AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG038633

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038633 MtrunA17_Chr7g0248721 91.176 170 12 1 1 167 1 170 4.74e-113 320
MsaG038633 MtrunA17_Chr8g0335811 65.116 43 15 0 119 161 132 174 1.05e-13 66.2
MsaG038633 MtrunA17_Chr7g0224801 84.848 33 5 0 129 161 81 113 1.26e-13 65.1
MsaG038633 MtrunA17_Chr5g0418781 58.929 56 14 1 106 161 98 144 1.46e-12 63.9
MsaG038633 MtrunA17_Chr4g0051881 80.000 35 7 0 127 161 164 198 1.50e-12 64.3
MsaG038633 MtrunA17_Chr2g0294231 80.000 35 7 0 127 161 189 223 1.58e-12 64.3
MsaG038633 MtrunA17_Chr1g0194481 70.000 40 12 0 122 161 139 178 3.11e-12 63.2
MsaG038633 MtrunA17_Chr5g0443131 80.000 35 7 0 127 161 143 177 4.76e-12 62.8
MsaG038633 MtrunA17_Chr8g0383351 69.444 36 10 1 127 161 145 180 1.32e-11 60.8
MsaG038633 MtrunA17_Chr7g0270191 50.000 62 22 1 100 161 113 165 1.45e-11 61.2
MsaG038633 MtrunA17_Chr3g0129321 58.000 50 20 1 113 161 89 138 1.85e-11 60.1
MsaG038633 MtrunA17_Chr3g0129361 63.158 38 14 0 124 161 127 164 2.01e-11 60.1
MsaG038633 MtrunA17_Chr8g0386241 48.387 62 29 1 100 161 65 123 2.62e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038633 AT5G41570.1 63.158 57 13 1 105 161 70 118 3.80e-17 75.1
MsaG038633 AT2G46130.2 69.565 46 14 0 122 167 11 56 3.88e-17 73.2
MsaG038633 AT2G46130.1 75.000 40 10 0 122 161 11 50 6.52e-15 67.4
MsaG038633 AT1G64000.1 65.909 44 15 0 118 161 91 134 7.22e-15 69.3
MsaG038633 AT5G13080.1 85.294 34 5 0 128 161 54 87 1.46e-14 67.4
MsaG038633 AT2G03340.1 38.947 95 54 1 71 161 341 435 2.22e-13 67.4
MsaG038633 AT1G69310.3 44.186 86 42 2 82 167 94 173 2.28e-13 66.6
MsaG038633 AT3G01970.1 82.353 34 6 0 128 161 52 85 4.39e-13 63.5
MsaG038633 AT2G44745.1 60.465 43 17 0 119 161 123 165 4.49e-13 65.1
MsaG038633 AT1G69310.4 46.250 80 37 2 82 161 94 167 7.79e-13 65.1
MsaG038633 AT1G69310.2 46.250 80 37 2 82 161 94 167 7.79e-13 65.1
MsaG038633 AT1G69310.1 46.250 80 37 2 82 161 94 167 7.79e-13 65.1
MsaG038633 AT4G39410.1 52.083 48 23 0 114 161 196 243 2.33e-12 63.9
MsaG038633 AT5G46350.1 34.899 149 71 4 28 161 66 203 8.96e-12 62.4
MsaG038633 AT5G49520.1 82.353 34 6 0 128 161 208 241 1.18e-11 62.4
MsaG038633 AT4G18170.1 62.500 48 14 1 118 161 145 192 1.40e-11 61.6
MsaG038633 AT2G38470.1 50.746 67 25 1 103 161 316 382 9.32e-11 59.7

Find 43 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CACTTCATCTTCTTCTAATT+TGG 0.109939 7:+78907811 MsaT038633.1:CDS
AAGAAGTGTTGATGATATTT+TGG 0.221201 7:+78907964 MsaT038633.1:CDS
ATTAATGGTGGTGGTGGGTT+TGG 0.274937 7:-78907584 None:intergenic
GGTGATGGGATATTCATTAA+TGG 0.303707 7:-78907599 None:intergenic
GTGGTGGGTTTGGTGGGTCT+TGG 0.304953 7:-78907574 None:intergenic
ACAACAATAGCTTGCTTGTT+GGG 0.309012 7:+78907747 MsaT038633.1:CDS
GGTTATCGTTGGAGGAAATA+TGG 0.317694 7:+78907992 MsaT038633.1:CDS
GAAACAAGTTAGAGGAGAAA+AGG 0.356863 7:+78907885 MsaT038633.1:CDS
TTAGAGGAGAAAAGGGTTAG+AGG 0.362096 7:+78907893 MsaT038633.1:CDS
TTCTTTACAAAATTACCCTT+TGG 0.380075 7:+78907667 MsaT038633.1:CDS
AGAAAAGGGAAACAAGTTAG+AGG 0.399768 7:+78907877 MsaT038633.1:CDS
TCAACTACATGAAGAAGAAA+AGG 0.419090 7:+78907862 MsaT038633.1:CDS
AAACAAGTTAGAGGAGAAAA+GGG 0.432866 7:+78907886 MsaT038633.1:CDS
AACAACAATAGCTTGCTTGT+TGG 0.439151 7:+78907746 MsaT038633.1:CDS
GAATCACAAGATCAAGGTCT+TGG 0.450978 7:+78907689 MsaT038633.1:CDS
ATGGTGGTGGTGGGTTTGGT+GGG 0.457794 7:-78907580 None:intergenic
TGGATGATGGTTATCGTTGG+AGG 0.458848 7:+78907984 MsaT038633.1:CDS
TAAAGAAGGCGTAAAGAAGA+AGG 0.461538 7:-78907651 None:intergenic
ATATTCATTAATGGTGGTGG+TGG 0.463366 7:-78907590 None:intergenic
AATGGTGGTGGTGGGTTTGG+TGG 0.469202 7:-78907581 None:intergenic
GTAATTCAAAATAATGAAAG+TGG 0.470864 7:+78907833 MsaT038633.1:CDS
AGGAGAAAAGGGTTAGAGGT+GGG 0.487742 7:+78907897 MsaT038633.1:CDS
TATTCATTAATGGTGGTGGT+GGG 0.497156 7:-78907589 None:intergenic
AAAGAAGGCGTAAAGAAGAA+GGG 0.509237 7:-78907650 None:intergenic
CTTGATCTTGTGATTCCAAA+GGG 0.509438 7:-78907682 None:intergenic
ACATACATGTAGTATATACC+TGG 0.511478 7:-78908044 None:intergenic
CAACTACATGAAGAAGAAAA+GGG 0.514940 7:+78907863 MsaT038633.1:CDS
CCTTTGGAATCACAAGATCA+AGG 0.519006 7:+78907683 MsaT038633.1:CDS
CTTGCTTGTTGGGGATGCTA+AGG 0.519688 7:+78907757 MsaT038633.1:CDS
GAGGAGAAAAGGGTTAGAGG+TGG 0.538687 7:+78907896 MsaT038633.1:CDS
GGGATATTCATTAATGGTGG+TGG 0.540612 7:-78907593 None:intergenic
CAACAATAGCTTGCTTGTTG+GGG 0.541714 7:+78907748 MsaT038633.1:CDS
AAGAAGGCGTAAAGAAGAAG+GGG 0.548737 7:-78907649 None:intergenic
CCTTGATCTTGTGATTCCAA+AGG 0.562491 7:-78907683 None:intergenic
CTTGTCTGAAATGCAAACCT+TGG 0.566555 7:-78907944 None:intergenic
TCAAGAACAGCAAGTATCCC+AGG 0.569780 7:+78908026 MsaT038633.1:CDS
AGGTCTTGGTGATATTGAGT+GGG 0.577572 7:+78907703 MsaT038633.1:CDS
AAGGTCTTGGTGATATTGAG+TGG 0.598654 7:+78907702 MsaT038633.1:CDS
TAATTCAAAATAATGAAAGT+GGG 0.605922 7:+78907834 MsaT038633.1:CDS
GATGGGATATTCATTAATGG+TGG 0.606842 7:-78907596 None:intergenic
AAAAGACAACAAAAGTGCCA+AGG 0.641958 7:+78907927 MsaT038633.1:CDS
CATACATGTAGTATATACCT+GGG 0.661629 7:-78908043 None:intergenic
GGTCTTGGTGATATTGAGTG+GGG 0.698935 7:+78907704 MsaT038633.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 78907566 78908072 78907566 ID=MsaG038633
Chr7 mRNA 78907566 78908072 78907566 ID=MsaT038633.1;Parent=MsaG038633
Chr7 exon 78907566 78908072 78907566 ID=MsaT038633.1.exon1;Parent=MsaT038633.1
Chr7 CDS 78907566 78908072 78907566 ID=cds.MsaT038633.1;Parent=MsaT038633.1
Gene Sequence

>MsaT038633.1

ATGGATAGCCAAGACCCACCAAACCCACCACCACCATTAATGAATATCCCATCACCACAAACTCAAAACAACAACACTTCTCTCCCCTTCTTCTTTACGCCTTCTTTACAAAATTACCCTTTGGAATCACAAGATCAAGGTCTTGGTGATATTGAGTGGGGAAACTTTTTCTTAGGTCAAAACAACAATAGCTTGCTTGTTGGGGATGCTAAGGAGACATTAAAGATTGACAATATTCAACAATGCACTTCATCTTCTTCTAATTTGGTAATTCAAAATAATGAAAGTGGGAGTTATCAACTACATGAAGAAGAAAAGGGAAACAAGTTAGAGGAGAAAAGGGTTAGAGGTGGGAGAGTGAAAAAGACAACAAAAGTGCCAAGGTTTGCATTTCAGACAAGAAGTGTTGATGATATTTTGGATGATGGTTATCGTTGGAGGAAATATGGACAAAAAGCTGTCAAGAACAGCAAGTATCCCAGGTATATACTACATGTATGTTTGTGA
Protein sequence

>MsaT038633.1

MDSQDPPNPPPPLMNIPSPQTQNNNTSLPFFFTPSLQNYPLESQDQGLGDIEWGNFFLGQNNNSLLVGDAKETLKIDNIQQCTSSSSNLVIQNNESGSYQLHEEEKGNKLEEKRVRGGRVKKTTKVPRFAFQTRSVDDILDDGYRWRKYGQKAVKNSKYPRYILHVCL*