AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG005243

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005243 MtrunA17_Chr1g0205811 92.623 122 9 0 1 122 1 122 7.78e-79 228
MsaG005243 MtrunA17_Chr1g0205801 68.317 101 30 1 1 101 1 99 6.05e-46 144
MsaG005243 MtrunA17_Chr1g0205821 67.500 80 26 0 14 93 13 92 9.60e-32 110
MsaG005243 MtrunA17_Chr1g0205821 57.692 78 33 0 12 89 97 174 2.90e-26 96.7
MsaG005243 MtrunA17_Chr1g0205831 54.206 107 45 2 17 122 76 179 1.43e-28 102
MsaG005243 MtrunA17_Chr1g0205831 60.000 70 28 0 14 83 2 71 2.21e-24 91.7
MsaG005243 MtrunA17_Chr5g0415031 54.545 88 40 0 4 91 33 120 1.17e-24 97.4
MsaG005243 MtrunA17_Chr8g0364231 50.526 95 46 1 9 102 37 131 9.85e-23 92.0
MsaG005243 MtrunA17_Chr3g0077881 50.515 97 42 2 9 99 3 99 7.34e-21 82.4
MsaG005243 MtrunA17_Chr1g0206781 50.649 77 38 0 15 91 12 88 2.04e-20 80.1
MsaG005243 MtrunA17_Chr6g0452001 47.674 86 45 0 4 89 53 138 2.53e-20 85.1
MsaG005243 MtrunA17_Chr3g0077891 47.059 119 57 2 9 121 3 121 6.27e-20 80.1
MsaG005243 MtrunA17_Chr3g0077891 48.052 77 39 1 14 89 99 175 4.87e-14 64.7
MsaG005243 MtrunA17_Chr6g0452021 46.154 91 48 1 9 99 38 127 2.60e-19 82.0
MsaG005243 MtrunA17_Chr3g0077911 49.425 87 41 1 13 99 7 90 6.16e-19 77.4
MsaG005243 MtrunA17_Chr3g0077911 54.930 71 31 1 14 83 90 160 1.66e-15 68.2
MsaG005243 MtrunA17_Chr4g0075971 55.714 70 31 0 17 86 175 244 1.35e-17 77.4
MsaG005243 MtrunA17_Chr4g0075971 41.935 93 54 0 7 99 82 174 1.17e-15 71.6
MsaG005243 MtrunA17_Chr4g0075971 43.421 76 40 1 14 89 12 84 7.55e-11 58.2
MsaG005243 MtrunA17_Chr3g0077941 46.296 108 45 2 9 115 3 98 2.13e-17 73.6
MsaG005243 MtrunA17_Chr3g0077941 41.975 81 46 1 10 89 94 174 4.84e-11 57.0
MsaG005243 MtrunA17_Chr1g0205861 52.174 69 33 0 14 82 16 84 2.37e-17 72.0
MsaG005243 MtrunA17_Chr4g0075861 43.956 91 51 0 9 99 84 174 1.05e-16 74.3
MsaG005243 MtrunA17_Chr4g0075861 55.714 70 31 0 17 86 175 244 1.10e-16 74.3
MsaG005243 MtrunA17_Chr1g0206771 51.389 72 35 0 15 86 17 88 2.04e-16 71.2
MsaG005243 MtrunA17_Chr1g0206771 50.725 69 34 0 14 82 95 163 1.13e-14 66.6
MsaG005243 MtrunA17_Chr3g0077861 47.126 87 43 1 13 99 7 90 4.18e-16 70.1
MsaG005243 MtrunA17_Chr3g0077861 53.521 71 32 1 14 83 90 160 6.87e-15 67.0
MsaG005243 MtrunA17_Chr3g0077811 46.835 79 41 1 7 85 8 85 1.12e-15 67.8
MsaG005243 MtrunA17_Chr8g0364021 41.053 95 54 1 1 95 31 123 1.87e-15 69.7
MsaG005243 MtrunA17_Chr7g0256011 47.826 69 36 0 14 82 16 84 8.53e-15 65.5
MsaG005243 MtrunA17_Chr7g0218891 40.964 83 45 2 4 84 5 85 2.48e-13 64.3
MsaG005243 MtrunA17_Chr7g0218891 41.429 70 41 0 20 89 193 262 2.22e-12 61.6
MsaG005243 MtrunA17_Chr7g0218911 49.206 63 32 0 22 84 6 68 8.78e-13 60.5
MsaG005243 MtrunA17_Chr2g0328701 40.909 88 46 2 5 89 17 101 3.42e-12 58.9
MsaG005243 MtrunA17_Chr1g0209201 44.872 78 34 2 22 99 24 92 8.20e-11 55.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005243 AT3G01320.1 48.980 98 50 0 5 102 48 145 2.12e-22 91.7
MsaG005243 AT3G01320.2 48.980 98 50 0 5 102 48 145 2.14e-22 91.7
MsaG005243 AT1G70060.2 55.556 81 36 0 9 89 9 89 5.16e-21 87.4
MsaG005243 AT1G70060.1 55.556 81 36 0 9 89 9 89 5.16e-21 87.4
MsaG005243 AT1G24190.3 53.086 81 38 0 9 89 9 89 3.02e-20 85.5
MsaG005243 AT1G24190.2 53.086 81 38 0 9 89 9 89 3.39e-20 85.1
MsaG005243 AT1G24190.1 53.086 81 38 0 9 89 9 89 3.42e-20 85.1
MsaG005243 AT5G15020.1 52.000 75 36 0 9 83 47 121 3.06e-18 79.7
MsaG005243 AT5G15020.2 52.000 75 36 0 9 83 47 121 3.12e-18 79.7
MsaG005243 AT5G15025.1 48.571 70 36 0 14 83 47 116 6.96e-17 71.2
MsaG005243 AT1G10450.3 45.349 86 46 1 14 99 84 168 3.05e-16 73.9
MsaG005243 AT1G10450.2 45.349 86 46 1 14 99 33 117 3.22e-16 73.9
MsaG005243 AT1G10450.1 45.349 86 46 1 14 99 33 117 3.22e-16 73.9
MsaG005243 AT1G59890.3 46.753 77 41 0 13 89 44 120 3.88e-16 73.6
MsaG005243 AT1G59890.2 46.753 77 41 0 13 89 44 120 4.08e-16 73.6
MsaG005243 AT1G59890.1 46.753 77 41 0 13 89 44 120 4.20e-16 73.6
MsaG005243 AT1G59890.4 46.753 77 41 0 13 89 44 120 4.44e-16 73.6
MsaG005243 AT1G70030.3 45.455 77 42 0 7 83 15 91 3.15e-15 67.0
MsaG005243 AT1G70030.2 45.455 77 42 0 7 83 15 91 1.04e-14 66.2
MsaG005243 AT1G70030.1 44.444 81 45 0 7 87 4 84 1.10e-14 66.6
MsaG005243 AT5G15040.1 47.368 76 38 1 13 88 2 75 2.46e-14 63.9
MsaG005243 AT5G15040.3 47.368 76 38 1 13 88 2 75 2.46e-14 63.9
MsaG005243 AT5G15040.2 47.368 76 38 1 13 88 2 75 2.46e-14 63.9
MsaG005243 AT5G35610.1 41.053 95 53 1 8 102 4 95 3.50e-14 65.1
MsaG005243 AT1G24200.1 46.377 69 37 0 14 82 14 82 1.62e-13 64.3
MsaG005243 AT1G27220.1 43.478 69 39 0 14 82 14 82 1.41e-12 61.6
MsaG005243 AT1G23810.1 37.931 87 53 1 14 100 109 194 2.09e-11 59.3
MsaG005243 AT1G24250.1 39.080 87 52 1 14 100 120 205 4.03e-11 58.5
MsaG005243 AT1G24210.1 37.662 77 48 0 1 77 1 77 6.62e-11 56.6

Find 17 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGCTTCTGTATCAATTCTT+TGG 0.194353 1:-79400790 None:intergenic
TGCTTCAGCTTCACCAATCT+TGG 0.305827 1:-79400678 None:intergenic
AGCTTCTGTATCAATTCTTT+GGG 0.320273 1:-79400789 None:intergenic
AGAACTTCTGAAAGATTTCA+AGG 0.358653 1:+79400766 MsaT005243.1:CDS
AGCTGTGAAAGAAGGAGTTA+TGG 0.477622 1:+79400808 MsaT005243.1:CDS
ACATGAAATCTCACTTCCAT+TGG 0.500530 1:+79400889 MsaT005243.1:CDS
TCTAGAGTAAATGCCAAGAT+TGG 0.503280 1:+79400665 MsaT005243.1:CDS
CAGAATGATGATGAACTTCA+AGG 0.516640 1:+79400956 MsaT005243.1:CDS
GATACAGAAGCTGTGAAAGA+AGG 0.535981 1:+79400800 MsaT005243.1:CDS
TTCAACATCTTCATGCCACC+AGG 0.561140 1:+79400866 MsaT005243.1:CDS
GATGATCAACAACAAGGTGA+TGG 0.565922 1:+79400914 MsaT005243.1:CDS
TGTTGTTGATCATCATCCAA+TGG 0.574340 1:-79400905 None:intergenic
GATGATGAACTTCAAGGTGA+TGG 0.578269 1:+79400962 MsaT005243.1:CDS
TGAACTTCAAGGTGATGGAT+TGG 0.587737 1:+79400967 MsaT005243.1:CDS
GGAAGTGAGATTTCATGTCC+TGG 0.614261 1:-79400884 None:intergenic
TTGGATGATGATCAACAACA+AGG 0.710928 1:+79400908 MsaT005243.1:CDS
AGTGAGATTTCATGTCCTGG+TGG 0.738423 1:-79400881 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 79400656 79401024 79400656 ID=MsaG005243
Chr1 mRNA 79400656 79401024 79400656 ID=MsaT005243.1;Parent=MsaG005243
Chr1 exon 79400656 79401024 79400656 ID=MsaT005243.1.exon1;Parent=MsaT005243.1
Chr1 CDS 79400656 79401024 79400656 ID=cds.MsaT005243.1;Parent=MsaT005243.1
Gene Sequence

>MsaT005243.1

ATGAGAAGATCTAGAGTAAATGCCAAGATTGGTGAAGCTGAAGCACTTGCGTTTATAATGAAAGTGAAATATGCGTTTCAAGATAAGAGAGAAAAGTATGAAGAATTTTTAGAACTTCTGAAAGATTTCAAGGCCCAAAGAATTGATACAGAAGCTGTGAAAGAAGGAGTTATGGAGTTGTTTAAAGAACATCAATATTTGATTTCAAGATTCAACATCTTCATGCCACCAGGACATGAAATCTCACTTCCATTGGATGATGATCAACAACAAGGTGATGGATTAGAGTTCAAAGATGAACAGAATGATGATGAACTTCAAGGTGATGGATTGGCACTCAAAGATGAGCAGAAAAATGATGAAGAATAA
Protein sequence

>MsaT005243.1

MRRSRVNAKIGEAEALAFIMKVKYAFQDKREKYEEFLELLKDFKAQRIDTEAVKEGVMELFKEHQYLISRFNIFMPPGHEISLPLDDDQQQGDGLEFKDEQNDDELQGDGLALKDEQKNDEE*