AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG036920

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036920 MtrunA17_Chr7g0231181 97.050 339 7 1 1 336 23 361 0.0 671
MsaG036920 MtrunA17_Chr4g0056091 41.581 291 128 8 47 330 60 315 1.27e-56 186
MsaG036920 MtrunA17_Chr4g0012691 44.697 396 114 17 1 334 24 376 2.06e-53 179
MsaG036920 MtrunA17_Chr4g0061301 39.241 158 53 4 205 321 340 495 6.91e-25 105
MsaG036920 MtrunA17_Chr5g0399261 37.438 203 95 7 38 237 71 244 4.69e-24 99.4
MsaG036920 MtrunA17_Chr1g0182161 41.880 117 53 4 215 317 39 154 4.85e-21 88.6
MsaG036920 MtrunA17_Chr7g0263131 40.136 147 70 9 188 319 6 149 5.46e-21 88.2
MsaG036920 MtrunA17_Chr1g0207451 36.628 172 77 8 176 316 29 199 1.24e-19 86.7
MsaG036920 MtrunA17_Chr4g0012791 31.624 234 88 7 144 315 159 382 1.74e-19 89.0
MsaG036920 MtrunA17_Chr2g0327901 35.664 143 68 5 187 319 1 129 3.81e-18 79.7
MsaG036920 MtrunA17_Chr3g0134711 38.889 162 71 6 185 320 57 216 1.32e-17 80.9
MsaG036920 MtrunA17_Chr7g0263121 39.474 114 57 5 215 317 44 156 4.94e-17 77.8
MsaG036920 MtrunA17_Chr1g0152661 33.155 187 80 7 141 312 37 193 1.74e-16 77.4
MsaG036920 MtrunA17_Chr1g0182181 38.583 127 60 6 215 326 35 158 3.60e-16 75.1
MsaG036920 MtrunA17_Chr5g0425411 41.176 102 40 3 214 295 118 219 5.63e-16 76.3
MsaG036920 MtrunA17_Chr7g0222831 40.367 109 53 4 181 283 6 108 1.35e-15 73.9
MsaG036920 MtrunA17_Chr4g0027991 33.133 166 56 4 215 327 113 276 3.28e-15 75.1
MsaG036920 MtrunA17_Chr4g0018761 26.752 314 144 12 1 313 26 254 9.94e-15 73.2
MsaG036920 MtrunA17_Chr4g0043071 52.459 61 21 2 261 316 441 498 4.11e-14 73.2
MsaG036920 MtrunA17_Chr1g0212561 42.683 82 38 2 207 283 41 118 1.50e-13 68.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036920 AT3G60580.1 43.505 331 111 11 1 322 23 286 3.91e-58 189
MsaG036920 AT2G45120.1 43.072 332 135 11 1 322 23 310 7.13e-50 169
MsaG036920 AT1G02030.1 40.071 282 108 10 57 320 25 263 4.32e-34 126
MsaG036920 AT3G53600.1 38.760 129 66 4 215 333 49 174 1.41e-21 90.5
MsaG036920 AT3G19580.1 31.019 216 79 7 140 319 64 245 2.34e-21 92.4
MsaG036920 AT3G19580.2 31.019 216 79 7 140 319 64 245 2.34e-21 92.4
MsaG036920 AT2G37430.1 42.623 122 44 6 214 317 46 159 1.24e-18 82.8
MsaG036920 AT2G28200.1 34.416 154 45 5 215 316 115 264 3.57e-18 83.6
MsaG036920 AT5G61470.1 46.667 75 40 0 211 285 224 298 1.12e-17 82.8
MsaG036920 AT5G43170.1 35.333 150 51 3 142 291 45 148 2.94e-17 79.3
MsaG036920 AT4G35280.1 36.719 128 57 4 214 327 161 278 1.03e-16 79.7
MsaG036920 AT1G49900.1 47.887 71 35 1 215 283 750 820 1.74e-16 81.3
MsaG036920 AT1G49900.1 44.000 75 36 1 215 283 193 267 7.22e-14 73.2
MsaG036920 AT5G03510.1 28.571 266 122 8 96 316 19 261 2.12e-16 79.0
MsaG036920 AT2G28710.1 38.333 120 53 6 215 319 34 147 4.09e-16 75.1
MsaG036920 AT2G17180.1 38.017 121 48 3 214 317 147 257 1.92e-15 75.9
MsaG036920 AT3G49930.1 41.739 115 47 4 215 320 94 197 1.98e-15 74.7
MsaG036920 AT1G27730.1 33.654 208 63 9 140 319 48 208 3.19e-15 74.3
MsaG036920 AT5G67450.1 40.217 92 30 2 215 283 97 186 3.28e-15 74.7
MsaG036920 AT3G46090.1 41.739 115 42 6 215 310 40 148 3.59e-15 72.8
MsaG036920 AT5G59820.1 53.623 69 29 2 215 283 39 104 4.37e-15 72.4
MsaG036920 AT1G26610.1 59.016 61 20 2 259 316 397 455 5.70e-15 75.9
MsaG036920 AT3G46080.1 47.368 76 28 3 215 283 37 107 1.46e-14 70.9
MsaG036920 AT5G04340.1 41.176 85 31 2 215 283 89 170 9.82e-14 70.5
MsaG036920 AT3G46070.1 42.308 78 40 2 211 283 31 108 3.95e-13 67.0
MsaG036920 AT4G16610.1 38.462 117 57 3 43 157 52 155 1.61e-12 66.2

Find 37 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATGAAAAGGGTCTTAATTA+TGG 0.258113 7:-47541102 MsaT036920.1:CDS
ACGAGACGAATGCTTCTCTT+TGG 0.315457 7:+47541066 None:intergenic
AATTGAAATCGAAAGATCTT+TGG 0.317289 7:-47540677 MsaT036920.1:CDS
AAAAGAACACATGTGATTCA+TGG 0.392470 7:-47540391 MsaT036920.1:CDS
AGATGATGACGTTGATGAAA+AGG 0.399134 7:-47541115 MsaT036920.1:CDS
CTAACTTCATCATCATCAAT+TGG 0.412597 7:+47540292 None:intergenic
ACAAAATGCAACATCTTCTT+CGG 0.417782 7:+47540801 None:intergenic
TTCAAATCTTATCAAGCATT+GGG 0.429788 7:-47540559 MsaT036920.1:CDS
GCATCAGAAACCGAACTAAC+AGG 0.435004 7:+47540829 None:intergenic
GTTCAAATCTTATCAAGCAT+TGG 0.444666 7:-47540560 MsaT036920.1:CDS
CTTCTTGCTTTGTAACAAGA+AGG 0.459791 7:+47541208 None:intergenic
TGAACATGAACCTGTTAGTT+CGG 0.475159 7:-47540839 MsaT036920.1:CDS
GATTCTTCCACCGTTATGTT+CGG 0.482402 7:+47540505 None:intergenic
GATGATGACGTTGATGAAAA+GGG 0.491203 7:-47541114 MsaT036920.1:CDS
TGCAGTTGTCGAGAGACAAA+TGG 0.497909 7:-47540774 MsaT036920.1:CDS
AAAGAAAGTTCATGAATGTC+CGG 0.517315 7:-47540458 MsaT036920.1:CDS
AATAATAATAAAGTACGTAA+AGG 0.519533 7:-47540613 MsaT036920.1:CDS
TTTAATTCGGGTCAAGCACT+TGG 0.525463 7:-47540421 MsaT036920.1:CDS
CAACTCGGAAAAGATCCAAA+AGG 0.530550 7:-47540954 MsaT036920.1:CDS
AAAGGGTGTGGAAAATTCGC+GGG 0.538446 7:-47540936 MsaT036920.1:CDS
TGATGACGACGAAGCTGAAG+AGG 0.541596 7:-47540710 MsaT036920.1:CDS
AATTCGGGTCAAGCACTTGG+TGG 0.548431 7:-47540418 MsaT036920.1:CDS
ACAGAACTTGTATCCACTTG+TGG 0.549151 7:+47541024 None:intergenic
AACTCGGAAAAGATCCAAAA+GGG 0.553686 7:-47540953 MsaT036920.1:CDS
TCATCATCATCAATTGGAGC+AGG 0.554191 7:+47540298 None:intergenic
AAAAGGGTGTGGAAAATTCG+CGG 0.559838 7:-47540937 MsaT036920.1:CDS
GGAAAAGATCCAAAAGGGTG+TGG 0.567774 7:-47540948 MsaT036920.1:CDS
GAAGATTAAACCGAACATAA+CGG 0.578318 7:-47540515 MsaT036920.1:CDS
CATCGAAGAATAATCCAACT+CGG 0.596368 7:-47540969 MsaT036920.1:CDS
TTAAATACTCGAAAACATAC+CGG 0.600102 7:+47540439 None:intergenic
ATAATAAAGTACGTAAAGGA+AGG 0.605908 7:-47540609 MsaT036920.1:CDS
CATCATCAATTGGAGCAGGA+AGG 0.614177 7:+47540302 None:intergenic
AAATCTTATCAAGCATTGGG+TGG 0.639931 7:-47540556 MsaT036920.1:CDS
AGAAGAAGAATCATCGCGAA+CGG 0.649326 7:-47541190 MsaT036920.1:CDS
TCTGATGACGATGATGAAGA+CGG 0.688378 7:+47541138 None:intergenic
GATTAAACCGAACATAACGG+TGG 0.692339 7:-47540512 MsaT036920.1:CDS
AAATGAACAATATGAAGACG+TGG 0.705726 7:-47540743 MsaT036920.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 47540240 47541250 47540240 ID=MsaG036920
Chr7 mRNA 47540240 47541250 47540240 ID=MsaT036920.1;Parent=MsaG036920
Chr7 exon 47540240 47541250 47540240 ID=MsaT036920.1.exon1;Parent=MsaT036920.1
Chr7 CDS 47540240 47541250 47540240 ID=cds.MsaT036920.1;Parent=MsaT036920.1
Gene Sequence

>MsaT036920.1

ATGAGATCTCATATGATGAACCTTCTTGTTACAAAGCAAGAAGAAGAATCATCGCGAACGGTTCAACTTAGTTTTGAAGCTGAATCAGCACCGTCTTCATCATCGTCATCAGAAGATGATGACGTTGATGAAAAGGGTCTTAATTATGGTCTTAGAGAGAATCCAAAGAGAAGCATTCGTCTCGTAGATCAAGAGTTTTCTTTTCCACAAGTGGATACAAGTTCTGTTATTGTTCAAGATATAGAAAGCGAAACTGAATCATCGAAGAATAATCCAACTCGGAAAAGATCCAAAAGGGTGTGGAAAATTCGCGGGTTTGAACAAAAGTATTACAATGAATCTGCTACGAAGAAAATCAAATTTTTTAACAAGAATGATTCTTCGGTTGTTGAACATGAACCTGTTAGTTCGGTTTCTGATGCAACAACCGAAGAAGATGTTGCATTTTGTCTAATGCAGTTGTCGAGAGACAAATGGAATAGACAAAATGAACAATATGAAGACGTGGAAGAAGAAGATGATGACGACGAAGCTGAAGAGGAAGAAGATGAAATTGAAATCGAAAGATCTTTGGAAGATAGTGATGAATCTCAAGAGCTACTAAAAGTATGCAAGAATAATAATAAAGTACGTAAAGGAAGGTACAAATGTGAAACATGTAATAAAGTGTTCAAATCTTATCAAGCATTGGGTGGTCATAGAGCAAGTCACAAGAAGATTAAACCGAACATAACGGTGGAAGAATCGTCGCCAGAATTCGAAGTTGTTGAAAAGAAAGTTCATGAATGTCCGGTATGTTTTCGAGTATTTAATTCGGGTCAAGCACTTGGTGGACACAAAAGAACACATGTGATTCATGGATCATCATCAACAACAGTTCCAATTTTCAGCTCAAAAAGAGTTGCAAAAAGTGTTATAGATCTTAACCTTCCTGCTCCAATTGATGATGATGAAGTTAGTCAAATTGAAAATTCTGCTGTTTCTGATGCAGAATTTGTCAAAACTCGTTAA
Protein sequence

>MsaT036920.1

MRSHMMNLLVTKQEEESSRTVQLSFEAESAPSSSSSSEDDDVDEKGLNYGLRENPKRSIRLVDQEFSFPQVDTSSVIVQDIESETESSKNNPTRKRSKRVWKIRGFEQKYYNESATKKIKFFNKNDSSVVEHEPVSSVSDATTEEDVAFCLMQLSRDKWNRQNEQYEDVEEEDDDDEAEEEEDEIEIERSLEDSDESQELLKVCKNNNKVRKGRYKCETCNKVFKSYQALGGHRASHKKIKPNITVEESSPEFEVVEKKVHECPVCFRVFNSGQALGGHKRTHVIHGSSSTTVPIFSSKRVAKSVIDLNLPAPIDDDEVSQIENSAVSDAEFVKTR*