AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG045348


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG045348 MtrunA17_Chr4g0062271 99.346 153 1 0 1 153 1 153 7.45e-113 316
MsaG045348 MtrunA17_Chr2g0307551 86.275 153 21 0 1 153 1 153 5.32e-99 281
MsaG045348 MtrunA17_Chr1g0185911 41.176 85 48 1 12 94 30 114 1.54e-17 75.1
MsaG045348 MtrunA17_Chr7g0263601 37.500 80 50 0 12 91 27 106 5.73e-16 70.9
MsaG045348 MtrunA17_Chr3g0102351 36.250 80 51 0 12 91 28 107 6.02e-16 71.2
MsaG045348 MtrunA17_Chr4g0076381 37.037 81 51 0 11 91 58 138 1.08e-15 71.6
MsaG045348 MtrunA17_Chr5g0446491 36.250 80 51 0 12 91 24 103 1.09e-15 70.5
MsaG045348 MtrunA17_Chr1g0165041 28.723 94 67 0 6 99 1 94 4.87e-15 68.9
MsaG045348 MtrunA17_Chr2g0296321 30.909 110 70 1 8 111 63 172 1.22e-14 68.9
MsaG045348 MtrunA17_Chr2g0290491 32.530 83 56 0 7 89 13 95 2.40e-14 66.6
MsaG045348 MtrunA17_Chr1g0191981 31.646 79 54 0 13 91 6 84 3.52e-14 65.1
MsaG045348 MtrunA17_Chr4g0067091 34.615 78 51 0 12 89 23 100 3.97e-14 67.0
MsaG045348 MtrunA17_Chr8g0384451 29.545 88 62 0 12 99 41 128 5.81e-14 66.2
MsaG045348 MtrunA17_Chr8g0382931 32.143 84 57 0 5 88 22 105 1.05e-13 65.5
MsaG045348 MtrunA17_Chr1g0195851 32.051 78 53 0 12 89 37 114 2.14e-13 64.7
MsaG045348 MtrunA17_Chr4g0076321 35.135 74 48 0 16 89 24 97 4.53e-13 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG045348 AT5G23090.5 85.235 149 21 1 1 149 1 148 8.56e-93 266
MsaG045348 AT5G23090.2 85.235 149 21 1 1 149 1 148 8.56e-93 266
MsaG045348 AT5G23090.1 85.235 149 21 1 1 149 1 148 8.56e-93 266
MsaG045348 AT5G23090.4 82.468 154 24 2 1 152 1 153 2.86e-90 259
MsaG045348 AT5G08190.1 88.652 141 16 0 1 141 1 141 3.21e-84 244
MsaG045348 AT5G08190.2 87.943 141 16 1 1 141 1 140 1.45e-81 238
MsaG045348 AT5G23090.3 77.181 149 20 2 1 149 1 135 5.14e-80 233
MsaG045348 AT2G38880.7 31.068 103 71 0 12 114 22 124 4.48e-17 73.2
MsaG045348 AT2G38880.3 31.429 105 71 1 12 116 22 125 1.67e-16 72.0
MsaG045348 AT2G38880.11 34.409 93 59 1 12 102 22 114 1.98e-16 72.4
MsaG045348 AT2G38880.8 34.409 93 59 1 12 102 22 114 1.98e-16 72.4
MsaG045348 AT2G38880.2 32.381 105 69 1 12 114 22 126 2.01e-16 71.6
MsaG045348 AT2G38880.1 32.381 105 69 1 12 114 22 126 2.01e-16 71.6
MsaG045348 AT2G38880.5 32.381 105 69 1 12 114 22 126 2.01e-16 71.6
MsaG045348 AT4G14540.1 31.000 100 69 0 12 111 22 121 2.50e-16 72.0
MsaG045348 AT3G53340.5 35.000 100 64 1 12 111 30 128 5.67e-16 71.2
MsaG045348 AT3G53340.1 35.000 100 64 1 12 111 30 128 5.67e-16 71.2
MsaG045348 AT2G37060.2 36.250 80 51 0 12 91 31 110 6.66e-16 71.2
MsaG045348 AT2G37060.3 36.250 80 51 0 12 91 31 110 6.66e-16 71.2
MsaG045348 AT2G37060.1 36.250 80 51 0 12 91 31 110 6.66e-16 71.2
MsaG045348 AT2G38880.4 35.294 85 53 1 12 94 22 106 8.17e-16 69.3
MsaG045348 AT5G47640.1 30.631 111 76 1 12 122 28 137 9.53e-16 71.2
MsaG045348 AT5G47670.2 37.037 81 51 0 11 91 29 109 1.70e-15 70.9
MsaG045348 AT5G47670.1 37.037 81 51 0 11 91 58 138 2.43e-15 70.9
MsaG045348 AT5G47670.3 37.037 81 51 0 11 91 58 138 2.43e-15 70.9
MsaG045348 AT3G53340.4 36.250 80 51 0 12 91 30 109 7.90e-15 67.0
MsaG045348 AT2G38880.9 31.250 96 66 0 12 107 22 117 1.76e-14 67.0
MsaG045348 AT2G38880.10 31.250 96 66 0 12 107 22 117 1.76e-14 67.0
MsaG045348 AT2G38880.6 31.250 96 66 0 12 107 22 117 1.76e-14 67.0
MsaG045348 AT3G53340.3 32.955 88 59 0 12 99 30 117 2.45e-14 66.6
MsaG045348 AT3G53340.2 32.955 88 59 0 12 99 30 117 2.45e-14 66.6
MsaG045348 AT1G21970.1 32.099 81 55 0 11 91 59 139 4.84e-14 67.4
MsaG045348 AT1G09030.1 31.250 80 55 0 12 91 4 83 1.56e-13 63.9
MsaG045348 AT2G13570.1 32.468 77 52 0 12 88 37 113 6.61e-13 63.9
MsaG045348 AT2G47810.1 30.263 76 53 0 12 87 52 127 1.06e-11 59.7

Find 37 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTCCTAGCTAATCTAATTT+TGG 0.141370 8:-71598672 None:intergenic
ATACTTTAAAAGCTGGTAAA+TGG 0.274950 8:+71598533 MsaT045348.1:CDS
TTTCCCCAGGTGCTTGGATT+TGG 0.324476 8:+71597691 MsaT045348.1:intron
CAGCAAGATACTTTAAAAGC+TGG 0.415421 8:+71598526 MsaT045348.1:intron
TGCGCCTGAGCACGTATTGA+AGG 0.421286 8:+71596919 MsaT045348.1:CDS
AGCACTCGATCAATAGATCT+TGG 0.421579 8:-71596145 None:intergenic
CTCTCTGCTACATACTTCAT+TGG 0.429101 8:-71596882 None:intergenic
TATGTAGCAGAGAGGACAAA+AGG 0.468267 8:+71596891 MsaT045348.1:CDS
GCACGTATTGAAGGCTCTAC+AGG 0.479345 8:+71596928 MsaT045348.1:CDS
CGATTTGCCAACGATATCCA+TGG 0.490386 8:-71595297 None:intergenic
GAGGCCCGCGCTAGGATGAA+TGG 0.491671 8:+71598616 MsaT045348.1:CDS
CCCGCGCTAGGATGAATGGT+GGG 0.499784 8:+71598620 MsaT045348.1:CDS
CTCGCCACGCGGACATCTTG+CGG 0.511342 8:-71596116 None:intergenic
GCACTCGATCAATAGATCTT+GGG 0.526789 8:-71596144 None:intergenic
AGGTTAAATTATGGATCCCA+TGG 0.527047 8:+71595280 None:intergenic
CCCACCATTCATCCTAGCGC+GGG 0.529331 8:-71598620 None:intergenic
AGAGCCTTCAATACGTGCTC+AGG 0.530619 8:-71596923 None:intergenic
TGTTTGCAGAGGCCCGCGCT+AGG 0.547845 8:+71598608 MsaT045348.1:CDS
CTATTGATCGAGTGCTGTGT+AGG 0.564923 8:+71596152 MsaT045348.1:CDS
CCCCACCATTCATCCTAGCG+CGG 0.565574 8:-71598621 None:intergenic
AAAGCTGGTAAATGGAGCAA+TGG 0.581041 8:+71598541 MsaT045348.1:CDS
AGCATACGAACAACACAAGC+TGG 0.587192 8:+71597738 MsaT045348.1:CDS
GTTTATAAATCTCATCTCAT+CGG 0.592523 8:+71596856 MsaT045348.1:CDS
ATGGATCCCATGGATATCGT+TGG 0.592534 8:+71595290 MsaT045348.1:CDS
GGATATCGTTGGCAAATCGA+AGG 0.607995 8:+71595301 MsaT045348.1:CDS
GATTTGCCAACGATATCCAT+GGG 0.608748 8:-71595296 None:intergenic
AAGCATTAGCAGAACAACAA+AGG 0.632993 8:+71598584 MsaT045348.1:CDS
GCCCGCGCTAGGATGAATGG+TGG 0.635837 8:+71598619 MsaT045348.1:CDS
ACAACACAAGCTGGAGACCA+TGG 0.639569 8:+71597747 MsaT045348.1:CDS
GAAGATGCTTCGCTTCCCAA+AGG 0.654221 8:+71595323 MsaT045348.1:CDS
ATTGCTTCAAAACAGCCAGA+TGG 0.664023 8:+71598646 MsaT045348.1:CDS
CCGCGCTAGGATGAATGGTG+GGG 0.672298 8:+71598621 MsaT045348.1:CDS
ACAACAAAGGATGTTTGCAG+AGG 0.686768 8:+71598597 MsaT045348.1:CDS
CTTGGGTGTCTCTCGCCACG+CGG 0.690389 8:-71596127 None:intergenic
CAATGAAGTATGTAGCAGAG+AGG 0.698906 8:+71596883 MsaT045348.1:CDS
CAATGGAGCTGAGATGACTG+AGG 0.705174 8:+71598558 MsaT045348.1:CDS
GTTACCGCAAGATGTCCGCG+TGG 0.763213 8:+71596112 MsaT045348.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 71595290 71598681 71595290 ID=MsaG045348
Chr8 mRNA 71595290 71598681 71595290 ID=MsaT045348.1;Parent=MsaG045348
Chr8 exon 71595290 71595344 71595290 ID=MsaT045348.1.exon1;Parent=MsaT045348.1
Chr8 CDS 71595290 71595344 71595290 ID=cds.MsaT045348.1;Parent=MsaT045348.1
Chr8 exon 71596084 71596173 71596084 ID=MsaT045348.1.exon2;Parent=MsaT045348.1
Chr8 CDS 71596084 71596173 71596084 ID=cds.MsaT045348.1;Parent=MsaT045348.1
Chr8 exon 71596855 71596949 71596855 ID=MsaT045348.1.exon3;Parent=MsaT045348.1
Chr8 CDS 71596855 71596949 71596855 ID=cds.MsaT045348.1;Parent=MsaT045348.1
Chr8 exon 71597700 71597768 71597700 ID=MsaT045348.1.exon4;Parent=MsaT045348.1
Chr8 CDS 71597700 71597768 71597700 ID=cds.MsaT045348.1;Parent=MsaT045348.1
Chr8 exon 71598529 71598681 71598529 ID=MsaT045348.1.exon5;Parent=MsaT045348.1
Chr8 CDS 71598529 71598681 71598529 ID=cds.MsaT045348.1;Parent=MsaT045348.1
Gene Sequence

>MsaT045348.1

ATGGATCCCATGGATATCGTTGGCAAATCGAAGGAAGATGCTTCGCTTCCCAAAGCAACAATGACAAAAATAATTAAGGAGATGTTACCGCAAGATGTCCGCGTGGCGAGAGACACCCAAGATCTATTGATCGAGTGCTGTGTAGAGTTTATAAATCTCATCTCATCGGAGTCCAATGAAGTATGTAGCAGAGAGGACAAAAGGACTATTGCGCCTGAGCACGTATTGAAGGCTCTACAGGTGCTTGGATTTGGCGAGTACATTGAAGAAGTTTATGCAGCATACGAACAACACAAGCTGGAGACCATGCAAGATACTTTAAAAGCTGGTAAATGGAGCAATGGAGCTGAGATGACTGAGGAACAAGCATTAGCAGAACAACAAAGGATGTTTGCAGAGGCCCGCGCTAGGATGAATGGTGGGGCCATTGCTTCAAAACAGCCAGATGGTGACCAAAATTAG

Protein sequence

>MsaT045348.1

MDPMDIVGKSKEDASLPKATMTKIIKEMLPQDVRVARDTQDLLIECCVEFINLISSESNEVCSREDKRTIAPEHVLKALQVLGFGEYIEEVYAAYEQHKLETMQDTLKAGKWSNGAEMTEEQALAEQQRMFAEARARMNGGAIASKQPDGDQN*