AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG010778

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010778 MtrunA17_Chr2g0329041 93.897 426 11 4 1 426 1 411 0.0 806
MsaG010778 MtrunA17_Chr4g0032951 51.717 466 150 16 1 424 1 433 3.72e-145 420
MsaG010778 MtrunA17_Chr1g0174271 46.809 329 140 9 115 422 60 374 3.81e-77 244
MsaG010778 MtrunA17_Chr3g0087771 36.490 433 214 15 3 424 18 400 1.98e-56 191
MsaG010778 MtrunA17_Chr7g0258181 43.529 255 119 5 171 422 87 319 3.90e-48 167
MsaG010778 MtrunA17_Chr8g0351881 35.167 418 203 13 8 418 32 388 3.31e-46 164
MsaG010778 MtrunA17_Chr1g0213791 61.404 114 39 2 311 422 231 341 5.03e-36 135
MsaG010778 MtrunA17_Chr4g0014771 70.115 87 24 1 332 418 106 190 3.08e-34 126
MsaG010778 MtrunA17_Chr4g0074161 58.462 65 26 1 345 409 205 268 5.57e-16 79.3
MsaG010778 MtrunA17_Chr1g0152131 47.674 86 37 1 324 409 246 323 6.91e-16 79.3
MsaG010778 MtrunA17_Chr8g0339091 51.282 78 31 1 339 409 277 354 2.56e-15 77.8
MsaG010778 MtrunA17_Chr3g0144641 56.061 66 29 0 344 409 189 254 3.21e-15 77.0
MsaG010778 MtrunA17_Chr7g0234761 37.097 124 69 2 287 409 265 380 3.94e-15 77.4
MsaG010778 MtrunA17_Chr3g0131771 56.061 66 29 0 344 409 145 210 4.40e-15 75.9
MsaG010778 MtrunA17_Chr8g0363921 33.333 177 101 5 236 409 52 214 1.12e-14 73.9
MsaG010778 MtrunA17_Chr1g0190731 55.385 65 28 1 345 409 192 255 1.17e-14 75.1
MsaG010778 MtrunA17_Chr8g0365941 56.250 64 28 0 346 409 305 368 1.76e-14 75.1
MsaG010778 MtrunA17_Chr4g0035101 53.030 66 31 0 344 409 141 206 2.33e-14 73.9
MsaG010778 MtrunA17_Chr5g0421111 48.052 77 32 1 333 409 360 428 3.01e-14 74.7
MsaG010778 MtrunA17_Chr8g0385911 51.515 66 32 0 344 409 143 208 1.92e-13 70.9
MsaG010778 MtrunA17_Chr5g0415291 50.000 66 33 0 344 409 110 175 1.03e-12 67.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010778 AT1G51140.1 37.500 424 196 13 5 418 12 376 7.10e-68 221
MsaG010778 AT2G42280.1 36.977 430 173 14 11 424 10 357 1.22e-65 214
MsaG010778 AT2G42280.3 37.226 411 160 14 11 405 10 338 1.91e-60 201
MsaG010778 AT1G35460.1 68.966 87 27 0 338 424 173 259 3.62e-37 136
MsaG010778 AT4G09180.1 62.136 103 39 0 322 424 160 262 4.11e-37 136
MsaG010778 AT2G43140.1 61.538 104 39 1 316 418 103 206 2.88e-36 132
MsaG010778 AT2G43140.2 38.281 256 109 10 178 418 82 303 1.73e-34 130
MsaG010778 AT2G42280.2 31.165 369 156 14 11 363 10 296 1.10e-30 120
MsaG010778 AT1G35460.2 80.851 47 9 0 338 384 173 219 8.19e-21 91.3
MsaG010778 AT2G24260.2 60.000 65 25 1 345 409 34 97 1.21e-16 79.7
MsaG010778 AT2G24260.1 60.000 65 25 1 345 409 137 200 3.34e-16 80.1
MsaG010778 AT4G34530.1 50.000 86 41 1 324 409 152 235 5.49e-16 79.3
MsaG010778 AT4G30980.1 58.462 65 26 1 345 409 129 192 6.96e-16 78.6
MsaG010778 AT4G30980.2 58.462 65 26 1 345 409 177 240 1.03e-15 78.6
MsaG010778 AT5G50915.3 56.061 66 29 0 344 409 134 199 1.57e-15 76.6
MsaG010778 AT5G50915.4 56.061 66 29 0 344 409 134 199 1.57e-15 76.6
MsaG010778 AT5G50915.1 56.061 66 29 0 344 409 134 199 1.59e-15 77.0
MsaG010778 AT5G50915.2 56.061 66 29 0 344 409 134 199 1.59e-15 77.0
MsaG010778 AT1G10120.2 47.674 86 37 1 324 409 192 269 3.31e-15 77.0
MsaG010778 AT1G10120.1 47.674 86 37 1 324 409 192 269 3.31e-15 77.0
MsaG010778 AT1G68920.1 54.545 66 30 0 344 409 301 366 5.00e-15 77.4
MsaG010778 AT1G68920.4 54.545 66 30 0 344 409 301 366 5.00e-15 77.4
MsaG010778 AT1G68920.2 54.545 66 30 0 344 409 301 366 5.00e-15 77.4
MsaG010778 AT1G68920.3 54.545 66 30 0 344 409 300 365 5.03e-15 77.4
MsaG010778 AT5G58010.1 53.846 65 29 1 345 409 98 161 6.43e-15 75.5
MsaG010778 AT1G25330.1 53.030 66 31 0 344 409 102 167 8.10e-15 73.9
MsaG010778 AT3G07340.2 54.545 66 30 0 344 409 256 321 8.10e-15 76.6
MsaG010778 AT3G07340.1 54.545 66 30 0 344 409 256 321 8.98e-15 76.3
MsaG010778 AT1G26260.5 56.061 66 29 0 344 409 199 264 1.55e-14 75.1
MsaG010778 AT1G26260.4 56.061 66 29 0 344 409 221 286 1.97e-14 75.1
MsaG010778 AT1G26260.1 56.061 66 29 0 344 409 221 286 1.97e-14 75.1
MsaG010778 AT1G26260.6 56.061 66 29 0 344 409 221 286 1.97e-14 75.1
MsaG010778 AT1G26260.2 56.061 66 29 0 344 409 221 286 1.97e-14 75.1
MsaG010778 AT1G26260.3 56.061 66 29 0 344 409 170 235 2.08e-14 74.3
MsaG010778 AT5G48560.1 53.030 66 31 0 344 409 299 364 2.66e-14 75.1
MsaG010778 AT5G48560.2 53.030 66 31 0 344 409 299 364 2.66e-14 75.1
MsaG010778 AT3G23690.1 51.515 66 32 0 344 409 189 254 1.66e-13 72.0
MsaG010778 AT1G59640.1 51.515 66 32 0 344 409 134 199 1.82e-13 70.5
MsaG010778 AT1G18400.2 50.000 66 33 0 344 409 143 208 2.01e-13 70.1
MsaG010778 AT1G73830.2 51.562 64 31 0 346 409 147 210 2.07e-13 70.5
MsaG010778 AT1G73830.1 51.562 64 31 0 346 409 147 210 2.28e-13 70.5
MsaG010778 AT1G18400.1 51.562 64 31 0 346 409 145 208 4.10e-13 69.7
MsaG010778 AT2G18300.2 50.000 64 32 0 346 409 185 248 6.60e-13 70.1
MsaG010778 AT2G18300.1 50.000 64 32 0 346 409 185 248 6.68e-13 69.7
MsaG010778 AT1G59640.2 53.125 64 30 0 346 409 136 199 7.67e-13 69.7
MsaG010778 AT2G18300.3 50.000 64 32 0 346 409 185 248 9.32e-13 69.7
MsaG010778 AT4G36540.1 48.485 66 34 0 344 409 139 204 1.39e-12 68.6
MsaG010778 AT4G36540.2 48.485 66 34 0 344 409 139 204 1.50e-12 68.6
MsaG010778 AT2G42300.1 47.222 72 37 1 339 409 177 248 2.35e-12 68.2
MsaG010778 AT2G42300.4 47.222 72 37 1 339 409 177 248 3.07e-12 67.0
MsaG010778 AT5G62610.2 46.970 66 35 0 344 409 151 216 9.35e-12 65.9
MsaG010778 AT5G62610.1 46.970 66 35 0 344 409 151 216 9.35e-12 65.9
MsaG010778 AT3G57800.2 46.970 66 35 0 344 409 202 267 1.05e-11 66.6

Find 70 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCCATTTCAGATGAAGTATT+TGG 0.195078 2:-77725054 None:intergenic
TTCCTTGAAGTAGAAAATTT+TGG 0.197445 2:-77724646 None:intergenic
CGCTCTGTTTCTGGACTTGA+TGG 0.209227 2:-77723456 None:intergenic
TCTCAAATTAACATTGAAAA+TGG 0.226358 2:+77723891 MsaT010778.1:CDS
ACCCTTTCGGCAATGCTTCT+TGG 0.230259 2:-77725153 None:intergenic
CCAAATCAGAATGTTTCTTC+TGG 0.278715 2:+77723759 MsaT010778.1:CDS
TCAAGGTTTATTAACAGTTT+TGG 0.288729 2:+77723486 MsaT010778.1:CDS
CCCTTTCGGCAATGCTTCTT+GGG 0.290663 2:-77725152 None:intergenic
CATGGTACCTTATCCATGTT+TGG 0.320678 2:-77725577 None:intergenic
TAAATTGGCTTCAGGTTAGA+AGG 0.325551 2:+77725512 MsaT010778.1:intron
CACCCACAAGTAAATTCTTC+AGG 0.335781 2:+77723351 MsaT010778.1:CDS
CCAGAAGAAACATTCTGATT+TGG 0.339425 2:-77723759 None:intergenic
ATGGTTGATTAGAATGAAAC+AGG 0.344190 2:+77724988 MsaT010778.1:intron
ATCAATAATCCATACCCTTT+CGG 0.345815 2:-77725166 None:intergenic
AATGAAGAAAATGAAGCTTT+TGG 0.348594 2:+77724748 MsaT010778.1:CDS
ATGAGAGGAATGGGAACTTT+AGG 0.362085 2:+77724598 MsaT010778.1:CDS
GCCAAATACTTCATCTGAAA+TGG 0.370699 2:+77725053 MsaT010778.1:CDS
AAGTCATGGTAACGAATATA+TGG 0.373522 2:+77724774 MsaT010778.1:CDS
AATGTTTCTTCTGGTTTAGA+TGG 0.373647 2:+77723768 MsaT010778.1:CDS
AGGACATTCTAATTCTCCTT+TGG 0.389735 2:+77725014 MsaT010778.1:CDS
CCCAAGAAGCATTGCCGAAA+GGG 0.390620 2:+77725152 MsaT010778.1:CDS
AATCAATCAAACTATTCATC+AGG 0.391137 2:+77724676 MsaT010778.1:CDS
TAACGAATATATGGATTATC+AGG 0.397601 2:+77724783 MsaT010778.1:CDS
AACTCTGTTCCTTCTTCTCA+TGG 0.404649 2:+77723705 MsaT010778.1:CDS
TTCGGCAATGCTTCTTGGGT+GGG 0.408101 2:-77725148 None:intergenic
TGGATTATCAGGTTGATACT+TGG 0.436048 2:+77724794 MsaT010778.1:CDS
TTCATCTGAAATGGCAGCTA+TGG 0.443352 2:+77725062 MsaT010778.1:CDS
CTAAAATTAGTGAGCGTATG+AGG 0.443405 2:+77725536 MsaT010778.1:CDS
AGCAGCAGCAACAACAATAA+CGG 0.455093 2:+77725917 MsaT010778.1:CDS
ATGGTACCTTATCCATGTTT+GGG 0.462347 2:-77725576 None:intergenic
TATGTTAGTATGAGAGGAAT+GGG 0.466243 2:+77724589 MsaT010778.1:CDS
GTTGTTGCTGCTGCTTGTGT+GGG 0.473246 2:-77725909 None:intergenic
TATGAGGAAGCTACAAGATC+TGG 0.475457 2:+77725552 MsaT010778.1:CDS
TTTCGGCAATGCTTCTTGGG+TGG 0.478638 2:-77725149 None:intergenic
TGTTGTTGCTGCTGCTTGTG+TGG 0.483616 2:-77725910 None:intergenic
AACCTGAAGAATTTACTTGT+GGG 0.489854 2:-77723353 None:intergenic
TTTCCACCATGATTCTTCAC+TGG 0.490723 2:-77723822 None:intergenic
TCTGGTCCCAAACATGGATA+AGG 0.497918 2:+77725570 MsaT010778.1:CDS
ACAACAACAAGATCAGGGTT+TGG 0.506743 2:+77723608 MsaT010778.1:CDS
GTGGGTGGCACAACCTCGCT+TGG 0.508441 2:-77725130 None:intergenic
GGCAATGCTTCTTGGGTGGG+TGG 0.511007 2:-77725145 None:intergenic
CACAGCAGATATGTTGGACT+TGG 0.518004 2:+77725705 MsaT010778.1:CDS
AACAGTGAAAGAAGAAGAAG+AGG 0.518044 2:+77723554 MsaT010778.1:CDS
GCAGGTTATGTTAGTATGAG+AGG 0.524043 2:+77724583 MsaT010778.1:intron
ATTTGAGAAAATAATCCAGC+TGG 0.524222 2:-77723876 None:intergenic
GGATTATCAGGTTGATACTT+GGG 0.529420 2:+77724795 MsaT010778.1:CDS
AACAAACACAGCAGATATGT+TGG 0.533839 2:+77725699 MsaT010778.1:CDS
ATGAAAATTCGTGCCAAGCG+AGG 0.540193 2:+77725117 MsaT010778.1:CDS
ACATTCTGATTTGGCAAAGG+TGG 0.545087 2:-77723750 None:intergenic
AGATATGTTGGACTTGGCTG+TGG 0.548724 2:+77725711 MsaT010778.1:CDS
AGACCTTCAAAAGCAAGCTC+AGG 0.554514 2:+77725744 MsaT010778.1:CDS
GAAACATTCTGATTTGGCAA+AGG 0.556566 2:-77723753 None:intergenic
TTATGTTAGTATGAGAGGAA+TGG 0.558938 2:+77724588 MsaT010778.1:CDS
AGACATAGTAGTTCACCAGC+TGG 0.569208 2:+77723861 MsaT010778.1:CDS
TTGCAGCCAGTGAAGAATCA+TGG 0.569699 2:+77723816 MsaT010778.1:CDS
ATGTCAACAATAGCTGAAGT+TGG 0.572331 2:+77724703 MsaT010778.1:CDS
ACAAGATCTGGTCCCAAACA+TGG 0.576424 2:+77725564 MsaT010778.1:CDS
ATCAATCAAACTATTCATCA+GGG 0.580340 2:+77724677 MsaT010778.1:CDS
ACCCAAGAAGCATTGCCGAA+AGG 0.582792 2:+77725151 MsaT010778.1:CDS
AAACCTGAAGAATTTACTTG+TGG 0.586193 2:-77723354 None:intergenic
ATAGCTGAAGTTGGTGACAA+AGG 0.592602 2:+77724712 MsaT010778.1:CDS
TAAATTCTTCAGGTTTAACA+AGG 0.602353 2:+77723361 MsaT010778.1:CDS
TTCAATCAACAATGAACATG+TGG 0.608573 2:+77723632 MsaT010778.1:CDS
GATTAGAATGAAACAGGAGG+AGG 0.610884 2:+77724994 MsaT010778.1:intron
ATGATGTCTGAAAATGTTGG+TGG 0.620048 2:+77724829 MsaT010778.1:CDS
ATACTCAATTGATGAGCCAA+AGG 0.626112 2:-77725030 None:intergenic
ATGTTGTTGAAATATGAACT+TGG 0.650570 2:-77723396 None:intergenic
GAAATGATGTCTGAAAATGT+TGG 0.668717 2:+77724826 MsaT010778.1:CDS
GTTGATTAGAATGAAACAGG+AGG 0.674543 2:+77724991 MsaT010778.1:intron
CAGCCAGTGAAGAATCATGG+TGG 0.713307 2:+77723819 MsaT010778.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 77723324 77725936 77723324 ID=MsaG010778
Chr2 mRNA 77723324 77725936 77723324 ID=MsaT010778.1;Parent=MsaG010778
Chr2 exon 77723324 77723912 77723324 ID=MsaT010778.1.exon1;Parent=MsaT010778.1
Chr2 CDS 77723324 77723912 77723324 ID=cds.MsaT010778.1;Parent=MsaT010778.1
Chr2 exon 77724587 77724909 77724587 ID=MsaT010778.1.exon2;Parent=MsaT010778.1
Chr2 CDS 77724587 77724909 77724587 ID=cds.MsaT010778.1;Parent=MsaT010778.1
Chr2 exon 77725000 77725173 77725000 ID=MsaT010778.1.exon3;Parent=MsaT010778.1
Chr2 CDS 77725000 77725173 77725000 ID=cds.MsaT010778.1;Parent=MsaT010778.1
Chr2 exon 77725526 77725591 77725526 ID=MsaT010778.1.exon4;Parent=MsaT010778.1
Chr2 CDS 77725526 77725591 77725526 ID=cds.MsaT010778.1;Parent=MsaT010778.1
Chr2 exon 77725697 77725765 77725697 ID=MsaT010778.1.exon5;Parent=MsaT010778.1
Chr2 CDS 77725697 77725765 77725697 ID=cds.MsaT010778.1;Parent=MsaT010778.1
Chr2 exon 77725877 77725936 77725877 ID=MsaT010778.1.exon6;Parent=MsaT010778.1
Chr2 CDS 77725877 77725936 77725877 ID=cds.MsaT010778.1;Parent=MsaT010778.1
Gene Sequence

>MsaT010778.1

ATGGAGTCAGATCTTCATCAACAACAACACCCACAAGTAAATTCTTCAGGTTTAACAAGGTTTAAATCAGCACCAAGTTCATATTTCAACAACATCATTGACAGAGAATTCTACGAGCATGTTTTCAATAAACCATCAAGTCCAGAAACAGAGCGAGTTTTTTCAAGGTTTATTAACAGTTTTGGTTCAGAAGATGATTTACTAGCAGCTCAAAAAATCTCAGTAGATTCAACAGTGAAAGAAGAAGAAGAGGTTAATATGAATCATCAACAACAACAACAACAACAACAACAAGATCAGGGTTTGGCTTCAATCAACAATGAACATGTGGTTCATCAGCAGAGTAATATCAATATCAATATCAGTGATAATAATTATAACAACTCTGTTCCTTCTTCTCATGGTTTTTATCAAAGTTCTATGATGCCACCTTTGCCAAATCAGAATGTTTCTTCTGGTTTAGATGGAAGTTTTTCAATGGGAGTTAATAGGTTGCAGCCAGTGAAGAATCATGGTGGAAATAATTCAAATCTTATTAGACATAGTAGTTCACCAGCTGGATTATTTTCTCAAATTAACATTGAAAATGGTTATGTTAGTATGAGAGGAATGGGAACTTTAGGAGCTGTTAATAATTCTATGAAAGAACCAAAATTTTCTACTTCAAGGAATTTGAAGAATCAATCAAACTATTCATCAGGGTTAATGTCAACAATAGCTGAAGTTGGTGACAAAGGCAATAGAGAAAATAATGAAGAAAATGAAGCTTTTGGTGAAAGTCATGGTAACGAATATATGGATTATCAGGTTGATACTTGGGATGATTCTGAAATGATGTCTGAAAATGTTGGTGGTTTAAAAAGATTTAGAGATAATGATTCAAAACAACAATTTTCTGGTTTAAATGTTCAGAATGAAACAGGAGGAGGACATTCTAATTCTCCTTTGGCTCATCAATTGAGTATGCCAAATACTTCATCTGAAATGGCAGCTATGGAGAAGTTTCTGCATTTCTCAGATTCTGTTCCGATGAAAATTCGTGCCAAGCGAGGTTGTGCCACCCACCCAAGAAGCATTGCCGAAAGGGTTAGAAGGACTAAAATTAGTGAGCGTATGAGGAAGCTACAAGATCTGGTCCCAAACATGGATAAGCAAACAAACACAGCAGATATGTTGGACTTGGCTGTGGATTACATCAAAGACCTTCAAAAGCAAGCTCAGAAGCTTCAAGATTGTCAAGCAAAGTGTACGTGCCCACACAAGCAGCAGCAACAACAATAA
Protein sequence

>MsaT010778.1

MESDLHQQQHPQVNSSGLTRFKSAPSSYFNNIIDREFYEHVFNKPSSPETERVFSRFINSFGSEDDLLAAQKISVDSTVKEEEEVNMNHQQQQQQQQQDQGLASINNEHVVHQQSNININISDNNYNNSVPSSHGFYQSSMMPPLPNQNVSSGLDGSFSMGVNRLQPVKNHGGNNSNLIRHSSSPAGLFSQINIENGYVSMRGMGTLGAVNNSMKEPKFSTSRNLKNQSNYSSGLMSTIAEVGDKGNRENNEENEAFGESHGNEYMDYQVDTWDDSEMMSENVGGLKRFRDNDSKQQFSGLNVQNETGGGHSNSPLAHQLSMPNTSSEMAAMEKFLHFSDSVPMKIRAKRGCATHPRSIAERVRRTKISERMRKLQDLVPNMDKQTNTADMLDLAVDYIKDLQKQAQKLQDCQAKCTCPHKQQQQQ*