66 15 61 4.96e-15 70.1
MsaG038731 MtrunA17_Chr6g0452661 53.846 52 24 0 16 67 4 55 9.76e-15 70.1
MsaG038731 MtrunA17_Chr8g0351721 57.377 61 20 2 12 66 4 64 1.12e-14 69.3
MsaG038731 MtrunA17_Chr1g0200201 63.043 46 17 0 22 67 73 118 2.71e-14 68.6
MsaG038731 MtrunA17_Chr5g0439111 50.980 51 25 0 16 66 4 54 5.08e-14 67.8
MsaG038731 MtrunA17_Chr4g0059901 53.571 56 26 0 15 70 4 59 6.12e-14 68.2
MsaG038731 MtrunA17_Chr7g0245871 63.830 47 16 1 21 66 27 73 6.70e-14 67.8
MsaG038731 MtrunA17_Chr7g0261031 59.615 52 18 2 17 66 4 54 8.62e-14 67.0
MsaG038731 MtrunA17_Chr4g0040831 36.842 95 44 3 3 96 1 80 1.50e-13 66.2
MsaG038731 MtrunA17_Chr8g0351701 62.500 48 17 1 21 67 23 70 1.61e-13 66.6
MsaG038731 MtrunA17_Chr1g0184271 60.417 48 16 2 21 66 12 58 2.66e-13 65.9
MsaG038731 MtrunA17_Chr8g0374591 40.580 69 30 1 3 71 1 58 2.76e-13 63.9
MsaG038731 MtrunA17_Chr6g0460951 60.417 48 18 1 20 66 39 86 4.57e-13 65.1
MsaG038731 MtrunA17_Chr8g0374581 53.846 52 23 1 21 71 8 59 5.56e-13 65.1
MsaG038731 MtrunA17_Chr8g0374601 43.056 72 28 2 1 72 17 75 9.26e-13 65.1
MsaG038731 MtrunA17_Chr5g0435641 41.558 77 39 2 17 92 3 74 1.35e-12 63.2
MsaG038731 MtrunA17_Chr8g0342351 50.820 61 25 1 22 82 13 68 3.67e-12 63.2
MsaG038731 MtrunA17_Chr4g0055441 52.941 51 22 1 22 72 3 51 7.00e-12 60.8
MsaG038731 MtrunA17_Chr6g0460941 57.447 47 19 1 21 66 7 53 7.57e-12 58.9
MsaG038731 MtrunA17_Chr7g0245861 57.692 52 19 2 18 66 9 60 8.69e-12 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038731 AT1G31320.1 72.222 54 15 0 14 67 6 59 1.08e-23 92.4
MsaG038731 AT2G30130.1 43.443 122 45 4 18 139 5 102 1.32e-23 92.8
MsaG038731 AT2G40470.2 76.596 47 11 0 20 66 19 65 5.32e-22 89.0
MsaG038731 AT2G40470.1 76.596 47 11 0 20 66 44 90 1.03e-21 88.6
MsaG038731 AT2G30340.1 50.000 98 36 3 20 114 51 138 1.03e-21 89.4
MsaG038731 AT2G30340.2 50.000 98 36 3 20 114 52 139 1.14e-21 89.4
MsaG038731 AT3G27650.1 54.545 77 25 2 19 95 37 103 1.44e-21 86.7
MsaG038731 AT5G63090.4 57.576 66 24 1 19 84 9 70 7.41e-20 82.8
MsaG038731 AT5G63090.3 57.576 66 24 1 19 84 9 70 7.41e-20 82.8
MsaG038731 AT5G63090.2 57.576 66 24 1 19 84 9 70 7.41e-20 82.8
MsaG038731 AT5G63090.1 57.576 66 24 1 19 84 9 70 7.41e-20 82.8
MsaG038731 AT1G16530.1 75.510 49 11 1 20 67 13 61 8.28e-20 82.0
MsaG038731 AT1G65620.1 51.948 77 27 2 19 95 7 73 1.16e-19 82.8
MsaG038731 AT1G65620.4 51.948 77 27 2 19 95 7 73 1.16e-19 82.8
MsaG038731 AT1G65620.3 51.948 77 27 2 19 95 7 73 1.16e-19 82.8
MsaG038731 AT1G65620.5 51.948 77 27 2 19 95 7 73 1.16e-19 82.8
MsaG038731 AT1G65620.2 51.948 77 27 2 19 95 7 73 1.16e-19 82.8
MsaG038731 AT3G26660.1 71.739 46 13 0 22 67 6 51 2.92e-19 79.7
MsaG038731 AT3G26620.1 71.739 46 13 0 22 67 6 51 3.29e-19 79.3
MsaG038731 AT5G66870.1 70.833 48 14 0 19 66 5 52 5.06e-19 83.2
MsaG038731 AT2G23660.2 54.545 66 26 1 19 84 3 64 1.66e-18 81.6
MsaG038731 AT2G23660.3 54.545 66 26 1 19 84 3 64 1.66e-18 81.6
MsaG038731 AT2G23660.1 54.545 66 26 1 19 84 3 64 1.66e-18 81.6
MsaG038731 AT1G07900.1 64.583 48 17 0 20 67 32 79 1.16e-16 74.7
MsaG038731 AT2G28500.1 64.583 48 17 0 20 67 54 101 1.66e-16 75.1
MsaG038731 AT2G42430.1 60.784 51 19 1 17 66 11 61 1.84e-15 72.4
MsaG038731 AT3G11090.1 66.667 48 16 0 19 66 9 56 2.16e-15 70.5
MsaG038731 AT3G47870.1 44.776 67 37 0 15 81 30 96 1.37e-14 70.9
MsaG038731 AT3G50510.1 54.000 50 23 0 19 68 10 59 2.67e-14 68.6
MsaG038731 AT3G50510.2 54.000 50 23 0 19 68 10 59 2.67e-14 68.6
MsaG038731 AT2G42440.1 50.000 72 28 3 17 86 3 68 3.95e-14 68.6
MsaG038731 AT5G06080.1 44.595 74 35 2 20 92 6 74 6.06e-14 67.0
MsaG038731 AT4G00210.1 60.784 51 19 1 17 66 7 57 2.04e-13 66.2
MsaG038731 AT3G03760.1 59.184 49 19 1 20 67 50 98 2.61e-13 67.0
MsaG038731 AT1G06280.1 39.474 76 34 2 22 96 25 89 4.44e-13 65.1
MsaG038731 AT3G58190.1 55.932 59 18 3 21 77 11 63 7.30e-13 64.7
MsaG038731 AT1G72980.1 43.077 65 37 0 17 81 9 73 3.42e-12 63.2
MsaG038731 AT2G31310.1 54.902 51 22 1 17 66 3 53 4.83e-12 62.0
MsaG038731 AT2G45410.1 63.636 44 15 1 24 66 19 62 2.14e-11 60.5
MsaG038731 AT4G00220.1 60.000 45 17 1 24 67 20 64 7.66e-11 59.3
MsaG038731 AT3G13850.1 51.064 47 23 0 22 68 37 83 8.80e-11 59.7
MsaG038731 AT2G19820.1 42.857 63 32 1 20 78 11 73 9.99e-11 57.4

Find 43 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACTCCATTTGATATGCAATT+TGG 0.194428 7:-80041082 MsaT038731.1:CDS
TCCTTTATCCTTAAAGGATT+TGG 0.218857 7:-80041254 MsaT038731.1:CDS
TGTGAACTGTGGCAAACTTT+TGG 0.232240 7:+80042361 None:intergenic
GCCACAGTTCACAAGGCTTT+TGG 0.255488 7:-80042351 MsaT038731.1:CDS
GCCAAATCCTTTAAGGATAA+AGG 0.279747 7:+80041253 None:intergenic
GATATTTCTCCACAACAATA+TGG 0.315818 7:-80041160 MsaT038731.1:CDS
ATAAAGGGAAACCAAGAGTT+AGG 0.327666 7:-80040706 MsaT038731.1:intron
GGTGTTAGCCAAATCCTTTA+AGG 0.384845 7:+80041246 None:intergenic
GGTTCATGAGAAGGGAAATA+AGG 0.398440 7:+80042384 None:intergenic
CTTCTTCAGTCCCACAGAAA+TGG 0.398558 7:-80039329 MsaT038731.1:intron
CAATATTAGCAAAATGTTGC+AGG 0.416184 7:-80042322 MsaT038731.1:intron
TTTCCAAATTGCATATCAAA+TGG 0.426776 7:+80041079 None:intergenic
ACCTCGATTGCCCTAACTCT+TGG 0.436430 7:+80040695 None:intergenic
CAGAAATGGAAATGGTGAAC+TGG 0.471856 7:-80039315 MsaT038731.1:CDS
GTCAAAGCATTCTGTTCGAG+TGG 0.476144 7:+80041223 None:intergenic
CAGTCCCACAGAAATGGAAA+TGG 0.480933 7:-80039323 MsaT038731.1:CDS
GAAGGGAAATAAGGAGCAAA+GGG 0.482450 7:+80042393 None:intergenic
TGATTGTACCGGCGTGGTTG+TGG 0.484624 7:+80041054 None:intergenic
TTCACCATTTCCATTTCTGT+GGG 0.486409 7:+80039319 None:intergenic
TAAAGGGAAACCAAGAGTTA+GGG 0.488125 7:-80040705 MsaT038731.1:intron
CTCTTGATCGAGAGATGATT+CGG 0.493573 7:-80043423 MsaT038731.1:CDS
CCATTCTACATCAGAGCGCC+AGG 0.500165 7:-80039272 MsaT038731.1:CDS
AGAGCGCCAGGTGCTTGACT+TGG 0.514459 7:-80039260 MsaT038731.1:CDS
CGAACAGAATGCTTTGACCT+GGG 0.518743 7:-80041218 MsaT038731.1:CDS
AGTAAAATTCCATATTGTTG+TGG 0.531249 7:+80041151 None:intergenic
GTTCACCATTTCCATTTCTG+TGG 0.533327 7:+80039318 None:intergenic
TCGAACAGAATGCTTTGACC+TGG 0.559425 7:-80041219 MsaT038731.1:CDS
GCTCTTCCAAGTCAAGCACC+TGG 0.562563 7:+80039254 None:intergenic
TCAAAGCATTCTGTTCGAGT+GGG 0.562826 7:+80041224 None:intergenic
AAAGTTTGCCACAGTTCACA+AGG 0.564438 7:-80042358 MsaT038731.1:CDS
AAAACATAGAAATGCCTCCC+AGG 0.565830 7:+80041201 None:intergenic
CCTGGCGCTCTGATGTAGAA+TGG 0.567228 7:+80039272 None:intergenic
TGGTATAGTTATGAAGCTCT+TGG 0.568424 7:-80039295 MsaT038731.1:CDS
AGAAGGGAAATAAGGAGCAA+AGG 0.591199 7:+80042392 None:intergenic
ACCAAGAGTTAGGGCAATCG+AGG 0.596957 7:-80040696 MsaT038731.1:intron
AGAAGCTTGCATGCAGCACA+TGG 0.605794 7:+80042441 None:intergenic
GATGATTCGGCGAAATTGTG+AGG 0.613711 7:-80043410 MsaT038731.1:intron
CAAAGCATTCTGTTCGAGTG+GGG 0.650495 7:+80041225 None:intergenic
TATTAGTGATTGTACCGGCG+TGG 0.653709 7:+80041048 None:intergenic
ACCAAAAGCCTTGTGAACTG+TGG 0.654018 7:+80042350 None:intergenic
AAATTGCATATCAAATGGAG+TGG 0.682617 7:+80041084 None:intergenic
ACAGAATGCTTTGACCTGGG+AGG 0.709025 7:-80041215 MsaT038731.1:CDS
AAGGGAAATAAGGAGCAAAG+GGG 0.753743 7:+80042394 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 80039240 80043449 80039240 ID=MsaG038731
Chr7 mRNA 80039240 80043449 80039240 ID=MsaT038731.1;Parent=MsaG038731
Chr7 exon 80039240 80039342 80039240 ID=MsaT038731.1.exon5;Parent=MsaT038731.1
Chr7 CDS 80039240 80039342 80039240 ID=cds.MsaT038731.1;Parent=MsaT038731.1
Chr7 exon 80040697 80040722 80040697 ID=MsaT038731.1.exon4;Parent=MsaT038731.1
Chr7 CDS 80040697 80040722 80040697 ID=cds.MsaT038731.1;Parent=MsaT038731.1
Chr7 exon 80041063 80041296 80041063 ID=MsaT038731.1.exon3;Parent=MsaT038731.1
Chr7 CDS 80041063 80041296 80041063 ID=cds.MsaT038731.1;Parent=MsaT038731.1
Chr7 exon 80042323 80042484 80042323 ID=MsaT038731.1.exon2;Parent=MsaT038731.1
Chr7 CDS 80042323 80042484 80042323 ID=cds.MsaT038731.1;Parent=MsaT038731.1
Chr7 exon 80043411 80043449 80043411 ID=MsaT038731.1.exon1;Parent=MsaT038731.1
Chr7 CDS 80043411 80043449 80043411 ID=cds.MsaT038731.1;Parent=MsaT038731.1
Gene Sequence

>MsaT038731.1

ATGGCTCTTGATCGAGAGATGATTCGGCGAAATTGTGAGGAAAAAATAGGTGGAAATTCACCATGTGCTGCATGCAAGCTTCTGAGACGCAGATGCACAAAAGATTGCCCCTTTGCTCCTTATTTCCCTTCTCATGAACCCCAAAAGTTTGCCACAGTTCACAAGGCTTTTGGTGCTAGCAATATTAGCAAAATGTTGCAGGCAAAAGAAATTGATTTTCTTCCTTTATCCTTAAAGGATTTGGCTAACACCCCACTCGAACAGAATGCTTTGACCTGGGAGGCATTTCTATGTTTTGTAGTTGGGGGTATGCTTGATATTTCTCCACAACAATATGGAATTTTACTAATGATATGTATTGGCTTCCTGAGTTACTATGCAAAAAACTCTACCACTCCATTTGATATGCAATTTGGAAAAACCACAACCACGCCGGGAAACCAAGAGTTAGGGCAATCGAGTCCCACAGAAATGGAAATGGTGAACTGGTATAGTTATGAAGCTCTTGGCCATTCTACATCAGAGCGCCAGGTGCTTGACTTGGAAGAGCTGCAATTCCATTGA
Protein sequence

>MsaT038731.1

MALDREMIRRNCEEKIGGNSPCAACKLLRRRCTKDCPFAPYFPSHEPQKFATVHKAFGASNISKMLQAKEIDFLPLSLKDLANTPLEQNALTWEAFLCFVVGGMLDISPQQYGILLMICIGFLSYYAKNSTTPFDMQFGKTTTTPGNQELGQSSPTEMEMVNWYSYEALGHSTSERQVLDLEELQFH*