AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG040867

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040867 MtrunA17_Chr1g0149851 48.438 192 69 6 108 269 345 536 6.09e-42 150
MsaG040867 MtrunA17_Chr1g0149851 40.476 168 63 4 6 136 126 293 5.58e-19 86.3
MsaG040867 MtrunA17_Chr7g0275401 65.812 117 17 3 5 98 125 241 4.62e-39 138
MsaG040867 MtrunA17_Chr1g0149841 62.069 116 22 3 5 98 125 240 1.86e-30 119
MsaG040867 MtrunA17_Chr1g0149841 40.523 153 51 5 106 220 340 490 1.70e-22 96.3
MsaG040867 MtrunA17_Chr7g0275891 53.125 128 26 4 5 98 126 253 2.96e-28 110
MsaG040867 MtrunA17_Chr1g0149831 56.897 116 25 4 5 98 62 174 2.81e-26 102
MsaG040867 MtrunA17_Chr3g0137101 47.826 115 42 2 2 98 133 247 9.28e-23 97.4
MsaG040867 MtrunA17_Chr3g0134461 59.091 66 26 1 35 100 130 194 4.95e-19 82.8
MsaG040867 MtrunA17_Chr4g0074421 39.831 118 54 2 5 105 72 189 7.25e-19 82.4
MsaG040867 MtrunA17_Chr7g0275881 62.903 62 15 1 154 215 1 54 4.53e-18 78.2
MsaG040867 MtrunA17_Chr1g0161431 44.681 94 46 2 22 110 168 260 3.26e-17 81.3
MsaG040867 MtrunA17_Chr2g0304841 63.636 55 20 0 44 98 208 262 8.56e-17 80.1
MsaG040867 MtrunA17_Chr4g0009851 55.224 67 29 1 33 98 152 218 1.44e-16 78.2
MsaG040867 MtrunA17_Chr4g0074401 48.750 80 40 1 45 124 199 277 4.27e-16 77.8
MsaG040867 MtrunA17_Chr2g0294911 40.367 109 62 2 1 109 165 270 6.55e-16 77.4
MsaG040867 MtrunA17_Chr4g0067981 56.923 65 27 1 45 109 211 274 7.40e-16 77.4
MsaG040867 MtrunA17_Chr8g0376881 50.538 93 36 3 14 98 168 258 1.86e-15 75.9
MsaG040867 MtrunA17_Chr4g0009901 46.053 76 41 0 23 98 142 217 2.59e-15 73.9
MsaG040867 MtrunA17_Chr4g0009991 46.835 79 40 2 23 100 41 118 3.55e-15 70.5
MsaG040867 MtrunA17_Chr4g0074411 40.179 112 48 2 6 98 139 250 1.07e-14 73.6
MsaG040867 MtrunA17_Chr4g0009981 49.254 67 33 1 33 98 99 165 1.78e-14 71.2
MsaG040867 MtrunA17_Chr3g0134481 60.784 51 20 0 48 98 131 181 5.73e-14 68.6
MsaG040867 MtrunA17_Chr6g0471041 45.783 83 36 2 16 98 148 221 6.52e-14 71.2
MsaG040867 MtrunA17_Chr3g0123131 54.688 64 28 1 45 108 195 257 3.74e-13 68.9
MsaG040867 MtrunA17_Chr6g0473731 56.863 51 22 0 48 98 94 144 5.03e-13 68.6
MsaG040867 MtrunA17_Chr4g0054981 45.070 71 39 0 28 98 289 359 1.63e-11 64.3
MsaG040867 MtrunA17_Chr7g0274471 58.491 53 21 1 47 98 216 268 2.43e-11 63.5
MsaG040867 MtrunA17_Chr2g0324891 37.662 77 47 1 23 98 134 210 4.31e-11 62.8
MsaG040867 MtrunA17_Chr5g0400241 41.333 75 44 0 24 98 286 360 5.60e-11 62.4
MsaG040867 MtrunA17_Chr4g0040481 47.273 55 29 0 44 98 153 207 9.19e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040867 AT4G31920.1 40.496 121 49 3 30 137 151 261 1.27e-18 85.5
MsaG040867 AT5G58080.1 50.000 88 21 1 34 98 156 243 2.41e-17 82.0
MsaG040867 AT3G16857.1 55.405 74 24 1 34 98 213 286 7.25e-17 80.5
MsaG040867 AT3G16857.3 55.405 74 24 1 34 98 143 216 7.29e-17 80.5
MsaG040867 AT3G16857.2 55.405 74 24 1 34 98 213 286 7.61e-17 80.5
MsaG040867 AT2G25180.1 50.000 92 34 2 19 98 153 244 7.04e-16 77.8
MsaG040867 AT2G01760.3 48.571 70 35 1 44 113 130 198 1.57e-13 69.7
MsaG040867 AT2G01760.1 56.364 55 24 0 44 98 195 249 2.37e-13 69.7
MsaG040867 AT2G01760.2 56.364 55 24 0 44 98 223 277 2.70e-13 69.7
MsaG040867 AT5G44190.1 55.000 60 24 1 39 98 140 196 3.40e-13 69.3
MsaG040867 AT5G44190.2 55.000 60 24 1 39 98 140 196 3.48e-13 68.9
MsaG040867 AT5G07210.1 44.944 89 39 3 18 98 193 279 3.26e-12 66.6
MsaG040867 AT5G07210.2 44.944 89 39 3 18 98 185 271 3.43e-12 66.6
MsaG040867 AT1G67710.3 61.017 59 21 2 51 108 121 178 4.49e-12 66.2
MsaG040867 AT1G67710.2 61.017 59 21 2 51 108 130 187 5.09e-12 65.9
MsaG040867 AT1G67710.1 61.017 59 21 2 51 108 195 252 5.25e-12 65.9
MsaG040867 AT5G49240.1 33.333 108 58 2 18 111 178 285 9.73e-12 64.3
MsaG040867 AT5G59570.2 49.057 53 27 0 46 98 138 190 1.68e-11 63.9
MsaG040867 AT5G59570.1 49.057 53 27 0 46 98 138 190 1.68e-11 63.9
MsaG040867 AT2G20570.1 42.857 84 33 2 27 98 122 202 3.65e-11 63.2
MsaG040867 AT2G40970.1 49.057 53 27 0 46 98 102 154 3.72e-11 62.4
MsaG040867 AT3G46640.2 49.057 53 27 0 46 98 141 193 5.90e-11 62.4
MsaG040867 AT3G46640.1 49.057 53 27 0 46 98 141 193 5.90e-11 62.4
MsaG040867 AT3G46640.3 49.057 53 27 0 46 98 141 193 6.33e-11 62.4

Find 48 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGAATGTAAGAATTTGTTTC+GGG 0.256319 7:+104706822 None:intergenic
TTGTGGTTCAAGTTTCCTTC+TGG 0.295699 7:+104706651 None:intergenic
CGAGGCTTCTTCTGCGTTGT+TGG 0.319233 7:+104707753 None:intergenic
CTTGTCGCAGTTAATCAATT+TGG 0.331705 7:-104707696 MsaT040867.1:CDS
TGGAATGTAAGAATTTGTTT+CGG 0.379560 7:+104706821 None:intergenic
GGCATTCTTTGAACATGGTT+CGG 0.389834 7:+104706936 None:intergenic
TACAATTCTTCTCATCTGAT+TGG 0.391165 7:-104706720 MsaT040867.1:CDS
TGAGATGCTACAGAAGAAAT+TGG 0.393613 7:+104706915 None:intergenic
AGAAGGGCTGCCATCGAAAC+AGG 0.408048 7:-104706604 MsaT040867.1:intron
AATCACTATGATAGTGGAAA+TGG 0.412435 7:-104707840 MsaT040867.1:CDS
AAACTTGTGGTGTAAGTTAT+CGG 0.420834 7:+104707719 None:intergenic
ACTAGCAATGTGACATTTCA+AGG 0.427221 7:-104706777 MsaT040867.1:CDS
TGGTTCTGTTACATTTCAAC+CGG 0.443329 7:-104706992 MsaT040867.1:CDS
TCTTTGAACATGGTTCGGTT+TGG 0.444140 7:+104706941 None:intergenic
CAACCGGCTTACGTTTCAAC+CGG 0.445810 7:-104706976 MsaT040867.1:CDS
GTTCGGTTTGGCGCGAGCTA+TGG 0.448022 7:+104706953 None:intergenic
CATCTGATTGGTAGTTCCAT+AGG 0.448837 7:-104706708 MsaT040867.1:CDS
AATTTCGATCATGATTATCA+TGG 0.470717 7:+104706742 None:intergenic
AGAAGCAATCACTATGATAG+TGG 0.474525 7:-104707846 MsaT040867.1:CDS
GGGAATCATAGAAGAGCCTA+TGG 0.488830 7:+104706692 None:intergenic
GGTTTGGCGCGAGCTATGGC+CGG 0.518966 7:+104706957 None:intergenic
GGTTCAACATCATTCACAAA+GGG 0.519106 7:+104706672 None:intergenic
CAATTATATGCTATTAACTC+TGG 0.520025 7:-104705687 MsaT040867.1:CDS
ATTCTGATAAATCTAGAAAG+AGG 0.520246 7:-104707794 MsaT040867.1:CDS
ACATGTGGCCAGCCATCTCC+AGG 0.523004 7:-104707348 MsaT040867.1:intron
ATAAAAGTACTTCTTCAACT+TGG 0.532938 7:+104705629 None:intergenic
AGAAGAAGCCTCGAGTTGCT+TGG 0.543514 7:-104707743 MsaT040867.1:CDS
AAGAGGAAGGATAAGAATGA+TGG 0.547203 7:-104707777 MsaT040867.1:CDS
TTATATGCTATTAACTCTGG+TGG 0.571764 7:-104705684 MsaT040867.1:CDS
GCAATGTGACATTTCAAGGA+TGG 0.580249 7:-104706773 MsaT040867.1:CDS
TGATAAATCTAGAAAGAGGA+AGG 0.586660 7:-104707790 MsaT040867.1:CDS
AAATTGGCATTCTTTGAACA+TGG 0.589855 7:+104706931 None:intergenic
TATATGCTATTAACTCTGGT+GGG 0.592408 7:-104705683 MsaT040867.1:CDS
CGTATCGAGGAGTTAACAGA+AGG 0.595647 7:-104706621 MsaT040867.1:CDS
GTGAATGATGTTGAACCAGA+AGG 0.596806 7:-104706666 MsaT040867.1:CDS
TGGCCGGTTGAAACGTAAGC+CGG 0.611007 7:+104706973 None:intergenic
TCTATTATTAGATAATCACT+AGG 0.619127 7:-104705604 None:intergenic
GAATGCTGAAAATCTTACAA+AGG 0.625912 7:-104707372 MsaT040867.1:CDS
TGGTTCAACATCATTCACAA+AGG 0.625972 7:+104706671 None:intergenic
AAATCTTACAAAGGAACATG+TGG 0.626847 7:-104707363 MsaT040867.1:CDS
ATCAAGTTAAGAATCTTCTG+TGG 0.644023 7:+104707395 None:intergenic
TTATCGGACCAAGCAACTCG+AGG 0.664697 7:+104707735 None:intergenic
CCTCGATACGATCATCCTTG+TGG 0.674046 7:+104706634 None:intergenic
AGAAGGAAACTTGAACCACA+AGG 0.688843 7:-104706649 MsaT040867.1:CDS
ACAAATTCTTACATTCCACA+AGG 0.691467 7:-104706816 MsaT040867.1:CDS
CCACAAGGATGATCGTATCG+AGG 0.702880 7:-104706634 MsaT040867.1:CDS
GTATCGAGGAGTTAACAGAA+GGG 0.721792 7:-104706620 MsaT040867.1:CDS
TAACTGCGACAAGAAACTTG+TGG 0.789334 7:+104707706 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 104705605 104707904 104705605 ID=MsaG040867
Chr7 mRNA 104705605 104707904 104705605 ID=MsaT040867.1;Parent=MsaG040867
Chr7 exon 104705605 104705712 104705605 ID=MsaT040867.1.exon4;Parent=MsaT040867.1
Chr7 CDS 104705605 104705712 104705605 ID=cds.MsaT040867.1;Parent=MsaT040867.1
Chr7 exon 104706605 104707018 104706605 ID=MsaT040867.1.exon3;Parent=MsaT040867.1
Chr7 CDS 104706605 104707018 104706605 ID=cds.MsaT040867.1;Parent=MsaT040867.1
Chr7 exon 104707349 104707425 104707349 ID=MsaT040867.1.exon2;Parent=MsaT040867.1
Chr7 CDS 104707349 104707425 104707349 ID=cds.MsaT040867.1;Parent=MsaT040867.1
Chr7 exon 104707688 104707904 104707688 ID=MsaT040867.1.exon1;Parent=MsaT040867.1
Chr7 CDS 104707688 104707904 104707688 ID=cds.MsaT040867.1;Parent=MsaT040867.1
Gene Sequence

>MsaT040867.1

ATGAATGATGAGTTCAGAAAGAAGAAAACTAGCAAAAGAAGCAATCACTATGATAGTGGAAATGGAATAGATTCAGCTGTGACAAGAAATTCTGATAAATCTAGAAAGAGGAAGGATAAGAATGATGGTCCAACAACGCAGAAGAAGCCTCGAGTTGCTTGGTCCGATAACTTACACCACAAGTTTCTTGTCGCAGTTAATCAATTTGGTGTTGACAAGGCTAGGCCACAGAAGATTCTTAACTTGATGAATGCTGAAAATCTTACAAAGGAACATGTGGCCAGCCATCTCCAGTTGGTGGTTCTGTTACATTTCAACCGGCTTACGTTTCAACCGGCCATAGCTCGCGCCAAACCGAACCATGTTCAAAGAATGCCAATTTCTTCTGTAGCATCTCAGCATATACAGTTTTCTTTCTCTTTACATGAAAAAATGTGCAATGACATTTGGTCAAGCACTATGCAATTACCCGAAACAAATTCTTACATTCCACAAGGTGATGTTTTTAACAGTACTAGCAATGTGACATTTCAAGGATGGAATAATAACCATGATAATCATGATCGAAATTACAATTCTTCTCATCTGATTGGTAGTTCCATAGGCTCTTCTATGATTCCCTTTGTGAATGATGTTGAACCAGAAGGAAACTTGAACCACAAGGATGATCGTATCGAGGAGTTAACAGAAGGGCTGCCATCGAAACAGGAACAATTATATGCTATTAACTCTGGTGGGAACTCAAAGTCACAGCAAGATAATTTCTTTTCCAAGTTGAAGAAGTACTTTTATTTTCTATTATTAGATAATCACTAG
Protein sequence

>MsaT040867.1

MNDEFRKKKTSKRSNHYDSGNGIDSAVTRNSDKSRKRKDKNDGPTTQKKPRVAWSDNLHHKFLVAVNQFGVDKARPQKILNLMNAENLTKEHVASHLQLVVLLHFNRLTFQPAIARAKPNHVQRMPISSVASQHIQFSFSLHEKMCNDIWSSTMQLPETNSYIPQGDVFNSTSNVTFQGWNNNHDNHDRNYNSSHLIGSSIGSSMIPFVNDVEPEGNLNHKDDRIEELTEGLPSKQEQLYAINSGGNSKSQQDNFFSKLKKYFYFLLLDNH*