AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG025511

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025511 MtrunA17_Chr5g0402291 92.708 288 20 1 1 287 1 288 0.0 532
MsaG025511 MtrunA17_Chr8g0375041 49.811 265 103 6 1 255 1 245 1.74e-76 233
MsaG025511 MtrunA17_Chr5g0397881 45.353 269 119 7 2 252 17 275 1.51e-64 206
MsaG025511 MtrunA17_Chr3g0134031 47.706 218 84 5 2 193 17 230 2.72e-57 188
MsaG025511 MtrunA17_Chr1g0203601 40.613 261 103 6 2 235 11 246 4.15e-52 172
MsaG025511 MtrunA17_Chr6g0472421 44.186 215 82 2 2 191 26 227 1.70e-50 169
MsaG025511 MtrunA17_Chr7g0257331 44.385 187 80 1 3 189 16 178 5.77e-49 162
MsaG025511 MtrunA17_Chr5g0441531 40.164 244 117 6 2 235 18 242 7.28e-49 162
MsaG025511 MtrunA17_Chr5g0410881 47.514 181 69 3 1 181 24 178 3.30e-44 156
MsaG025511 MtrunA17_Chr7g0260331 69.474 95 29 0 6 100 46 140 9.58e-44 152
MsaG025511 MtrunA17_Chr6g0467041 58.407 113 44 1 8 117 21 133 1.93e-42 148
MsaG025511 MtrunA17_Chr8g0379701 39.720 214 91 4 5 217 8 184 2.75e-41 147
MsaG025511 MtrunA17_Chr1g0185131 63.636 99 36 0 7 105 30 128 4.35e-40 142
MsaG025511 MtrunA17_Chr4g0071051 64.894 94 33 0 6 99 98 191 8.75e-40 143
MsaG025511 MtrunA17_Chr4g0039891 40.000 200 88 3 9 208 12 179 3.42e-39 143
MsaG025511 MtrunA17_Chr8g0378061 56.757 111 45 1 10 117 23 133 1.77e-38 141
MsaG025511 MtrunA17_Chr3g0135831 56.481 108 45 1 6 113 43 148 1.05e-37 137
MsaG025511 MtrunA17_Chr2g0284481 40.426 188 79 4 9 193 15 172 1.06e-37 137
MsaG025511 MtrunA17_Chr1g0204741 35.961 203 116 3 6 208 37 225 2.60e-37 134
MsaG025511 MtrunA17_Chr2g0330821 59.615 104 42 0 6 109 76 179 4.51e-37 134
MsaG025511 MtrunA17_Chr6g0485571 58.824 102 42 0 1 102 3 104 9.41e-37 134
MsaG025511 MtrunA17_Chr4g0047421 51.852 108 46 2 6 109 30 135 5.46e-35 125
MsaG025511 MtrunA17_Chr8g0392001 44.382 178 65 5 8 181 21 168 2.57e-34 127
MsaG025511 MtrunA17_Chr1g0179321 62.121 66 25 0 3 68 43 108 9.54e-23 90.5
MsaG025511 MtrunA17_Chr4g0023771 55.385 65 29 0 2 66 8 72 2.83e-17 75.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025511 AT4G36990.1 50.168 297 118 7 2 287 7 284 2.34e-82 249
MsaG025511 AT5G62020.1 49.756 205 97 3 2 202 16 218 6.38e-55 180
MsaG025511 AT4G11660.1 42.125 273 111 9 2 233 52 318 1.86e-53 178
MsaG025511 AT1G46264.1 44.393 214 94 5 4 197 29 237 1.91e-53 177
MsaG025511 AT2G41690.1 45.652 184 94 2 7 190 38 215 1.28e-48 162
MsaG025511 AT1G32330.1 49.432 176 65 2 6 181 34 185 7.76e-47 164
MsaG025511 AT1G32330.2 50.000 176 64 3 6 181 34 185 8.79e-47 163
MsaG025511 AT4G17750.1 69.388 98 30 0 5 102 48 145 4.13e-44 156
MsaG025511 AT2G26150.1 40.306 196 93 2 5 194 40 217 6.93e-42 147
MsaG025511 AT2G26150.4 40.306 196 93 2 5 194 40 217 6.93e-42 147
MsaG025511 AT3G22830.1 38.318 214 124 3 5 217 57 263 1.41e-41 148
MsaG025511 AT4G13980.1 62.000 100 38 0 10 109 24 123 9.33e-41 147
MsaG025511 AT3G02990.1 40.234 256 114 8 5 258 19 237 1.41e-40 147
MsaG025511 AT3G24520.1 38.426 216 83 4 8 216 16 188 1.65e-39 140
MsaG025511 AT5G16820.1 69.565 92 28 0 9 100 27 118 2.74e-39 143
MsaG025511 AT5G16820.2 69.565 92 28 0 9 100 27 118 2.74e-39 143
MsaG025511 AT5G43840.1 56.881 109 47 0 5 113 15 123 8.16e-39 137
MsaG025511 AT3G51910.1 58.654 104 42 1 6 109 26 128 4.36e-38 135
MsaG025511 AT5G03720.2 41.711 187 83 3 9 189 55 221 3.27e-37 136
MsaG025511 AT5G03720.1 41.711 187 83 3 9 189 55 221 3.27e-37 136
MsaG025511 AT5G54070.1 60.870 92 36 0 8 99 70 161 1.07e-36 133
MsaG025511 AT3G63350.1 57.732 97 41 0 3 99 22 118 7.05e-35 127
MsaG025511 AT1G67970.1 59.804 102 39 2 8 108 18 118 3.87e-33 125
MsaG025511 AT4G18880.1 55.172 116 52 0 5 120 11 126 6.69e-33 125
MsaG025511 AT5G45710.3 41.146 192 77 3 5 193 9 167 8.38e-33 123
MsaG025511 AT5G45710.1 41.146 192 77 3 5 193 9 167 8.38e-33 123
MsaG025511 AT4G18870.1 44.565 92 51 0 5 96 142 233 2.88e-22 94.4
MsaG025511 AT4G18870.1 45.745 94 46 3 5 96 9 99 6.99e-20 87.8
MsaG025511 AT1G77570.1 40.909 88 47 3 10 93 27 113 1.25e-13 67.4

Find 48 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAAAGCTTGTGCCAGATAAA+TGG 0.251473 5:+9317830 MsaT025511.1:CDS
TTTGCAAATTCCCATTTATC+TGG 0.289664 5:-9317841 None:intergenic
TTGTTGTGCTTAAAATATTT+AGG 0.304096 5:-9316417 None:intergenic
GTTTGAAATTGTTTGGTGTT+TGG 0.347895 5:+9318298 MsaT025511.1:CDS
GGATCCTGCTCCGTCGTTGC+CGG 0.352068 5:-9317992 None:intergenic
ATTTATCTGGCACAAGCTTT+CGG 0.357484 5:-9317828 None:intergenic
CCGTCGTTGCCGGAGTTTGA+TGG 0.360239 5:-9317982 None:intergenic
CGAAACCTTGAGTTGTGAAT+TGG 0.361410 5:+9318122 MsaT025511.1:CDS
GTTGGTGAAGTTGAAGAAAA+TGG 0.365129 5:+9318267 MsaT025511.1:CDS
GTTGTTGTTTCCACTGATCC+AGG 0.401148 5:-9318045 None:intergenic
CTCGATAAGTTAACATATTG+AGG 0.405483 5:-9318072 None:intergenic
ATTATGCGATCGATTTGATC+TGG 0.408543 5:-9318207 None:intergenic
AGAGATTGTTTGAAATTGTT+TGG 0.415249 5:+9318291 MsaT025511.1:CDS
GAGGCCCACCATAGCTCAAT+TGG 0.429636 5:-9318377 None:intergenic
TGAGTTGGAGGAAGAGGTTG+AGG 0.450915 5:-9318016 None:intergenic
AAAGCTTGTGCCAGATAAAT+GGG 0.453955 5:+9317831 MsaT025511.1:CDS
AATGTCGCAGCGGTCGGCGC+CGG 0.469760 5:+9316269 None:intergenic
ACAACCGTCGTCACAACCCC+TGG 0.491280 5:+9317927 MsaT025511.1:CDS
TCTAAAAGACAATTTAAATG+TGG 0.501767 5:+9318182 MsaT025511.1:CDS
CTAAAAGACAATTTAAATGT+GGG 0.505450 5:+9318183 MsaT025511.1:CDS
TATCGGTGAGGAGGTGTTTG+TGG 0.509612 5:-9317882 None:intergenic
AACTCCGGCAACGACGGAGC+AGG 0.525429 5:+9317988 MsaT025511.1:CDS
GTTGGAGGAAGAGGTTGAGG+TGG 0.526221 5:-9318013 None:intergenic
GAAATAAGCAATAAGAAGAG+AGG 0.527898 5:+9318345 MsaT025511.1:CDS
TTGTTGTTTCCACTGATCCA+GGG 0.529235 5:-9318044 None:intergenic
TGGTGGGCCTCGAGCTAAAG+TGG 0.533968 5:+9318389 MsaT025511.1:CDS
ACGTGCCAATTCACAACTCA+AGG 0.543571 5:-9318127 None:intergenic
CGACGGATGATGTGATATCA+TGG 0.550146 5:+9316334 MsaT025511.1:CDS
GCTTCCAGGGGTTGTGACGA+CGG 0.568930 5:-9317931 None:intergenic
TTGTGACGACGGTTGTGAGA+TGG 0.569926 5:-9317920 None:intergenic
GACAACTCTCCATCAAACTC+CGG 0.573360 5:+9317973 MsaT025511.1:CDS
CCATCAAACTCCGGCAACGA+CGG 0.576121 5:+9317982 MsaT025511.1:CDS
GTTGTGAACATGATGAAAAG+TGG 0.578148 5:+9318444 MsaT025511.1:CDS
TTTGTTGAAGACGTATCAGA+TGG 0.581317 5:+9316299 MsaT025511.1:CDS
AAAGAAACAATGTGAAGAGC+TGG 0.585280 5:+9318152 MsaT025511.1:CDS
TTGTTACCCACTTTAGCTCG+AGG 0.613620 5:-9318396 None:intergenic
GGCGTTTGATATCGGTGAGG+AGG 0.622756 5:-9317891 None:intergenic
GAATCTGTTCAAAATGCGGT+TGG 0.630106 5:+9318249 MsaT025511.1:CDS
GTGATATCATGGAGTGAGAG+TGG 0.634834 5:+9316345 MsaT025511.1:CDS
GAAGACCAATTGAGCTATGG+TGG 0.636764 5:+9318372 MsaT025511.1:CDS
GGTGGGCCTCGAGCTAAAGT+GGG 0.645793 5:+9318390 MsaT025511.1:CDS
TGTGAAGACCAATTGAGCTA+TGG 0.646584 5:+9318369 MsaT025511.1:CDS
GTTGAAGACGTATCAGATGG+TGG 0.648048 5:+9316302 MsaT025511.1:CDS
TTGTGAATCTGTTCAAAATG+CGG 0.658508 5:+9318245 MsaT025511.1:CDS
GAACATGATGAAAAGTGGCA+AGG 0.659767 5:+9318449 MsaT025511.1:CDS
GCAAACGAAAATTTCAAACG+AGG 0.682155 5:+9317859 MsaT025511.1:CDS
TGCGGCGTTTGATATCGGTG+AGG 0.683931 5:-9317894 None:intergenic
AAGACCAATTGAGCTATGGT+GGG 0.693450 5:+9318373 MsaT025511.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 9316270 9318482 9316270 ID=MsaG025511
Chr5 mRNA 9316270 9318482 9316270 ID=MsaT025511.1;Parent=MsaG025511
Chr5 exon 9316270 9316473 9316270 ID=MsaT025511.1.exon1;Parent=MsaT025511.1
Chr5 CDS 9316270 9316473 9316270 ID=cds.MsaT025511.1;Parent=MsaT025511.1
Chr5 exon 9317823 9318482 9317823 ID=MsaT025511.1.exon2;Parent=MsaT025511.1
Chr5 CDS 9317823 9318482 9317823 ID=cds.MsaT025511.1;Parent=MsaT025511.1
Gene Sequence

>MsaT025511.1

ATGTCGCAGCGGTCGGCGCCGGCGCCGTTTTTGTTGAAGACGTATCAGATGGTGGATGATTTTGCGACGGATGATGTGATATCATGGAGTGAGAGTGGTGAAAGTTTTGTTGTGTGGAAACATGCTGATTTTGCAAGGGATTTGCTTCCTAAATATTTTAAGCACAACAATTTCTCTAGCTTTGTTCGTCAGCTCAATACTTATGGTTTCCGAAAGCTTGTGCCAGATAAATGGGAATTTGCAAACGAAAATTTCAAACGAGGCCACAAACACCTCCTCACCGATATCAAACGCCGCAAAACCATCTCACAACCGTCGTCACAACCCCTGGAAGCTGAAAAAATCAGCATCAATGACAACTCTCCATCAAACTCCGGCAACGACGGAGCAGGATCCACCTCAACCTCTTCCTCCAACTCAAAAAACCCTGGATCAGTGGAAACAACAACACTTCCTCAATATGTTAACTTATCGAGCGAAAATGAGAAACTAAAAAAAGACAACGAAACCTTGAGTTGTGAATTGGCACGTGCAAAGAAACAATGTGAAGAGCTGGTGACTTTTCTAAAAGACAATTTAAATGTGGGTCCAGATCAAATCGATCGCATAATGAAGCAACAAGAAAATTGTGAATCTGTTCAAAATGCGGTTGGTGAAGTTGAAGAAAATGGAAGAGATTGTTTGAAATTGTTTGGTGTTTGGTTGAAAGAAGAAAATTACACAAAAGAAATAAGCAATAAGAAGAGAGGTTGTGAAGACCAATTGAGCTATGGTGGGCCTCGAGCTAAAGTGGGTAACAATGTTGTTGACTTTAGTGCTGTTAATGTTGTGAACATGATGAAAAGTGGCAAGGTTTGTAACTGA
Protein sequence

>MsaT025511.1

MSQRSAPAPFLLKTYQMVDDFATDDVISWSESGESFVVWKHADFARDLLPKYFKHNNFSSFVRQLNTYGFRKLVPDKWEFANENFKRGHKHLLTDIKRRKTISQPSSQPLEAEKISINDNSPSNSGNDGAGSTSTSSSNSKNPGSVETTTLPQYVNLSSENEKLKKDNETLSCELARAKKQCEELVTFLKDNLNVGPDQIDRIMKQQENCESVQNAVGEVEENGRDCLKLFGVWLKEENYTKEISNKKRGCEDQLSYGGPRAKVGNNVVDFSAVNVVNMMKSGKVCN*