AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG014784

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG014784 MtrunA17_Chr3g0110091 88.285 239 13 2 1 225 1 238 5.77e-146 406
MsaG014784 MtrunA17_Chr5g0434121 56.275 247 76 9 1 225 1 237 6.34e-74 224
MsaG014784 MtrunA17_Chr1g0161901 39.044 251 121 7 3 225 5 251 5.02e-50 163
MsaG014784 MtrunA17_Chr8g0376021 39.726 219 110 5 27 225 1 217 2.61e-44 147
MsaG014784 MtrunA17_Chr1g0207691 39.695 131 65 4 70 188 47 175 1.67e-22 90.9
MsaG014784 MtrunA17_Chr1g0149811 69.811 53 15 1 74 125 80 132 1.99e-19 84.0
MsaG014784 MtrunA17_Chr4g0001081 58.730 63 18 1 87 141 67 129 2.32e-18 80.5
MsaG014784 MtrunA17_Chr3g0137111 52.703 74 31 2 72 145 60 129 5.28e-18 79.7
MsaG014784 MtrunA17_Chr2g0333741 54.321 81 15 3 81 140 76 155 1.83e-17 78.6
MsaG014784 MtrunA17_Chr4g0072571 82.051 39 7 0 86 124 44 82 8.68e-17 75.1
MsaG014784 MtrunA17_Chr4g0053691 39.815 108 62 3 79 185 59 164 1.24e-16 74.7
MsaG014784 MtrunA17_Chr7g0251581 75.758 33 8 0 87 119 39 71 1.41e-12 63.9
MsaG014784 MtrunA17_Chr7g0250871 62.222 45 17 0 77 121 39 83 3.11e-12 62.8
MsaG014784 MtrunA17_Chr7g0254221 67.568 37 12 0 87 123 33 69 3.49e-12 62.4
MsaG014784 MtrunA17_Chr2g0310101 40.230 87 45 2 86 172 58 137 3.63e-12 63.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG014784 AT1G66140.1 44.565 184 53 6 86 225 82 260 4.44e-40 138
MsaG014784 AT1G24625.1 41.379 203 73 11 46 225 30 209 2.86e-32 117
MsaG014784 AT5G10970.1 42.975 121 41 3 47 141 56 174 1.69e-20 87.4
MsaG014784 AT5G25160.1 53.846 78 16 2 84 141 56 133 3.53e-18 80.5
MsaG014784 AT1G80730.1 82.500 40 7 0 82 121 61 100 2.02e-17 78.6
MsaG014784 AT5G57520.1 78.947 38 8 0 87 124 50 87 1.22e-15 71.6
MsaG014784 AT5G14010.1 68.421 38 12 0 87 124 36 73 8.73e-14 67.0
MsaG014784 AT3G58070.1 55.357 56 21 1 67 122 73 124 7.68e-12 63.5
MsaG014784 AT5G01860.1 48.214 56 29 0 71 126 49 104 9.53e-12 62.8
MsaG014784 AT1G67030.1 50.000 62 22 2 87 148 39 91 5.65e-11 60.1

Find 38 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAAAGTTTCAATGTTAATTC+AGG 0.241054 3:+78474267 None:intergenic
AATGGTTCTTTCAGGTCATT+AGG 0.297972 3:-78474546 MsaT014784.1:intron
AATTGCAAGAGAAAATTCTT+TGG 0.318566 3:+78474709 None:intergenic
TTTCTCTCTTGTGTGCGTTT+TGG 0.337168 3:+78474643 None:intergenic
AACCTGGAGAGGTTTCAATT+TGG 0.372940 3:+78474874 None:intergenic
GCAAAGCGAGCTATGCGAAT+TGG 0.384062 3:-78474612 MsaT014784.1:CDS
TATCGGTCATCCGATATTCT+TGG 0.398517 3:-78474427 MsaT014784.1:CDS
GGGCTAGGCCTTATTGTTGA+TGG 0.404082 3:+78474486 None:intergenic
ATTAGAAAGGCTGTTACTAT+AGG 0.421832 3:+78474851 None:intergenic
CTGGAGAGGTTTCAATTTGG+TGG 0.433921 3:+78474877 None:intergenic
TCATCGTCCTCCAAGAATAT+CGG 0.434665 3:+78474417 None:intergenic
AATTTGGTGGGTGGATATAG+TGG 0.440124 3:+78474890 None:intergenic
TAATTCAGATTCCATCTCAC+TGG 0.457739 3:-78474832 MsaT014784.1:CDS
AAGTTCATTGCTGCTCTCAC+TGG 0.464380 3:+78474737 None:intergenic
GCAAGAGAAAATTCTTTGGA+TGG 0.480537 3:+78474713 None:intergenic
TTGGTTGCAAGAGATTCAAC+AGG 0.483148 3:-78474777 MsaT014784.1:CDS
AGCAGTGCTAGATTCAAGTT+AGG 0.490778 3:-78474453 MsaT014784.1:CDS
TATAGCTCGCAGGCACTTGG+TGG 0.518085 3:-78474669 MsaT014784.1:CDS
CTTCAACAAGGACAATGACT+TGG 0.521722 3:-78474796 MsaT014784.1:CDS
TGGAGAGGTTTCAATTTGGT+GGG 0.530109 3:+78474878 None:intergenic
CACCAAATTGAAACCTCTCC+AGG 0.534773 3:-78474876 MsaT014784.1:CDS
AGATGGAATCTGAATTAGAA+AGG 0.546754 3:+78474838 None:intergenic
AGATTCAAGTTAGGATCTAT+CGG 0.563874 3:-78474444 MsaT014784.1:CDS
CGGTCATCCGATATTCTTGG+AGG 0.568620 3:-78474424 MsaT014784.1:CDS
GAATTCTCTATGTCAACCAA+TGG 0.572984 3:+78474294 None:intergenic
AGAGGTTTCAATTTGGTGGG+TGG 0.575688 3:+78474881 None:intergenic
GAGTGTTAAGTCCAGTGAGA+TGG 0.580909 3:+78474821 None:intergenic
ATCAGATTCATATTCTTCTG+TGG 0.583159 3:+78474932 None:intergenic
TTTCATCAGGTTACTGAGGG+AGG 0.597854 3:-78474369 MsaT014784.1:CDS
TGGATATAGTGGAAGCAACA+TGG 0.607959 3:+78474901 None:intergenic
AGGCTGTTACTATAGGAACC+TGG 0.608616 3:+78474858 None:intergenic
TGAGGTGAATGTGAAACCAT+TGG 0.612040 3:-78474310 MsaT014784.1:CDS
ACGATGAGACAGAACTGATG+TGG 0.646574 3:-78474401 MsaT014784.1:CDS
GAGACAGAACTGATGTGGCA+AGG 0.647919 3:-78474396 MsaT014784.1:CDS
CTTAACACTCAACTTCAACA+AGG 0.655631 3:-78474808 MsaT014784.1:CDS
GTTACTATAGGAACCTGGAG+AGG 0.688967 3:+78474863 None:intergenic
ACACACTCTTCACTACACCA+TGG 0.697590 3:-78474516 MsaT014784.1:CDS
GAATTGGACTATTCACTGAG+AGG 0.709982 3:-78474596 MsaT014784.1:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 78474266 78474985 78474266 ID=MsaG014784
Chr3 mRNA 78474266 78474985 78474266 ID=MsaT014784.1;Parent=MsaG014784
Chr3 exon 78474266 78474554 78474266 ID=MsaT014784.1.exon2;Parent=MsaT014784.1
Chr3 CDS 78474266 78474554 78474266 ID=cds.MsaT014784.1;Parent=MsaT014784.1
Chr3 exon 78474597 78474985 78474597 ID=MsaT014784.1.exon1;Parent=MsaT014784.1
Chr3 CDS 78474597 78474985 78474597 ID=cds.MsaT014784.1;Parent=MsaT014784.1
Gene Sequence

>MsaT014784.1

ATGAAACCAATTTTTGATCTTGAAGTAGAGGCCACAGAAGAATATGAATCTGATGTTAGTAGCCATGTTGCTTCCACTATATCCACCCACCAAATTGAAACCTCTCCAGGTTCCTATAGTAACAGCCTTTCTAATTCAGATTCCATCTCACTGGACTTAACACTCAACTTCAACAAGGACAATGACTTGGTTGCAAGAGATTCAACAGGATTCTCATTCTCAAGCACCAGTGAGAGCAGCAATGAACTTACCATCCAAAGAATTTTCTCTTGCAATTACTGTCGGCGCAAATTTTATAGCTCGCAGGCACTTGGTGGTCACCAAAACGCACACAAGAGAGAAAGAACGTTAGCAAAGCGAGCTATGCGAATTGGACTATTCACTGAGAGGTCATTAGGTATAAAGACACACTCTTCACTACACCATGGTTTTTCGCCATCAACAATAAGGCCTAGCCCTGAGATAAAAAGCAGTGCTAGATTCAAGTTAGGATCTATCGGTCATCCGATATTCTTGGAGGACGATGAGACAGAACTGATGTGGCAAGGTAGTTTTCATCAGGTTACTGAGGGAGGTAGTAACACTTATCAGAGTTCAAATATGTGTTTTACTGAGGTGAATGTGAAACCATTGGTTGACATAGAGAATTCAGCACCTGAATTAACATTGAAACTTTGA
Protein sequence

>MsaT014784.1

MKPIFDLEVEATEEYESDVSSHVASTISTHQIETSPGSYSNSLSNSDSISLDLTLNFNKDNDLVARDSTGFSFSSTSESSNELTIQRIFSCNYCRRKFYSSQALGGHQNAHKRERTLAKRAMRIGLFTERSLGIKTHSSLHHGFSPSTIRPSPEIKSSARFKLGSIGHPIFLEDDETELMWQGSFHQVTEGGSNTYQSSNMCFTEVNVKPLVDIENSAPELTLKL*