AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG028340

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG028340 MtrunA17_Chr5g0434121 96.653 239 6 2 1 239 1 237 6.12e-173 475
MsaG028340 MtrunA17_Chr3g0110091 57.430 249 85 8 1 239 1 238 4.23e-83 248
MsaG028340 MtrunA17_Chr1g0161901 44.231 260 107 10 4 239 6 251 3.38e-58 185
MsaG028340 MtrunA17_Chr8g0376021 44.976 209 99 6 39 239 17 217 6.14e-48 157
MsaG028340 MtrunA17_Chr2g0333741 66.234 77 18 3 88 157 80 155 1.58e-26 103
MsaG028340 MtrunA17_Chr1g0149811 32.812 256 120 11 14 239 29 262 4.73e-24 96.7
MsaG028340 MtrunA17_Chr1g0207691 38.889 144 73 5 66 205 41 173 2.83e-23 93.2
MsaG028340 MtrunA17_Chr4g0001081 47.154 123 54 3 38 158 16 129 6.20e-20 85.1
MsaG028340 MtrunA17_Chr3g0137111 41.045 134 57 5 43 155 22 154 3.15e-19 83.2
MsaG028340 MtrunA17_Chr4g0072571 64.912 57 17 1 89 145 45 98 2.00e-16 74.3
MsaG028340 MtrunA17_Chr4g0053691 34.884 172 81 8 41 208 25 169 7.72e-14 67.8
MsaG028340 MtrunA17_Chr7g0255491 56.863 51 21 1 71 121 50 99 6.33e-12 63.9
MsaG028340 MtrunA17_Chr7g0251581 69.697 33 10 0 89 121 39 71 2.56e-11 60.8
MsaG028340 MtrunA17_Chr7g0254221 64.865 37 13 0 89 125 33 69 3.07e-11 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG028340 AT1G66140.1 49.180 183 56 9 89 239 83 260 9.92e-43 145
MsaG028340 AT1G24625.1 39.286 224 79 12 35 239 24 209 1.06e-31 115
MsaG028340 AT1G80730.1 60.227 88 18 2 88 158 65 152 1.91e-24 97.4
MsaG028340 AT5G25160.1 46.491 114 54 4 82 188 52 165 9.03e-24 95.9
MsaG028340 AT5G10970.1 56.098 82 29 3 82 158 95 174 1.03e-21 91.3
MsaG028340 AT5G57520.1 79.487 39 8 0 88 126 49 87 9.82e-16 72.4
MsaG028340 AT5G14010.1 69.444 36 11 0 89 124 36 71 1.16e-12 64.3
MsaG028340 AT5G01860.1 44.615 65 31 1 58 122 39 98 5.24e-11 60.8
MsaG028340 AT1G67030.1 43.038 79 33 3 71 146 18 87 5.69e-11 60.5

Find 29 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGGATTTGTGATGTTGTAAA+AGG 0.238996 5:-61072623 None:intergenic
TCCTCATCTTCCAAGAATAT+TGG 0.301130 5:-61073090 None:intergenic
ACAAGAGATTCAAATTCAAT+AGG 0.312010 5:+61072706 MsaT028340.1:CDS
GTTTCTCACCAACAACAATT+AGG 0.315395 5:+61073007 MsaT028340.1:CDS
CAAAGTTTCAATGTCAAATC+TGG 0.316382 5:-61073225 None:intergenic
AGAGATATATCATATGAATT+AGG 0.358518 5:-61072643 None:intergenic
GGAATTGTTGCTGCTGCTGC+AGG 0.371101 5:-61072769 None:intergenic
CAAGAGATTCAAATTCAATA+GGG 0.379098 5:+61072707 MsaT028340.1:CDS
TGTTGGATTTCCAATATTCT+TGG 0.388274 5:+61073080 MsaT028340.1:CDS
GAATTTGAATCTCTTGTTGT+TGG 0.420518 5:-61072700 None:intergenic
GCACACTCTTCAATGCACTA+TGG 0.425583 5:+61072985 MsaT028340.1:CDS
TTCAGTTCTCAAGCTCTTGG+TGG 0.434858 5:+61072829 MsaT028340.1:CDS
ATTTGACATTGAAACTTTGA+AGG 0.446905 5:+61073229 MsaT028340.1:CDS
TATTTGCATGAGAAAACTCT+TGG 0.472741 5:-61072790 None:intergenic
TCCAATATTCTTGGAAGATG+AGG 0.489945 5:+61073089 MsaT028340.1:CDS
TTCGAGCAACAAGGGTGTGT+TGG 0.505986 5:+61073063 MsaT028340.1:CDS
TTAGCATCTTTACCTTTGCA+TGG 0.510848 5:+61072937 MsaT028340.1:CDS
TTTCGACAAGAATCCGGGGC+GGG 0.536078 5:+61073138 MsaT028340.1:CDS
GAGTCAAAGTTAATGTGGCC+AGG 0.539222 5:+61073111 MsaT028340.1:CDS
CTGTTGAGCACCACCCGCCC+CGG 0.541347 5:-61073151 None:intergenic
TTGATACATTAGAATCAACT+TGG 0.543408 5:-61072591 None:intergenic
CGACAAGAATCCGGGGCGGG+TGG 0.543660 5:+61073141 MsaT028340.1:CDS
TGATGAGGCCTAATTGTTGT+TGG 0.553936 5:-61073015 None:intergenic
GATTCTTGTCGAAAACTACC+TGG 0.592240 5:-61073129 None:intergenic
ATGAGGAGTCAAAGTTAATG+TGG 0.619143 5:+61073106 MsaT028340.1:CDS
GACCTAAAAGAACCATGCAA+AGG 0.631354 5:-61072949 None:intergenic
ATATGAGATTCGAGCAACAA+GGG 0.654483 5:+61073055 MsaT028340.1:CDS
TATATGAGATTCGAGCAACA+AGG 0.660520 5:+61073054 MsaT028340.1:CDS
ACAGAATTTCATACTCACTG+AGG 0.743093 5:+61073170 MsaT028340.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 61072529 61073248 61072529 ID=MsaG028340
Chr5 mRNA 61072529 61073248 61072529 ID=MsaT028340.1;Parent=MsaG028340
Chr5 exon 61072529 61073248 61072529 ID=MsaT028340.1.exon1;Parent=MsaT028340.1
Chr5 CDS 61072529 61073248 61072529 ID=cds.MsaT028340.1;Parent=MsaT028340.1
Gene Sequence

>MsaT028340.1

ATGAAACAAAACATTGATCTTGAAGTAGAAGCTTGTGCAGAATATGAATCTGAAGTTACAAGCCAAGTTGATTCTAATGTATCAACTCAAGAAACCTTTTACAACATCACAAATCCTAATTCATATGATATATCTCTTGACTTAAGTCTAAATTTCAAGAACAGTGAGATACCAACAACAAGAGATTCAAATTCAATAGGGTTCTCACTTTCAAGCACTTCTGAGAACAGCAGCAATGAACCTGCAGCAGCAGCAACAATTCCAAGAGTTTTCTCATGCAAATACTGTCAGAGAAAGTTTTTCAGTTCTCAAGCTCTTGGTGGACACCAAAATGCACATAAAAGAGAAAGAACATTAGCAAAAAGAGCTATGAGAATGGGAATGTTTTCTGACAGGTATAATGCTAGTTTAGCATCTTTACCTTTGCATGGTTCTTTTAGGTCATTAGGGATAAAAGCACACTCTTCAATGCACTATGGTTTCTCACCAACAACAATTAGGCCTCATCATCATGAAGTGAAAACTTATATGAGATTCGAGCAACAAGGGTGTGTTGGATTTCCAATATTCTTGGAAGATGAGGAGTCAAAGTTAATGTGGCCAGGTAGTTTTCGACAAGAATCCGGGGCGGGTGGTGCTCAACAGAATTTCATACTCACTGAGGTGAATCCATGTGTAGACAGAGAAAAATCTACACCAGATTTGACATTGAAACTTTGA
Protein sequence

>MsaT028340.1

MKQNIDLEVEACAEYESEVTSQVDSNVSTQETFYNITNPNSYDISLDLSLNFKNSEIPTTRDSNSIGFSLSSTSENSSNEPAAAATIPRVFSCKYCQRKFFSSQALGGHQNAHKRERTLAKRAMRMGMFSDRYNASLASLPLHGSFRSLGIKAHSSMHYGFSPTTIRPHHHEVKTYMRFEQQGCVGFPIFLEDEESKLMWPGSFRQESGAGGAQQNFILTEVNPCVDREKSTPDLTLKL*