AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG024589

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024589 MtrunA17_Chr1g0212691 98.190 442 8 0 1 442 60 501 0.0 873
MsaG024589 MtrunA17_Chr8g0391881 87.772 368 14 1 1 368 38 374 0.0 630
MsaG024589 MtrunA17_Chr5g0428941 53.250 400 185 1 12 409 103 502 1.53e-152 443
MsaG024589 MtrunA17_Chr8g0391861 87.500 112 12 1 331 442 1 110 8.33e-55 178
MsaG024589 MtrunA17_Chr4g0034981 25.000 360 260 4 45 397 235 591 9.44e-35 136
MsaG024589 MtrunA17_Chr8g0391871 88.333 60 7 0 383 442 1 60 5.78e-29 108
MsaG024589 MtrunA17_Chr6g0448821 27.164 335 238 6 65 397 32 362 3.62e-28 114
MsaG024589 MtrunA17_Chr2g0294671 26.168 321 191 6 79 396 210 487 1.10e-26 112
MsaG024589 MtrunA17_Chr2g0294671 22.348 264 179 5 8 267 189 430 3.77e-12 68.2
MsaG024589 MtrunA17_Chr4g0043941 22.436 312 198 5 86 392 47 319 6.25e-26 107
MsaG024589 MtrunA17_Chr4g0043941 25.108 231 147 3 23 252 45 250 2.27e-17 82.8
MsaG024589 MtrunA17_Chr5g0445491 24.373 279 200 7 102 373 176 450 1.09e-19 91.3
MsaG024589 MtrunA17_Chr5g0445491 24.627 268 186 8 22 277 194 457 4.53e-16 80.5
MsaG024589 MtrunA17_Chr2g0304101 26.923 208 116 3 222 393 99 306 3.78e-16 79.0
MsaG024589 MtrunA17_Chr5g0417641 38.679 106 64 1 288 392 188 293 3.85e-14 72.8
MsaG024589 MtrunA17_Chr2g0311181 23.659 317 151 11 86 397 75 305 1.58e-13 71.2
MsaG024589 MtrunA17_Chr3g0127891 22.819 298 184 7 99 391 235 491 1.18e-12 69.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024589 AT2G44020.1 80.587 443 85 1 1 442 65 507 0.0 733
MsaG024589 AT4G02990.2 53.181 393 184 0 13 405 112 504 8.93e-153 444
MsaG024589 AT4G02990.1 53.181 393 184 0 13 405 112 504 8.93e-153 444
MsaG024589 AT2G21710.1 24.716 352 261 3 77 427 278 626 8.76e-39 148
MsaG024589 AT2G21710.1 26.070 257 176 5 7 252 272 525 2.39e-17 85.1
MsaG024589 AT1G78930.1 26.488 336 240 6 65 397 249 580 1.59e-31 127
MsaG024589 AT4G38160.4 25.547 274 195 4 128 395 54 324 7.74e-29 116
MsaG024589 AT4G38160.4 24.020 204 153 2 65 266 63 266 1.10e-15 78.2
MsaG024589 AT4G38160.1 25.547 274 195 4 128 395 54 324 7.74e-29 116
MsaG024589 AT4G38160.1 24.020 204 153 2 65 266 63 266 1.10e-15 78.2
MsaG024589 AT4G38160.2 25.547 274 195 4 128 395 54 324 1.54e-28 115
MsaG024589 AT4G38160.2 23.902 205 154 2 65 267 63 267 1.60e-15 78.2
MsaG024589 AT4G38160.3 25.547 274 195 4 128 395 54 324 1.58e-28 116
MsaG024589 AT4G38160.3 23.902 205 154 2 65 267 63 267 1.43e-15 78.6
MsaG024589 AT2G21710.2 23.571 280 212 2 77 355 278 556 1.22e-26 112
MsaG024589 AT2G21710.2 26.070 257 176 5 7 252 272 525 1.95e-17 85.1
MsaG024589 AT2G21710.3 23.381 278 211 2 77 353 278 554 8.91e-26 110
MsaG024589 AT2G21710.3 26.070 257 176 5 7 252 272 525 2.03e-17 85.1
MsaG024589 AT4G14605.2 25.130 386 268 9 14 392 97 468 6.58e-24 104
MsaG024589 AT4G14605.1 25.130 386 268 9 14 392 97 468 6.58e-24 104
MsaG024589 AT5G55580.2 26.484 219 154 4 158 371 119 335 2.89e-19 89.7
MsaG024589 AT5G55580.2 25.385 260 179 7 20 267 79 335 1.47e-16 81.6
MsaG024589 AT5G55580.2 23.853 218 160 3 84 299 117 330 2.33e-14 74.7
MsaG024589 AT5G55580.1 26.484 219 154 4 158 371 225 441 1.85e-18 88.2
MsaG024589 AT5G55580.1 25.385 260 179 7 20 267 185 441 1.99e-16 81.6
MsaG024589 AT5G55580.1 23.767 223 164 3 84 304 223 441 6.27e-14 73.9
MsaG024589 AT5G54180.1 23.311 296 184 7 101 393 235 490 3.69e-15 77.8
MsaG024589 AT1G61980.3 24.118 340 235 10 77 403 81 410 1.16e-14 75.9
MsaG024589 AT1G61980.2 24.118 340 235 10 77 403 81 410 1.16e-14 75.9
MsaG024589 AT1G61980.1 24.118 340 235 10 77 403 81 410 1.16e-14 75.9
MsaG024589 AT2G34620.1 26.887 212 119 4 222 397 85 296 1.66e-13 71.6
MsaG024589 AT2G03050.1 29.317 249 151 9 158 395 38 272 4.70e-13 69.7
MsaG024589 AT2G03050.2 29.317 249 151 9 158 395 39 273 4.79e-13 69.7
MsaG024589 AT5G55580.3 25.000 172 127 2 84 253 223 394 2.13e-12 68.9
MsaG024589 AT5G55580.3 26.943 193 129 5 20 200 185 377 2.94e-12 68.6
MsaG024589 AT2G36000.2 23.506 251 169 8 158 399 79 315 5.00e-12 67.0
MsaG024589 AT2G36000.1 23.387 248 167 8 158 396 79 312 1.12e-11 66.2

Find 98 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAATCAGTATCCTTTGATTT+TGG 0.073063 4:-101224000 MsaT024589.1:CDS
GTTGAGTTTATTCAGAAATT+AGG 0.154219 4:-101224041 MsaT024589.1:CDS
GTTGATTACTTGGTTAATTT+AGG 0.165369 4:-101223621 MsaT024589.1:CDS
GCTCAGTATCCGCAGATTAT+TGG 0.227610 4:-101223459 MsaT024589.1:CDS
TCCTGATGAATTGCAGGATT+TGG 0.241747 4:-101224099 MsaT024589.1:CDS
TTGATTACTTGGTTAATTTA+GGG 0.248506 4:-101223620 MsaT024589.1:CDS
GGATAAAATGTTCGTTGAAT+TGG 0.261081 4:-101223071 MsaT024589.1:CDS
AGAATACTTCACTTATAGTT+TGG 0.295127 4:-101223136 MsaT024589.1:CDS
CTCAGTATCCGCAGATTATT+GGG 0.297010 4:-101223458 MsaT024589.1:CDS
CTTCGATTATCTCAAGGGTT+TGG 0.298946 4:-101224129 MsaT024589.1:CDS
GTTGATTGTTTGATTAGTTT+TGG 0.307251 4:-101223513 MsaT024589.1:CDS
CTCTTAAGCCTCTGGTATCT+AGG 0.309752 4:+101223099 None:intergenic
TTCGATTATCTCAAGGGTTT+GGG 0.314201 4:-101224128 MsaT024589.1:CDS
TTGAGTTTATTCAGAAATTA+GGG 0.329984 4:-101224040 MsaT024589.1:CDS
GATTATTGGGTTGCCTCTTA+AGG 0.337713 4:-101223445 MsaT024589.1:CDS
CTTCAACCGTTGAAGTTATG+AGG 0.356463 4:-101224070 MsaT024589.1:CDS
AATTATTCCTGATGAATTGC+AGG 0.358521 4:-101224105 MsaT024589.1:CDS
CCTGTTATTAAGTTTCTTAG+AGG 0.361016 4:-101223843 MsaT024589.1:CDS
AAACTATAAGTGAAGTATTC+TGG 0.362016 4:+101223138 None:intergenic
TCAAAATGTGATTATGAAAC+CGG 0.364444 4:-101223319 MsaT024589.1:CDS
CTAATCAAACAATCAACATT+AGG 0.365413 4:+101223519 None:intergenic
CCTCTAAGAAACTTAATAAC+AGG 0.368936 4:+101223843 None:intergenic
TTAGTATTGGTGTTAATCCT+AGG 0.373470 4:-101223716 MsaT024589.1:CDS
TCCCCTTGCTCTTAAGCCTC+TGG 0.375995 4:+101223091 None:intergenic
GAGATTTGAAGAGAGATTGC+AGG 0.401297 4:-101223028 MsaT024589.1:CDS
GTCGCAGGATGTGGCTAGTA+TGG 0.403205 4:-101223268 MsaT024589.1:CDS
GTAGCTTATCTTGTTAGTAT+TGG 0.406186 4:-101223729 MsaT024589.1:CDS
CTCATAACTTCAACGGTTGA+AGG 0.413170 4:+101224071 None:intergenic
TCTGAAACTATGTCGTTTCC+TGG 0.421365 4:+101222943 None:intergenic
GAGAAAAGAGCTTATTTACT+TGG 0.423347 4:-101223567 MsaT024589.1:CDS
ACCACCCTCGCAAACCCTTC+CGG 0.428125 4:+101223372 None:intergenic
GAAGACAATTTAGCCTTAAG+AGG 0.431995 4:+101223432 None:intergenic
GCAATCTCTCTTCAAATCTC+TGG 0.437449 4:+101223031 None:intergenic
GAATGAAGGACCTATACTTT+CGG 0.437668 4:+101222990 None:intergenic
TCCGGAAGGGTTTGCGAGGG+TGG 0.445823 4:-101223373 MsaT024589.1:CDS
GGTGTTAATCCTAGGGATAT+TGG 0.451217 4:-101223708 MsaT024589.1:CDS
TACTTCTTCAAAAGTGAGAT+GGG 0.459036 4:-101223189 MsaT024589.1:CDS
GGAAGGGTTTGCGAGGGTGG+TGG 0.459551 4:-101223370 MsaT024589.1:CDS
GAGGAAGGAATGTTTGCCTT+CGG 0.461475 4:-101223487 MsaT024589.1:CDS
CGAGATGCCTACTGTTACAT+GGG 0.462699 4:-101224198 None:intergenic
TCCAAATCCTGCAATTCATC+AGG 0.465291 4:+101224098 None:intergenic
CATAGTTTCAGATGAGGAAG+AGG 0.486125 4:-101222932 MsaT024589.1:CDS
ATCCTAGCTAGAATCTTCTT+AGG 0.491214 4:+101223594 None:intergenic
GGGATTTCTAGGTCTAAACT+TGG 0.492563 4:-101223924 MsaT024589.1:CDS
ATAGGTCCTTCATTCCGTAT+TGG 0.501976 4:-101222982 MsaT024589.1:CDS
TACCAGAGGCTTAAGAGCAA+GGG 0.502139 4:-101223093 MsaT024589.1:CDS
CATCATCTTCGATTATCTCA+AGG 0.503798 4:-101224135 MsaT024589.1:CDS
GGCAATACCGTCGCAGGATG+TGG 0.504137 4:-101223277 MsaT024589.1:CDS
TTACTTCTTCAAAAGTGAGA+TGG 0.508844 4:-101223190 MsaT024589.1:CDS
TCCTAGGGATATTGGTCCAA+TGG 0.513309 4:-101223700 MsaT024589.1:CDS
GTTACATGGGGTGTAATTCA+AGG 0.515509 4:-101224185 MsaT024589.1:CDS
TTAACCAAGTAATCAACAAA+AGG 0.515918 4:+101223627 None:intergenic
TTTGAAGCTGAAGATTGATC+CGG 0.520863 4:-101223391 MsaT024589.1:CDS
GATGTGGAGAAAGATGATAT+TGG 0.522013 4:-101223816 MsaT024589.1:CDS
TAGTATTGGTGTTAATCCTA+GGG 0.522188 4:-101223715 MsaT024589.1:CDS
ACGAGATGCCTACTGTTACA+TGG 0.523419 4:-101224199 None:intergenic
TATATTGAAACCGAAAGTAT+AGG 0.527577 4:-101223000 MsaT024589.1:CDS
TAAGGATACTGTGTAACCAT+TGG 0.531997 4:+101223684 None:intergenic
ATCATCTTCGATTATCTCAA+GGG 0.534022 4:-101224134 MsaT024589.1:CDS
AGCTTAAACCCTAAAAGTTG+AGG 0.535790 4:+101223774 None:intergenic
GCTCTAATTTCCCACCAATA+CGG 0.538425 4:+101222968 None:intergenic
GGTCCTTCATTCCGTATTGG+TGG 0.539928 4:-101222979 MsaT024589.1:CDS
AGCTGAAGATTGATCCGGAA+GGG 0.553058 4:-101223386 MsaT024589.1:CDS
TTCCCACCAATACGGAATGA+AGG 0.553754 4:+101222976 None:intergenic
ACTCGCAGCGCAATCAATTG+AGG 0.555993 4:+101223234 None:intergenic
GTCCTTCATTCCGTATTGGT+GGG 0.557863 4:-101222978 MsaT024589.1:CDS
TTCAACCGTTGAAGTTATGA+GGG 0.560167 4:-101224069 MsaT024589.1:CDS
AGATTTGAAGAGAGATTGCA+GGG 0.561148 4:-101223027 MsaT024589.1:CDS
ATACCAGAGGCTTAAGAGCA+AGG 0.565715 4:-101223094 MsaT024589.1:CDS
CAAAGAGAAACTCGTTTCGC+GGG 0.570276 4:-101224159 MsaT024589.1:CDS
GAAGATTCTAGCTAGGATGT+TGG 0.572863 4:-101223589 MsaT024589.1:CDS
GCAAAGAGAAACTCGTTTCG+CGG 0.577091 4:-101224160 MsaT024589.1:CDS
ACACTAGCATGCAAAACTTG+TGG 0.577739 4:+101223882 None:intergenic
TGGTAGGGCAATACCGTCGC+AGG 0.580954 4:-101223283 MsaT024589.1:CDS
ACGTTCCCTCATAACTTCAA+CGG 0.581773 4:+101224064 None:intergenic
GAGGCCTGTAAAAGAGCTTG+TGG 0.585209 4:-101223166 MsaT024589.1:CDS
ACACTACAGCCCAAAATCAA+AGG 0.590303 4:+101223990 None:intergenic
ACCAGAGGCTTAAGAGCAAG+GGG 0.605082 4:-101223092 MsaT024589.1:CDS
GGTGGGAAATTAGAGCTACC+AGG 0.611291 4:-101222961 MsaT024589.1:CDS
TTGATCCGGAAGGGTTTGCG+AGG 0.614047 4:-101223377 MsaT024589.1:CDS
TGCCTAAGAAGATTCTAGCT+AGG 0.620780 4:-101223596 MsaT024589.1:CDS
TCTTCAAAAGTGAGATGGGG+AGG 0.627180 4:-101223185 MsaT024589.1:CDS
GTTTCTTAGAGGACTTGATG+TGG 0.627869 4:-101223832 MsaT024589.1:CDS
GGTGGTGGAGAAGATGCCAC+AGG 0.628330 4:-101223355 MsaT024589.1:CDS
ACCATTGGACCAATATCCCT+AGG 0.638044 4:+101223699 None:intergenic
ATTACACCCCATGTAACAGT+AGG 0.644138 4:+101224191 None:intergenic
ACTTCTTCAAAAGTGAGATG+GGG 0.645282 4:-101223188 MsaT024589.1:CDS
TGATGAAGACTAACCACCTG+TGG 0.651476 4:+101223339 None:intergenic
TGATCCGGAAGGGTTTGCGA+GGG 0.652425 4:-101223376 MsaT024589.1:CDS
TGAAATGCTATACAGAAGAA+CGG 0.652624 4:-101222899 MsaT024589.1:CDS
AAACGACATAGTTTCAGATG+AGG 0.658299 4:-101222938 MsaT024589.1:CDS
AAGCTGAAGATTGATCCGGA+AGG 0.664980 4:-101223387 MsaT024589.1:CDS
ATACTAGCCACATCCTGCGA+CGG 0.678965 4:+101223270 None:intergenic
GGTGGAGAAGATGCCACAGG+TGG 0.679410 4:-101223352 MsaT024589.1:CDS
GGATACTGAGCAATAACCGA+AGG 0.689064 4:+101223471 None:intergenic
AGAGGCAACCCAATAATCTG+CGG 0.697237 4:+101223450 None:intergenic
GAATTAAACCTAGATACCAG+AGG 0.721224 4:-101223107 MsaT024589.1:CDS
GAGATGCCTACTGTTACATG+GGG 0.725465 4:-101224197 MsaT024589.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 101222888 101224216 101222888 ID=MsaG024589
Chr4 mRNA 101222888 101224216 101222888 ID=MsaT024589.1;Parent=MsaG024589
Chr4 exon 101222888 101224216 101222888 ID=MsaT024589.1.exon1;Parent=MsaT024589.1
Chr4 CDS 101222888 101224216 101222888 ID=cds.MsaT024589.1;Parent=MsaT024589.1
Gene Sequence

>MsaT024589.1

ATGCCTACTGTTACATGGGGTGTAATTCAAGGTCGCAAAGAGAAACTCGTTTCGCGGGTCATCATCTTCGATTATCTCAAGGGTTTGGGAATTATTCCTGATGAATTGCAGGATTTGGAGCTTCCTTCAACCGTTGAAGTTATGAGGGAACGTGTTGAGTTTATTCAGAAATTAGGGTTAACGATTGATGATATAAATCAGTATCCTTTGATTTTGGGCTGTAGTGTTCGGAAAAACATGATTCCTGTTTTAGGGTATTTAGAAAAAATTGGGATTTCTAGGTCTAAACTTGGTGAATTTATTAAGAATTATCCACAAGTTTTGCATGCTAGTGTTATTGTTGAGCTTGCTCCTGTTATTAAGTTTCTTAGAGGACTTGATGTGGAGAAAGATGATATTGGATTTGTGTTGCAAAAATATCCTCAACTTTTAGGGTTTAAGCTTGAAGGTACTATGAGTACTTCAGTAGCTTATCTTGTTAGTATTGGTGTTAATCCTAGGGATATTGGTCCAATGGTTACACAGTATCCTTATTTTTTAGGGATGAGAGTCGGTACTATGATAAAGCCTTTTGTTGATTACTTGGTTAATTTAGGGTTGCCTAAGAAGATTCTAGCTAGGATGTTGGAGAAAAGAGCTTATTTACTTGGCTATGATCTTGAAGAGACTGTGAAACCTAATGTTGATTGTTTGATTAGTTTTGGTTTGAGGAAGGAATGTTTGCCTTCGGTTATTGCTCAGTATCCGCAGATTATTGGGTTGCCTCTTAAGGCTAAATTGTCTTCCCAACAATATTTTTTCAGTTTGAAGCTGAAGATTGATCCGGAAGGGTTTGCGAGGGTGGTGGAGAAGATGCCACAGGTGGTTAGTCTTCATCAAAATGTGATTATGAAACCGGTTGAGTTTTTACTTGGTAGGGCAATACCGTCGCAGGATGTGGCTAGTATGGTGATCAAGTGTCCTCAATTGATTGCGCTGCGAGTTGAGCTCATGAAGAACAGTTATTACTTCTTCAAAAGTGAGATGGGGAGGCCTGTAAAAGAGCTTGTGGAGTTTCCAGAATACTTCACTTATAGTTTGGAATCAAGAATTAAACCTAGATACCAGAGGCTTAAGAGCAAGGGGATAAAATGTTCGTTGAATTGGATGCTGAATTGTAGTGACCAGAGATTTGAAGAGAGATTGCAGGGCAATTATATTGAAACCGAAAGTATAGGTCCTTCATTCCGTATTGGTGGGAAATTAGAGCTACCAGGAAACGACATAGTTTCAGATGAGGAAGAGGAGAGTGATGATGAAATGCTATACAGAAGAACGGTTTCTCTTTAG
Protein sequence

>MsaT024589.1

MPTVTWGVIQGRKEKLVSRVIIFDYLKGLGIIPDELQDLELPSTVEVMRERVEFIQKLGLTIDDINQYPLILGCSVRKNMIPVLGYLEKIGISRSKLGEFIKNYPQVLHASVIVELAPVIKFLRGLDVEKDDIGFVLQKYPQLLGFKLEGTMSTSVAYLVSIGVNPRDIGPMVTQYPYFLGMRVGTMIKPFVDYLVNLGLPKKILARMLEKRAYLLGYDLEETVKPNVDCLISFGLRKECLPSVIAQYPQIIGLPLKAKLSSQQYFFSLKLKIDPEGFARVVEKMPQVVSLHQNVIMKPVEFLLGRAIPSQDVASMVIKCPQLIALRVELMKNSYYFFKSEMGRPVKELVEFPEYFTYSLESRIKPRYQRLKSKGIKCSLNWMLNCSDQRFEERLQGNYIETESIGPSFRIGGKLELPGNDIVSDEEEESDDEMLYRRTVSL*