AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG025919

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025919 MtrunA17_Chr5g0407011 95.935 123 4 1 1 122 1 123 1.59e-77 226
MsaG025919 MtrunA17_Chr8g0370431 64.516 124 40 3 1 122 1 122 1.34e-45 145
MsaG025919 MtrunA17_Chr3g0143991 68.750 80 25 0 25 104 35 114 1.26e-34 118
MsaG025919 MtrunA17_Chr7g0242251 67.568 74 24 0 31 104 47 120 1.05e-29 105
MsaG025919 MtrunA17_Chr1g0212341 47.423 97 49 1 31 127 98 192 7.13e-25 94.7
MsaG025919 MtrunA17_Chr2g0306571 63.014 73 21 2 50 122 119 185 8.48e-20 80.9
MsaG025919 MtrunA17_Chr4g0052011 39.189 74 45 0 31 104 60 133 1.79e-14 66.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025919 AT1G20693.2 66.667 93 30 1 29 121 32 123 2.10e-35 120
MsaG025919 AT1G20693.3 66.667 93 30 1 29 121 32 123 2.21e-35 120
MsaG025919 AT1G20693.1 66.667 93 30 1 29 121 32 123 2.27e-35 120
MsaG025919 AT1G20696.1 65.591 93 31 1 29 121 29 120 4.98e-35 119
MsaG025919 AT1G20696.2 72.368 76 21 0 29 104 29 104 2.12e-34 117
MsaG025919 AT1G20696.5 72.368 76 21 0 29 104 29 104 4.48e-34 116
MsaG025919 AT2G17560.2 48.062 129 65 1 6 134 8 134 1.38e-33 115
MsaG025919 AT2G17560.1 48.062 129 65 1 6 134 8 134 1.38e-33 115
MsaG025919 AT2G17560.3 51.282 117 55 1 6 122 8 122 1.58e-33 115
MsaG025919 AT3G51880.2 50.382 131 54 3 10 140 31 150 3.77e-31 110
MsaG025919 AT3G51880.4 51.613 124 44 3 9 123 18 134 7.51e-31 108
MsaG025919 AT3G51880.5 51.613 124 44 3 9 123 18 134 9.25e-31 109
MsaG025919 AT3G51880.1 51.613 124 44 3 9 123 18 134 9.25e-31 109
MsaG025919 AT3G51880.3 51.613 124 44 3 9 123 18 134 9.25e-31 109
MsaG025919 AT4G35570.1 45.299 117 59 3 7 121 9 122 5.37e-28 100
MsaG025919 AT4G35570.2 45.299 117 59 3 7 121 9 122 5.37e-28 100
MsaG025919 AT1G20696.3 55.696 79 34 1 43 121 1 78 1.40e-21 83.6
MsaG025919 AT1G20696.4 55.696 79 34 1 43 121 1 78 1.71e-21 83.2
MsaG025919 AT5G23420.1 43.478 92 45 3 10 100 94 179 7.85e-14 66.6
MsaG025919 AT2G34450.4 35.714 70 45 0 35 104 63 132 1.23e-12 61.6
MsaG025919 AT2G34450.3 35.714 70 45 0 35 104 63 132 1.23e-12 61.6
MsaG025919 AT2G34450.1 35.714 70 45 0 35 104 63 132 1.23e-12 61.6
MsaG025919 AT4G23800.2 49.315 73 34 1 31 103 251 320 1.76e-12 63.9
MsaG025919 AT4G23800.2 41.892 74 42 1 31 104 369 441 1.00e-11 61.6
MsaG025919 AT4G23800.1 49.315 73 34 1 31 103 251 320 1.79e-12 63.9
MsaG025919 AT4G23800.1 41.892 74 42 1 31 104 375 447 1.02e-11 61.6
MsaG025919 AT2G34450.2 36.620 71 44 1 35 104 63 133 3.60e-12 60.5
MsaG025919 AT4G11080.1 46.575 73 36 1 31 103 242 311 1.68e-11 60.8

Find 33 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GACAATGCGTGCTTACAATA+TGG 0.281097 5:-14356507 MsaT025919.1:CDS
GGAGGCCTCTTAGGCTTGTT+AGG 0.297257 5:+14357075 None:intergenic
AAAGCACTTGGAGGCCTCTT+AGG 0.299005 5:+14357066 None:intergenic
TTGAATTAGGTTGGGAAAGC+TGG 0.350890 5:-14356711 MsaT025919.1:intron
AGGAGGATGAGGAGTAAAGT+TGG 0.417672 5:-14356206 MsaT025919.1:CDS
TTATCAGCCTTAGCATTGAA+TGG 0.428927 5:+14356551 None:intergenic
ACAGCAACGGACTTGTTGCT+TGG 0.433440 5:+14356821 None:intergenic
TTAGCATCGGAAACAGCTTT+CGG 0.437399 5:+14357262 None:intergenic
ATGCTAAACCTGCTGATAAC+CGG 0.456641 5:-14357246 MsaT025919.1:intron
ACAATGCGTGCTTACAATAT+GGG 0.459061 5:-14356506 MsaT025919.1:CDS
AGTAAAGTTGGTGGTGCTGA+AGG 0.482862 5:-14356194 MsaT025919.1:CDS
TGCTAAGGCTGATAAGTTGA+AGG 0.485540 5:-14356543 MsaT025919.1:CDS
GAATCTCACCGGTTATCAGC+AGG 0.496399 5:+14357238 None:intergenic
GTTCAGAGAGAGGTTTAAGA+AGG 0.508587 5:-14356849 MsaT025919.1:CDS
GGAAAGCTGGTGGAAAGGAA+TGG 0.519414 5:-14356698 MsaT025919.1:CDS
AAGAATGCTTCTGAGGAAGA+AGG 0.530721 5:-14356369 MsaT025919.1:CDS
AATTAGGTTGGGAAAGCTGG+TGG 0.535794 5:-14356708 MsaT025919.1:intron
GGTTGGGAAAGCTGGTGGAA+AGG 0.549667 5:-14356703 MsaT025919.1:CDS
AGGTTGAAGCGCAAGTGCGC+TGG 0.554214 5:-14357129 MsaT025919.1:CDS
AGGATCCTAACAAGCCTAAG+AGG 0.555088 5:-14357080 MsaT025919.1:CDS
AAAACGAAGAAAGCACTTGG+AGG 0.557236 5:+14357057 None:intergenic
TAAGGCTCCATTCAATGCTA+AGG 0.574542 5:-14356558 MsaT025919.1:CDS
AGGATGAGGAGTAAAGTTGG+TGG 0.574604 5:-14356203 MsaT025919.1:CDS
GACTGAGAAGAATGCTTCTG+AGG 0.577758 5:-14356376 MsaT025919.1:CDS
ATGAAAACGAAGAAAGCACT+TGG 0.589018 5:+14357054 None:intergenic
AAGCAACAAGTCCGTTGCTG+TGG 0.608709 5:-14356819 MsaT025919.1:intron
GTTATCAGCAGGTTTAGCAT+CGG 0.618036 5:+14357249 None:intergenic
GGTGCTGAAGGAAGAAGCGT+AGG 0.622139 5:-14356182 MsaT025919.1:CDS
TTAGGTCTGAGTTCAGAGAG+AGG 0.622758 5:-14356859 MsaT025919.1:intron
CAGAAATCTCACCACAGCAA+CGG 0.627421 5:+14356808 None:intergenic
ATCGGAAACAGCTTTCGGCA+TGG 0.634546 5:+14357267 None:intergenic
ACTACAATCGAAGAAAGCGA+AGG 0.661182 5:-14357100 MsaT025919.1:CDS
TAAGGCTGATAAGTTGAAGG+AGG 0.688265 5:-14356540 MsaT025919.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 14356163 14357287 14356163 ID=MsaG025919
Chr5 mRNA 14356163 14357287 14356163 ID=MsaT025919.1;Parent=MsaG025919
Chr5 exon 14356163 14356229 14356163 ID=MsaT025919.1.exon7;Parent=MsaT025919.1
Chr5 CDS 14356163 14356229 14356163 ID=cds.MsaT025919.1;Parent=MsaT025919.1
Chr5 exon 14356354 14356397 14356354 ID=MsaT025919.1.exon6;Parent=MsaT025919.1
Chr5 CDS 14356354 14356397 14356354 ID=cds.MsaT025919.1;Parent=MsaT025919.1
Chr5 exon 14356502 14356582 14356502 ID=MsaT025919.1.exon5;Parent=MsaT025919.1
Chr5 CDS 14356502 14356582 14356502 ID=cds.MsaT025919.1;Parent=MsaT025919.1
Chr5 exon 14356680 14356724 14356680 ID=MsaT025919.1.exon4;Parent=MsaT025919.1
Chr5 CDS 14356680 14356724 14356680 ID=cds.MsaT025919.1;Parent=MsaT025919.1
Chr5 exon 14356820 14356877 14356820 ID=MsaT025919.1.exon3;Parent=MsaT025919.1
Chr5 CDS 14356820 14356877 14356820 ID=cds.MsaT025919.1;Parent=MsaT025919.1
Chr5 exon 14357054 14357149 14357054 ID=MsaT025919.1.exon2;Parent=MsaT025919.1
Chr5 CDS 14357054 14357149 14357054 ID=cds.MsaT025919.1;Parent=MsaT025919.1
Chr5 exon 14357247 14357287 14357247 ID=MsaT025919.1.exon1;Parent=MsaT025919.1
Chr5 CDS 14357247 14357287 14357247 ID=cds.MsaT025919.1;Parent=MsaT025919.1
Gene Sequence

>MsaT025919.1

ATGCCGAAAGCTGTTTCCGATGCTAAACCTGCTGATAACCGGTTGAAGCGCAAGTGCGCTGGTACTGAACTACAATCGAAGAAAGCGAAGGATCCTAACAAGCCTAAGAGGCCTCCAAGTGCTTTCTTCGTTTTCATGTCTGAGTTCAGAGAGAGGTTTAAGAAGGAGAATCCAAGCAACAAGTCCGTTGCTGTGGTTGGGAAAGCTGGTGGAAAGGAATGGAAAGCTCTGTCTGATGCTGATAAGGCTCCATTCAATGCTAAGGCTGATAAGTTGAAGGAGGAGTATGAGAAGACAATGCGTGCTTACAATATGGGAATTACTGAGAAGAATGCTTCTGAGGAAGAAGGATCTGAGAAGTCCAAGAGGAGGATGAGGAGTAAAGTTGGTGGTGCTGAAGGAAGAAGCGTAGGAGTAACTGCAATAGAATAA
Protein sequence

>MsaT025919.1

MPKAVSDAKPADNRLKRKCAGTELQSKKAKDPNKPKRPPSAFFVFMSEFRERFKKENPSNKSVAVVGKAGGKEWKALSDADKAPFNAKADKLKEEYEKTMRAYNMGITEKNASEEEGSEKSKRRMRSKVGGAEGRSVGVTAIE*