AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG001437

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001437 MtrunA17_Chr1g0163221 86.207 319 28 2 1 319 1 303 0.0 522
MsaG001437 MtrunA17_Chr4g0067431 65.244 328 101 6 1 319 1 324 4.82e-144 409
MsaG001437 MtrunA17_Chr6g0467351 65.948 232 70 2 1 229 1 226 8.84e-103 301
MsaG001437 MtrunA17_Chr1g0163061 52.453 265 77 3 1 216 1 265 2.68e-69 217
MsaG001437 MtrunA17_Chr1g0163071 30.519 308 187 8 31 320 2 300 1.74e-34 127
MsaG001437 MtrunA17_Chr1g0208771 28.276 290 191 8 31 311 13 294 4.11e-32 124
MsaG001437 MtrunA17_Chr1g0163131 29.874 318 186 11 1 299 1 300 7.46e-32 120
MsaG001437 MtrunA17_Chr7g0233561 31.250 304 164 12 13 292 16 298 8.68e-31 118
MsaG001437 MtrunA17_Chr6g0467361 66.292 89 26 3 229 314 7 94 8.18e-30 109
MsaG001437 MtrunA17_Chr3g0103181 28.387 310 178 11 7 306 4 279 1.25e-29 114
MsaG001437 MtrunA17_Chr8g0390841 27.331 311 210 9 13 315 37 339 2.29e-29 117
MsaG001437 MtrunA17_Chr1g0163261 28.620 297 182 9 15 305 9 281 1.06e-27 109
MsaG001437 MtrunA17_Chr1g0163181 29.153 295 179 10 24 305 14 291 1.17e-27 111
MsaG001437 MtrunA17_Chr1g0163251 29.965 287 174 9 24 305 14 278 1.21e-27 111
MsaG001437 MtrunA17_Chr3g0131891 29.085 306 193 9 9 306 13 302 1.58e-27 109
MsaG001437 MtrunA17_Chr1g0163201 29.195 298 179 8 21 300 9 292 8.66e-27 108
MsaG001437 MtrunA17_Chr3g0103191 27.843 255 150 8 13 261 10 236 2.28e-24 99.4
MsaG001437 MtrunA17_Chr1g0163231 27.931 290 168 8 15 294 9 267 3.38e-24 100
MsaG001437 MtrunA17_Chr7g0233541 28.417 278 170 8 31 292 2 266 6.67e-23 96.7
MsaG001437 MtrunA17_Chr7g0233521 28.358 268 166 7 31 292 2 249 9.49e-23 95.9
MsaG001437 MtrunA17_Chr1g0171611 27.972 286 161 8 15 294 9 255 1.11e-22 95.9
MsaG001437 MtrunA17_Chr1g0163101 33.333 180 96 6 1 167 1 169 3.69e-22 91.7
MsaG001437 MtrunA17_Chr3g0103171 28.421 285 170 9 31 306 6 265 4.27e-22 93.6
MsaG001437 MtrunA17_Chr5g0419201 35.638 188 102 6 1 174 1 183 2.50e-21 89.7
MsaG001437 MtrunA17_Chr3g0103151 38.000 150 81 7 13 153 10 156 3.66e-21 88.6
MsaG001437 MtrunA17_Chr7g0233531 28.253 269 165 7 31 292 2 249 4.21e-20 88.6
MsaG001437 MtrunA17_Chr7g0233571 39.130 115 69 1 13 127 8 121 3.99e-19 84.3
MsaG001437 MtrunA17_Chr1g0163121 35.938 128 68 4 29 146 9 132 8.64e-18 79.0
MsaG001437 MtrunA17_Chr6g0476181 40.171 117 62 5 31 144 2 113 1.11e-17 79.0
MsaG001437 MtrunA17_Chr1g0163081 40.625 96 53 3 31 126 6 97 8.82e-17 76.3
MsaG001437 MtrunA17_Chr1g0162161 35.570 149 74 7 31 167 4 142 3.03e-16 75.1
MsaG001437 MtrunA17_Chr3g0103201 27.459 244 139 8 74 306 4 220 8.26e-16 75.1
MsaG001437 MtrunA17_Chr1g0163191 39.640 111 57 3 24 127 14 121 1.15e-15 73.6
MsaG001437 MtrunA17_Chr3g0077451 26.408 284 143 10 29 306 10 233 2.14e-15 74.3
MsaG001437 MtrunA17_Chr1g0163241 33.929 112 71 2 31 142 23 131 6.29e-15 71.6
MsaG001437 MtrunA17_Chr1g0154131 27.451 306 165 13 13 292 182 456 8.63e-15 74.7
MsaG001437 MtrunA17_Chr1g0154151 27.304 293 173 11 30 292 19 301 1.44e-14 73.6
MsaG001437 MtrunA17_Chr3g0077411 25.704 284 169 9 12 292 259 503 6.09e-14 72.4
MsaG001437 MtrunA17_Chr3g0077411 22.930 314 153 9 2 304 12 247 5.04e-13 69.7
MsaG001437 MtrunA17_Chr5g0429931 27.437 277 154 9 31 306 11 241 1.71e-13 69.3
MsaG001437 MtrunA17_Chr1g0154161 25.413 303 168 12 13 292 28 295 2.41e-13 69.7
MsaG001437 MtrunA17_Chr3g0077461 29.651 172 107 3 14 174 236 404 3.01e-13 70.1
MsaG001437 MtrunA17_Chr3g0077461 23.476 328 206 12 31 319 23 344 1.67e-11 64.7
MsaG001437 MtrunA17_Chr3g0077431 27.347 245 113 9 68 306 9 194 4.73e-12 64.3
MsaG001437 MtrunA17_Chr1g0154171 25.392 319 191 14 13 292 21 331 6.24e-12 65.9
MsaG001437 MtrunA17_Chr1g0163141 27.419 186 102 5 29 189 9 186 2.59e-11 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001437 AT4G33280.1 24.262 305 181 8 28 306 36 316 2.18e-14 73.2
MsaG001437 AT3G18960.1 33.663 101 66 1 15 115 30 129 1.09e-12 66.6
MsaG001437 AT3G18960.2 33.663 101 66 1 15 115 30 129 1.39e-12 65.9
MsaG001437 AT1G49475.1 34.234 111 71 2 15 125 34 142 4.52e-12 64.3
MsaG001437 AT4G01580.1 31.683 101 68 1 15 115 30 129 1.80e-11 62.8

Find 36 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTTATCTTTGTCAACAAAA+AGG 0.196489 1:+20102930 None:intergenic
GAAGAGAATAATTTGAAATT+TGG 0.198679 1:-20102845 MsaT001437.1:CDS
ACTTGCAAATTATTTGTCTT+TGG 0.202067 1:-20103982 MsaT001437.1:CDS
TTTGGAAACCTTAGAGTAAC+TGG 0.256715 1:+20104077 None:intergenic
CTTCATCATCACGCGGTAAA+AGG 0.264439 1:-20103806 MsaT001437.1:CDS
CTCTTTAATGTGATTGTATT+CGG 0.267780 1:-20103918 MsaT001437.1:CDS
CTTGCAAATTATTTGTCTTT+GGG 0.314706 1:-20103981 MsaT001437.1:CDS
AAGTAGCTGTAATGATATTA+AGG 0.342032 1:-20103547 MsaT001437.1:CDS
ATATAATTACCTTCAAAATA+AGG 0.343429 1:+20102734 None:intergenic
ATCAACTCAAATGAACAAAA+AGG 0.361386 1:-20103738 MsaT001437.1:CDS
TAACAAACCCAGTTACTCTA+AGG 0.363012 1:-20104085 MsaT001437.1:CDS
ATTTCAAATTATTCTCTTCA+CGG 0.368199 1:+20102849 None:intergenic
GAGAAAATAACAACTTGAAA+TGG 0.395512 1:+20102779 None:intergenic
TTTCTCTTTGGAAAAGGACT+TGG 0.399841 1:-20102762 MsaT001437.1:CDS
TGTGTCTTAACAAATTCATT+TGG 0.404885 1:+20102986 None:intergenic
TCTTCACTAGTTTCTCTTGA+AGG 0.409404 1:+20103870 None:intergenic
CAAAGAATAATCACTCTCTT+CGG 0.410950 1:+20103845 None:intergenic
TGAATTTGTTAAGACACATA+TGG 0.433535 1:-20102981 MsaT001437.1:CDS
ATACATTGATAGAGATCTCT+TGG 0.475972 1:-20103442 MsaT001437.1:intron
ATTCGTCAAAGTACCCTTCA+AGG 0.481735 1:-20104554 MsaT001437.1:CDS
CACACTTTCATAGACGGTGC+TGG 0.484435 1:+20103774 None:intergenic
CTTCACTAGTTTCTCTTGAA+GGG 0.485568 1:+20103871 None:intergenic
TCTAAGGTTTCCAAACATGA+TGG 0.492653 1:-20104069 MsaT001437.1:CDS
TTCTTACACACTTTCATAGA+CGG 0.530584 1:+20103768 None:intergenic
TTTGTGAAAAGGTATTGGAA+AGG 0.553882 1:-20104110 MsaT001437.1:CDS
AATCTGCACTAACTTGTGGT+TGG 0.573287 1:-20102880 MsaT001437.1:CDS
TAAGACACATATGGACATGA+TGG 0.584937 1:-20102972 MsaT001437.1:CDS
AAACAATCTGCACTAACTTG+TGG 0.589005 1:-20102884 MsaT001437.1:CDS
GAACATGGTCATCAGAGTAA+TGG 0.594006 1:-20104596 MsaT001437.1:CDS
ACCATGTTCTTGAGAAGACA+TGG 0.602247 1:+20104610 None:intergenic
TTGGAAACCTTAGAGTAACT+GGG 0.606122 1:+20104078 None:intergenic
GTGATTGTATTCGGTAAATG+CGG 0.620340 1:-20103909 MsaT001437.1:CDS
ACACATATGGACATGATGGA+AGG 0.627742 1:-20102968 MsaT001437.1:CDS
AAGGATCTAAGCATGAGAAG+AGG 0.639289 1:-20103719 MsaT001437.1:CDS
ACCATGTCTTCTCAAGAACA+TGG 0.657917 1:-20104611 MsaT001437.1:CDS
GAGAATCCTTCATCATCACG+CGG 0.748401 1:-20103813 MsaT001437.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 20102730 20104630 20102730 ID=MsaG001437
Chr1 mRNA 20102730 20104630 20102730 ID=MsaT001437.1;Parent=MsaG001437
Chr1 exon 20102730 20103014 20102730 ID=MsaT001437.1.exon4;Parent=MsaT001437.1
Chr1 CDS 20102730 20103014 20102730 ID=cds.MsaT001437.1;Parent=MsaT001437.1
Chr1 exon 20103443 20103570 20103443 ID=MsaT001437.1.exon3;Parent=MsaT001437.1
Chr1 CDS 20103443 20103570 20103443 ID=cds.MsaT001437.1;Parent=MsaT001437.1
Chr1 exon 20103679 20104147 20103679 ID=MsaT001437.1.exon2;Parent=MsaT001437.1
Chr1 CDS 20103679 20104147 20103679 ID=cds.MsaT001437.1;Parent=MsaT001437.1
Chr1 exon 20104544 20104630 20104544 ID=MsaT001437.1.exon1;Parent=MsaT001437.1
Chr1 CDS 20104544 20104630 20104544 ID=cds.MsaT001437.1;Parent=MsaT001437.1
Gene Sequence

>MsaT001437.1

ATGTCTTCTCAAGAACATGGTCATCAGAGTAATGGTGTCCACTTTTTTAAGGTTATTCGTCAAAGTACCCTTCAAGGAGAAAAACTGAGTGTGCCCATAACTTTTGTGAAAAGGTATTGGAAAGGAATAACAAACCCAGTTACTCTAAGGTTTCCAAACATGATGGAAAAGAAAGTTTTTTGGGAGAAAACTAGTGATTATGATGTTACATTTTGCAATGGTTGGAAAGAACTTGCAAATTATTTGTCTTTGGGTGAATCACAATTTTTGGTGTTTCAATATCAAGAAAAGTCTCTCTTTAATGTGATTGTATTCGGTAAATGCGGATTAGAAATAAAATACCCTTCAAGAGAAACTAGTGAAGAATCCGAAGAGAGTGATTATTCTTTGAAAATTATTGAGAATCCTTCATCATCACGCGGTAAAAGGCTAAAATCTCCAGCACCGTCTATGAAAGTGTGTAAGAAGATGAAAATCAACTCAAATGAACAAAAAGGATCTAAGCATGAGAAGAGGATAGTCCCTAAATTTCATGTTTTTGAGCATGTGAACAATGGAAGTAGCTGTAATGATATTAAGGAGAGAAGTAGAATTTTGTGCCAGAAAGTGAAGAAATTTTTTGTCTCTGATAACGACTTTTTTGCATGTATGATGCTAAAGACATACATTGATAGAGATCTCTTGGTCATACCAAATGAATTTGTTAAGACACATATGGACATGATGGAAGGAAGAGATGATGCTACCCTTTTTGTTGACAAAGATAAATGGAATGTGAAGCTCACTTTAAATAAACAATCTGCACTAACTTGTGGTTGGAGAGAATTCCGTGAAGAGAATAATTTGAAATTTGGTGATGTTTGTGTTTTTGTGCTAAACAAAGGCAAAGAAACAGTTCCATTTCAAGTTGTTATTTTCTCTTTGGAAAAGGACTTGGAAACTCCTTATTTTGAAGGTAATTATATTTGA
Protein sequence

>MsaT001437.1

MSSQEHGHQSNGVHFFKVIRQSTLQGEKLSVPITFVKRYWKGITNPVTLRFPNMMEKKVFWEKTSDYDVTFCNGWKELANYLSLGESQFLVFQYQEKSLFNVIVFGKCGLEIKYPSRETSEESEESDYSLKIIENPSSSRGKRLKSPAPSMKVCKKMKINSNEQKGSKHEKRIVPKFHVFEHVNNGSSCNDIKERSRILCQKVKKFFVSDNDFFACMMLKTYIDRDLLVIPNEFVKTHMDMMEGRDDATLFVDKDKWNVKLTLNKQSALTCGWREFREENNLKFGDVCVFVLNKGKETVPFQVVIFSLEKDLETPYFEGNYI*