AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG044106


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG044106 MtrunA17_Chr8g0370431 100.000 132 0 0 1 132 1 132 4.78e-92 262
MsaG044106 MtrunA17_Chr5g0407011 67.969 128 38 2 1 126 1 127 6.60e-54 166
MsaG044106 MtrunA17_Chr3g0143991 64.286 112 34 3 3 108 5 116 1.91e-37 124
MsaG044106 MtrunA17_Chr7g0242251 60.606 99 38 1 33 130 47 145 2.42e-30 107
MsaG044106 MtrunA17_Chr1g0212341 45.361 97 53 0 33 129 98 194 2.20e-24 92.8
MsaG044106 MtrunA17_Chr4g0052011 49.367 79 40 0 33 111 60 138 5.04e-23 87.8
MsaG044106 MtrunA17_Chr8g0387931 45.783 83 39 2 33 115 262 338 6.76e-13 64.3
MsaG044106 MtrunA17_Chr1g0155251 43.023 86 48 1 22 107 543 627 3.27e-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
MsaG044106 AT1G20693.2 66.379 116 34 2 18 132 23 134 7.72e-43 138
MsaG044106 AT1G20693.3 66.364 110 32 2 18 126 23 128 2.30e-40 132
MsaG044106 AT1G20693.1 66.364 110 32 2 18 126 23 128 2.37e-40 132
MsaG044106 AT1G20696.1 68.932 103 31 1 25 126 23 125 5.86e-40 130
MsaG044106 AT2G17560.3 56.818 132 48 4 5 131 7 134 8.49e-40 130
MsaG044106 AT2G17560.2 57.600 125 47 3 5 127 7 127 1.31e-39 130
MsaG044106 AT2G17560.1 57.600 125 47 3 5 127 7 127 1.31e-39 130
MsaG044106 AT3G51880.2 62.617 107 36 2 25 130 41 144 2.45e-37 125
MsaG044106 AT3G51880.5 62.617 107 36 2 25 130 41 144 2.48e-37 125
MsaG044106 AT3G51880.1 62.617 107 36 2 25 130 41 144 2.48e-37 125
MsaG044106 AT3G51880.3 62.617 107 36 2 25 130 41 144 2.48e-37 125
MsaG044106 AT1G20696.2 70.588 85 25 0 25 109 23 107 3.28e-35 119
MsaG044106 AT1G20696.5 70.588 85 25 0 25 109 23 107 5.40e-35 118
MsaG044106 AT3G51880.4 63.000 100 33 2 28 126 44 140 1.71e-34 117
MsaG044106 AT4G35570.1 42.063 126 68 1 3 128 5 125 1.20e-32 112
MsaG044106 AT4G35570.2 42.063 126 68 1 3 128 5 125 1.20e-32 112
MsaG044106 AT1G20696.3 61.798 89 33 1 45 132 1 89 1.62e-27 98.2
MsaG044106 AT1G20696.4 61.446 83 31 1 45 126 1 83 4.13e-25 92.0
MsaG044106 AT2G34450.4 43.820 89 49 1 37 124 63 151 5.91e-21 82.8
MsaG044106 AT2G34450.3 43.820 89 49 1 37 124 63 151 5.91e-21 82.8
MsaG044106 AT2G34450.1 43.820 89 49 1 37 124 63 151 5.91e-21 82.8
MsaG044106 AT2G34450.2 43.333 90 49 2 37 124 63 152 1.60e-19 79.3
MsaG044106 AT5G23420.1 50.000 72 33 2 28 98 106 175 3.64e-15 69.7
MsaG044106 AT4G11080.1 42.391 92 47 2 33 124 242 327 2.18e-11 60.5
MsaG044106 AT4G23800.2 42.308 78 40 2 33 108 369 443 2.70e-11 60.1
MsaG044106 AT4G23800.2 44.000 75 39 1 33 107 251 322 4.01e-11 59.7
MsaG044106 AT4G23800.1 42.308 78 40 2 33 108 375 449 3.01e-11 60.1
MsaG044106 AT4G23800.1 44.000 75 39 1 33 107 251 322 4.61e-11 59.3

Find 29 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGAGGTCTCTTTGGCTTGTT+AGG 0.235866 8:+56044004 None:intergenic
AAAGCACTTGGAGGTCTCTT+TGG 0.290758 8:+56043995 None:intergenic
CTTATACTGTTCTCTAAAAT+CGG 0.321982 8:+56043842 None:intergenic
ATTCACCAGTTTCTTGTTGT+AGG 0.325921 8:+56043415 None:intergenic
GCGGCAACGGATTTGTTGTT+AGG 0.341320 8:+56043810 None:intergenic
TTACCGGTTATCAGCGGGTT+TGG 0.344714 8:+56044206 None:intergenic
TTGGAATCAGCTTTAACTTT+CGG 0.360829 8:+56044225 None:intergenic
AGCTTGAAGCGCAAAGGTGC+TGG 0.381485 8:-56044064 MsaT044106.1:CDS
ATTCCAAACCCGCTGATAAC+CGG 0.438213 8:-56044209 MsaT044106.1:intron
ACAAGCCTACAACAAGAAAC+TGG 0.447828 8:-56043420 MsaT044106.1:intron
AAGCGCAAAGGTGCTGGAGC+TGG 0.461656 8:-56044058 MsaT044106.1:CDS
TTCAATGCCCTAGCAGCATA+AGG 0.463633 8:+56043470 None:intergenic
TTCATCCTCATCATTGACTT+CGG 0.480014 8:+56043256 None:intergenic
GCGATTTACCGGTTATCAGC+GGG 0.487221 8:+56044201 None:intergenic
GAGATTTCTTACAGCGGCAA+CGG 0.506191 8:+56043797 None:intergenic
CAAGGCTCCTTATGCTGCTA+GGG 0.507356 8:-56043477 MsaT044106.1:CDS
ACAAGGCTCCTTATGCTGCT+AGG 0.511412 8:-56043478 MsaT044106.1:CDS
GAAAAGCTTGCGGTGAAGCA+TGG 0.538505 8:-56043656 MsaT044106.1:CDS
AAAACGAAGAAAGCACTTGG+AGG 0.558317 8:+56043986 None:intergenic
ATCAGCTTTAACTTTCGGCA+TGG 0.563633 8:+56044230 None:intergenic
GAGGGAAAAGACGAGGAAGA+TGG 0.570227 8:-56043296 MsaT044106.1:CDS
ACAGACGAAGAAAGCAGCGA+AGG 0.587729 8:-56044029 MsaT044106.1:CDS
ATGAAAACGAAGAAAGCACT+TGG 0.589018 8:+56043983 None:intergenic
CAATGATGAGGATGAAGATG+AGG 0.593124 8:-56043249 MsaT044106.1:CDS
AATTAGGTCGGAAAAGCTTG+CGG 0.611496 8:-56043666 MsaT044106.1:intron
GCAAAGGTGCTGGAGCTGGA+AGG 0.622916 8:-56044054 MsaT044106.1:CDS
AGCGATTTACCGGTTATCAG+CGG 0.628276 8:+56044200 None:intergenic
AAAATCCGAAGTCAATGATG+AGG 0.642367 8:-56043261 MsaT044106.1:CDS
TTATTAGGAGGGAAAAGACG+AGG 0.645171 8:-56043303 MsaT044106.1:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 56043244 56044250 56043244 ID=MsaG044106
Chr8 mRNA 56043244 56044250 56043244 ID=MsaT044106.1;Parent=MsaG044106
Chr8 exon 56043244 56043318 56043244 ID=MsaT044106.1.exon6;Parent=MsaT044106.1
Chr8 CDS 56043244 56043318 56043244 ID=cds.MsaT044106.1;Parent=MsaT044106.1
Chr8 exon 56043421 56043501 56043421 ID=MsaT044106.1.exon5;Parent=MsaT044106.1
Chr8 CDS 56043421 56043501 56043421 ID=cds.MsaT044106.1;Parent=MsaT044106.1
Chr8 exon 56043638 56043682 56043638 ID=MsaT044106.1.exon4;Parent=MsaT044106.1
Chr8 CDS 56043638 56043682 56043638 ID=cds.MsaT044106.1;Parent=MsaT044106.1
Chr8 exon 56043809 56043866 56043809 ID=MsaT044106.1.exon3;Parent=MsaT044106.1
Chr8 CDS 56043809 56043866 56043809 ID=cds.MsaT044106.1;Parent=MsaT044106.1
Chr8 exon 56043983 56044084 56043983 ID=MsaT044106.1.exon2;Parent=MsaT044106.1
Chr8 CDS 56043983 56044084 56043983 ID=cds.MsaT044106.1;Parent=MsaT044106.1
Chr8 exon 56044210 56044250 56044210 ID=MsaT044106.1.exon1;Parent=MsaT044106.1
Chr8 CDS 56044210 56044250 56044210 ID=cds.MsaT044106.1;Parent=MsaT044106.1
Gene Sequence

>MsaT044106.1

ATGCCGAAAGTTAAAGCTGATTCCAAACCCGCTGATAACCGCTTGAAGCGCAAAGGTGCTGGAGCTGGAAGGAAACAGACGAAGAAAGCAGCGAAGGATCCTAACAAGCCAAAGAGACCTCCAAGTGCTTTCTTCGTTTTCATGTCCGATTTTAGAGAACAGTATAAGAAAGATCATCCTAACAACAAATCCGTTGCCGCTGTCGGAAAAGCTTGCGGTGAAGCATGGAAATCGATGTCTGAAGAAGACAAGGCTCCTTATGCTGCTAGGGCATTGAAGAAGAAAGAAGAGTATGAAGTTGCTACACAAGCCTACAACAAGAAACTGGAGGGAAAAGACGAGGAAGATGGTTCTGACAAGTCAAAATCCGAAGTCAATGATGAGGATGAAGATGAGGTATAG

Protein sequence

>MsaT044106.1

MPKVKADSKPADNRLKRKGAGAGRKQTKKAAKDPNKPKRPPSAFFVFMSDFREQYKKDHPNNKSVAAVGKACGEAWKSMSEEDKAPYAARALKKKEEYEVATQAYNKKLEGKDEEDGSDKSKSEVNDEDEDEV*