AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG005363

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005363 MtrunA17_Chr1g0207451 80.212 283 17 9 3 279 2 251 6.02e-145 406
MsaG005363 MtrunA17_Chr3g0134711 46.014 276 98 12 4 273 1 231 1.00e-54 177
MsaG005363 MtrunA17_Chr1g0152661 45.415 229 67 9 55 270 38 221 9.26e-46 154
MsaG005363 MtrunA17_Chr4g0012791 32.000 200 72 5 41 176 136 335 1.63e-20 90.9
MsaG005363 MtrunA17_Chr7g0263121 43.966 116 49 4 60 175 15 114 2.96e-20 85.5
MsaG005363 MtrunA17_Chr7g0231181 31.188 202 86 5 55 227 164 341 4.12e-19 85.9
MsaG005363 MtrunA17_Chr4g0012691 35.664 143 73 4 94 225 212 346 4.63e-19 85.9
MsaG005363 MtrunA17_Chr1g0182161 36.257 171 79 8 65 225 1 151 2.26e-16 75.1
MsaG005363 MtrunA17_Chr7g0222831 34.074 135 66 3 60 192 12 125 1.78e-15 72.8
MsaG005363 MtrunA17_Chr1g0180311 31.980 197 91 6 60 224 81 266 3.53e-15 73.9
MsaG005363 MtrunA17_Chr5g0448611 38.532 109 31 2 104 179 132 237 5.63e-15 73.2
MsaG005363 MtrunA17_Chr5g0425411 43.182 88 36 2 104 177 121 208 7.08e-15 72.4
MsaG005363 MtrunA17_Chr7g0263131 46.914 81 38 3 102 181 34 110 7.33e-15 70.9
MsaG005363 MtrunA17_Chr1g0212561 42.553 94 50 1 103 196 46 135 1.13e-14 71.2
MsaG005363 MtrunA17_Chr1g0197281 28.837 215 97 6 56 224 97 301 2.35e-14 72.4
MsaG005363 MtrunA17_Chr4g0056091 32.768 177 84 7 57 227 158 305 4.60e-14 71.2
MsaG005363 MtrunA17_Chr1g0182181 37.864 103 55 3 77 175 8 105 1.94e-13 67.0
MsaG005363 MtrunA17_Chr4g0061301 41.818 110 26 5 103 175 349 457 6.64e-13 68.6
MsaG005363 MtrunA17_Chr2g0327901 43.836 73 29 1 103 175 35 95 4.53e-12 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005363 AT1G27730.1 41.667 276 94 13 4 269 1 219 2.71e-46 155
MsaG005363 AT3G19580.1 42.979 235 88 10 55 279 66 264 4.58e-43 148
MsaG005363 AT3G19580.2 42.979 235 88 10 55 279 66 264 4.58e-43 148
MsaG005363 AT3G49930.1 52.381 147 55 4 37 176 34 172 2.47e-38 134
MsaG005363 AT5G67450.1 39.683 252 105 9 4 223 1 237 2.71e-38 135
MsaG005363 AT5G04340.1 40.000 240 96 8 41 269 30 232 2.24e-37 132
MsaG005363 AT5G43170.1 39.004 241 79 12 4 232 1 185 5.00e-30 112
MsaG005363 AT3G60580.1 36.022 186 93 3 55 234 122 287 1.01e-25 103
MsaG005363 AT2G45120.1 36.872 179 81 6 55 224 146 301 6.84e-24 99.0
MsaG005363 AT1G49900.1 35.047 214 109 8 44 230 117 327 3.62e-22 96.7
MsaG005363 AT1G49900.1 38.298 141 75 4 97 231 745 879 1.87e-21 94.4
MsaG005363 AT1G02030.1 33.146 178 83 4 50 227 118 259 2.44e-20 88.2
MsaG005363 AT2G28200.1 32.124 193 103 4 56 224 73 261 1.43e-19 86.7
MsaG005363 AT5G03510.1 33.333 204 93 6 56 227 69 261 4.60e-19 85.1
MsaG005363 AT5G56200.1 47.312 93 31 3 102 176 342 434 1.92e-17 82.4
MsaG005363 AT2G37430.1 37.931 116 56 2 60 175 17 116 1.54e-16 75.9
MsaG005363 AT3G53600.1 37.288 118 55 3 64 180 21 120 3.84e-16 74.7
MsaG005363 AT5G04390.1 29.741 232 96 7 56 227 96 320 4.01e-16 77.8
MsaG005363 AT2G17180.1 35.036 137 57 5 54 177 118 235 5.45e-16 76.3
MsaG005363 AT1G02040.1 29.412 204 99 6 9 176 54 248 7.29e-16 76.6
MsaG005363 AT4G35280.1 36.641 131 52 4 56 177 138 246 1.29e-14 72.8
MsaG005363 AT2G28710.1 49.315 73 28 2 104 175 36 100 2.03e-14 69.7
MsaG005363 AT3G10470.1 36.275 102 37 2 102 175 182 283 2.51e-14 72.8
MsaG005363 AT5G61470.1 38.158 76 40 2 102 176 228 297 6.01e-12 65.1
MsaG005363 AT3G46070.1 33.636 110 71 2 66 175 1 108 1.00e-11 62.8
MsaG005363 AT3G46080.1 46.053 76 32 2 103 175 38 107 3.06e-11 61.2
MsaG005363 AT5G59820.1 44.444 72 32 1 104 175 41 104 3.42e-11 60.8
MsaG005363 AT3G46090.1 45.946 74 33 2 103 175 41 108 4.22e-11 60.8

Find 70 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACATTAATCTTGGTCTTCT+TGG 0.185197 1:-80579766 None:intergenic
GGAACACTCGTGCATCTTTC+CGG 0.244557 1:-80579496 None:intergenic
TACCTCTTGTTCATTGATTC+CGG 0.301905 1:-80579796 None:intergenic
CGTTGACGGTTGTGGATTGA+TGG 0.305053 1:-80579443 None:intergenic
GATTCATGAACGTGAGTCTT+TGG 0.319967 1:+80579146 MsaT005363.1:CDS
AACGGTGTCGTTGACGGTTG+TGG 0.349088 1:-80579451 None:intergenic
GGCGAGATTAACATTAATCT+TGG 0.353029 1:-80579775 None:intergenic
CGTTGCCGGTAACCGCTAAA+AGG 0.357837 1:+80579826 MsaT005363.1:CDS
TTCTGGTCTCCGGTTGGATT+CGG 0.364389 1:+80579732 MsaT005363.1:CDS
CAGCGCCTCTCACTGAATTC+TGG 0.379619 1:+80579715 MsaT005363.1:CDS
CGATCAAAACGGCCGCGTAT+TGG 0.396652 1:+80579180 MsaT005363.1:CDS
AGAGGTAGAAAGTCCGTTGC+CGG 0.419568 1:+80579812 MsaT005363.1:CDS
TGATGACGATTTACGGTGGC+TGG 0.428675 1:-80579415 None:intergenic
CCACCAAGTGCTTGATAAGA+TGG 0.436761 1:-80579384 None:intergenic
AGGAAAACTCTTGTGACAAA+TGG 0.437929 1:-80579517 None:intergenic
GCTTTGAATTCTTCTCCAAC+AGG 0.439849 1:+80579072 MsaT005363.1:CDS
TGATTCAGCTTCACCGGTGA+TGG 0.447494 1:-80579333 None:intergenic
CGTTTCATCATTGTCTTCAC+CGG 0.478246 1:-80579862 None:intergenic
AACAGAAACGGTGTCGTTGA+CGG 0.479133 1:-80579457 None:intergenic
CACTTGTGATTCAGCTTCAC+CGG 0.486794 1:-80579339 None:intergenic
TGGTGTTTGAAGCGTGGGAA+TGG 0.489183 1:-80579105 None:intergenic
CCATCTTATCAAGCACTTGG+TGG 0.494016 1:+80579384 MsaT005363.1:CDS
GTCAAATCCACGGTGGCTGA+TGG 0.494460 1:-80579682 None:intergenic
CTCGTGCATCTTTCCGGTGA+CGG 0.496027 1:-80579490 None:intergenic
TTCCCATCTTATCAAGCACT+TGG 0.496098 1:+80579381 MsaT005363.1:CDS
TCTCCACCACCGAATCCAAC+CGG 0.506094 1:-80579741 None:intergenic
ATCACAGTCTCCGACGGCGG+CGG 0.508871 1:+80579648 MsaT005363.1:CDS
TTTCCTACCGGTCAAGCTCT+CGG 0.514138 1:+80579534 MsaT005363.1:CDS
GGAGGACGCGCCGCCGCCGT+CGG 0.514572 1:-80579658 None:intergenic
ACTGAATTCTGGTCTCCGGT+TGG 0.515567 1:+80579726 MsaT005363.1:CDS
TCTCACTGAATTCTGGTCTC+CGG 0.517672 1:+80579722 MsaT005363.1:CDS
GATATTCTTCTTCAGTGGGT+GGG 0.517674 1:-80579206 None:intergenic
CAGAATTCAGTGAGAGGCGC+TGG 0.519958 1:-80579714 None:intergenic
AGATATTCTTCTTCAGTGGG+TGG 0.522083 1:-80579207 None:intergenic
GTTTCCGTCTCAACCGTCAC+CGG 0.524129 1:+80579477 MsaT005363.1:CDS
TCTCCGGTTGGATTCGGTGG+TGG 0.527155 1:+80579738 MsaT005363.1:CDS
GTGTCCACCGAGAGCTTGAC+CGG 0.527574 1:-80579541 None:intergenic
CGGTGAAGACAATGATGAAA+CGG 0.533105 1:+80579863 MsaT005363.1:CDS
AAGATTAATGTTAATCTCGC+CGG 0.533608 1:+80579777 MsaT005363.1:CDS
GTTGCAGTCGCCGCCATCAC+CGG 0.540954 1:+80579320 MsaT005363.1:CDS
TATTGATGACTCCTTCATAG+TGG 0.543203 1:-80579572 None:intergenic
CACAAACGATGCCACTATGA+AGG 0.543347 1:+80579561 MsaT005363.1:CDS
TCCACGGTGGCTGATGGAGG+AGG 0.543367 1:-80579676 None:intergenic
GTTGTTGGTGTTTGAAGCGT+GGG 0.544969 1:-80579110 None:intergenic
AGCGAGATATTCTTCTTCAG+TGG 0.552258 1:-80579211 None:intergenic
GGTTGAGACGGAAACAGAAA+CGG 0.552561 1:-80579469 None:intergenic
CTTTCCGGTGACGGTTGAGA+CGG 0.558965 1:-80579481 None:intergenic
GCGAGATATTCTTCTTCAGT+GGG 0.560158 1:-80579210 None:intergenic
TGGTCTCCGGTTGGATTCGG+TGG 0.560623 1:+80579735 MsaT005363.1:CDS
GGTGATGGCGGCGACTGCAA+CGG 0.560799 1:-80579318 None:intergenic
TGAGAGGCGCTGGTAAATTG+AGG 0.568160 1:-80579704 None:intergenic
CACCAAGTGCTTGATAAGAT+GGG 0.573814 1:-80579383 None:intergenic
TTCAGCTTCACCGGTGATGG+CGG 0.589012 1:-80579330 None:intergenic
CGCCGGAATCAATGAACAAG+AGG 0.596526 1:+80579794 MsaT005363.1:CDS
AAATCCACGGTGGCTGATGG+AGG 0.597416 1:-80579679 None:intergenic
AATGGAATAGTAGCTCCTGT+TGG 0.598789 1:-80579087 None:intergenic
CAAAGCTTGTAACTCTAAAG+CGG 0.606121 1:-80579055 None:intergenic
CCACCGAGAGCTTGACCGGT+AGG 0.606411 1:-80579537 None:intergenic
AGCGGAATCACAGTCTCCGA+CGG 0.609902 1:+80579642 MsaT005363.1:CDS
TGTTGTTGGTGTTTGAAGCG+TGG 0.617744 1:-80579111 None:intergenic
GGAATCACAGTCTCCGACGG+CGG 0.629807 1:+80579645 MsaT005363.1:CDS
TCCTCCTCCATCAGCCACCG+TGG 0.642688 1:+80579675 MsaT005363.1:CDS
GTAAATTGAGGTCAAATCCA+CGG 0.651066 1:-80579692 None:intergenic
AGCAACGTCAATAACAGCAG+CGG 0.671478 1:+80579624 MsaT005363.1:CDS
CCTACCGGTCAAGCTCTCGG+TGG 0.673339 1:+80579537 MsaT005363.1:CDS
GGAGACCAGAATTCAGTGAG+AGG 0.681730 1:-80579720 None:intergenic
GTGGGTGGGTTACCAATACG+CGG 0.720792 1:-80579192 None:intergenic
TTTCTGATGACGATTTACGG+TGG 0.728949 1:-80579419 None:intergenic
TCTTCACCGGAAAACAAACG+CGG 0.774869 1:-80579849 None:intergenic
AATTGAGGTCAAATCCACGG+TGG 0.794635 1:-80579689 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 80579051 80579890 80579051 ID=MsaG005363
Chr1 mRNA 80579051 80579890 80579051 ID=MsaT005363.1;Parent=MsaG005363
Chr1 exon 80579051 80579890 80579051 ID=MsaT005363.1.exon1;Parent=MsaT005363.1
Chr1 CDS 80579051 80579890 80579051 ID=cds.MsaT005363.1;Parent=MsaT005363.1
Gene Sequence

>MsaT005363.1

ATGGCCGCTTTAGAGTTACAAGCTTTGAATTCTTCTCCAACAGGAGCTACTATTCCATTCCCACGCTTCAAACACCAACAACAAGAAAATCAAGAGATTCATGAACGTGAGTCTTTGGTCAAAAAGAAACGATCAAAACGGCCGCGTATTGGTAACCCACCCACTGAAGAAGAATATCTCGCTCTCTGTCTCATCATGCTCTCTCAAAGCAACAACAACGAAAAAATCAACATCTCTGAATCATCATCTTCACAACAACAACAACAACCGTTGCAGTCGCCGCCATCACCGGTGAAGCTGAATCACAAGTGCAGTGTTTGCAACAAAGCTTTCCCATCTTATCAAGCACTTGGTGGTCACAAAGCCAGCCACCGTAAATCGTCATCAGAAAACCATCAATCCACAACCGTCAACGACACCGTTTCTGTTTCCGTCTCAACCGTCACCGGAAAGATGCACGAGTGTTCCATTTGTCACAAGAGTTTTCCTACCGGTCAAGCTCTCGGTGGACACAAACGATGCCACTATGAAGGAGTCATCAATAACAGCAATCATAATCATAATAACAGTAACAGCAACGTCAATAACAGCAGCGGAATCACAGTCTCCGACGGCGGCGGCGCGTCCTCCTCCATCAGCCACCGTGGATTTGACCTCAATTTACCAGCGCCTCTCACTGAATTCTGGTCTCCGGTTGGATTCGGTGGTGGAGATTCCAAGAAGACCAAGATTAATGTTAATCTCGCCGGAATCAATGAACAAGAGGTAGAAAGTCCGTTGCCGGTAACCGCTAAAAGGCCGCGTTTGTTTTCCGGTGAAGACAATGATGAAACGGTGTAG
Protein sequence

>MsaT005363.1

MAALELQALNSSPTGATIPFPRFKHQQQENQEIHERESLVKKKRSKRPRIGNPPTEEEYLALCLIMLSQSNNNEKINISESSSSQQQQQPLQSPPSPVKLNHKCSVCNKAFPSYQALGGHKASHRKSSSENHQSTTVNDTVSVSVSTVTGKMHECSICHKSFPTGQALGGHKRCHYEGVINNSNHNHNNSNSNVNNSSGITVSDGGGASSSISHRGFDLNLPAPLTEFWSPVGFGGGDSKKTKINVNLAGINEQEVESPLPVTAKRPRLFSGEDNDETV*