AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG013473

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG013473 MtrunA17_Chr3g0088371 82.609 184 29 1 382 562 1 184 5.78e-104 311
MsaG013473 MtrunA17_Chr1g0172971 82.051 117 20 1 1 116 1 117 5.03e-56 197
MsaG013473 MtrunA17_Chr7g0258861 31.136 273 153 7 36 292 8 261 4.48e-33 128
MsaG013473 MtrunA17_Chr6g0475591 94.737 57 3 0 188 244 1 57 1.54e-31 117
MsaG013473 MtrunA17_Chr2g0324011 30.627 271 154 6 36 292 8 258 1.65e-29 123
MsaG013473 MtrunA17_Chr3g0082121 27.839 273 161 6 41 303 49 295 4.75e-25 109
MsaG013473 MtrunA17_Chr3g0082121 33.088 136 78 6 358 491 531 655 7.16e-12 68.2
MsaG013473 MtrunA17_Chr5g0448761 27.536 276 170 5 31 292 56 315 1.05e-22 102
MsaG013473 MtrunA17_Chr1g0202341 28.676 272 159 7 34 292 50 299 2.63e-22 101
MsaG013473 MtrunA17_Chr1g0164591 28.729 181 111 2 133 303 3 175 1.36e-20 93.2
MsaG013473 MtrunA17_Chr8g0363841 28.195 266 157 7 40 292 22 266 1.29e-19 92.8
MsaG013473 MtrunA17_Chr1g0203721 25.076 327 182 10 1 292 16 314 3.36e-18 88.6
MsaG013473 MtrunA17_Chr1g0203721 29.054 148 87 3 367 503 571 711 5.72e-12 68.9
MsaG013473 MtrunA17_Chr2g0296781 26.592 267 157 8 39 292 1 241 5.43e-18 87.8
MsaG013473 MtrunA17_Chr5g0431001 27.562 283 171 9 40 304 66 332 9.93e-18 86.3
MsaG013473 MtrunA17_Chr2g0287651 26.022 269 163 7 39 292 79 326 1.11e-16 84.0
MsaG013473 MtrunA17_Chr5g0441581 26.429 280 161 9 32 297 26 274 9.38e-16 80.5
MsaG013473 MtrunA17_Chr6g0458391 25.856 263 147 6 41 292 231 456 2.03e-15 79.7
MsaG013473 MtrunA17_Chr1g0203051 23.929 280 181 6 50 316 94 354 5.17e-15 78.2
MsaG013473 MtrunA17_Chr1g0198761 25.862 290 181 8 26 297 38 311 5.25e-15 78.6
MsaG013473 MtrunA17_Chr1g0196541 24.812 266 163 8 39 292 1 241 8.65e-14 74.3
MsaG013473 MtrunA17_Chr6g0477261 31.452 124 74 2 180 292 7 130 4.93e-13 72.0
MsaG013473 MtrunA17_Chr2g0291591 24.503 302 166 12 16 292 44 308 5.78e-13 71.6
MsaG013473 MtrunA17_Chr1g0207551 30.233 129 73 3 357 482 527 641 1.71e-12 70.5
MsaG013473 MtrunA17_Chr2g0294841 23.547 327 206 11 3 304 7 314 3.79e-12 69.3
MsaG013473 MtrunA17_Chr3g0080351 30.070 143 81 3 344 482 548 675 3.24e-11 66.2
MsaG013473 MtrunA17_Chr2g0290391 23.656 279 168 8 38 291 54 312 9.53e-11 64.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG013473 AT4G38180.1 28.881 277 159 6 32 292 70 324 7.63e-24 106
MsaG013473 AT4G15090.1 31.646 158 90 4 349 505 538 678 3.11e-16 82.8
MsaG013473 AT4G15090.5 31.646 158 90 4 349 505 538 678 3.11e-16 82.8
MsaG013473 AT4G15090.3 31.646 158 90 4 349 505 538 678 3.11e-16 82.8
MsaG013473 AT4G15090.2 31.646 158 90 4 349 505 538 678 3.11e-16 82.8
MsaG013473 AT4G15090.4 31.646 158 90 4 349 505 538 678 3.11e-16 82.8
MsaG013473 AT5G28530.3 23.913 276 169 7 40 292 60 317 1.97e-14 77.0
MsaG013473 AT5G28530.2 23.913 276 169 7 40 292 60 317 1.97e-14 77.0
MsaG013473 AT5G28530.1 23.913 276 169 7 40 292 60 317 2.09e-14 76.6
MsaG013473 AT4G19990.1 35.338 133 72 3 355 485 438 558 9.96e-13 71.6
MsaG013473 AT4G19990.3 35.338 133 72 3 355 485 495 615 1.05e-12 71.6
MsaG013473 AT4G19990.4 35.338 133 72 3 355 485 495 615 1.05e-12 71.6
MsaG013473 AT4G19990.6 35.338 133 72 3 355 485 495 615 1.12e-12 71.2
MsaG013473 AT4G19990.2 35.338 133 72 3 355 485 495 615 1.12e-12 71.2
MsaG013473 AT4G19990.5 35.338 133 72 3 355 485 495 615 1.13e-12 71.2
MsaG013473 AT4G19990.7 35.338 133 72 3 355 485 509 629 1.15e-12 71.2
MsaG013473 AT2G27110.3 32.031 128 76 4 356 483 373 489 6.79e-12 68.9
MsaG013473 AT2G27110.2 32.031 128 76 4 356 483 518 634 7.18e-12 68.9
MsaG013473 AT2G27110.1 32.031 128 76 4 356 483 518 634 7.18e-12 68.9
MsaG013473 AT1G10240.2 22.615 283 180 8 40 304 53 314 8.57e-11 65.5
MsaG013473 AT1G10240.1 22.615 283 180 8 40 304 53 314 8.57e-11 65.5

Find 88 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGTCGCTTCTTTGACCTAAT+TGG 0.186128 3:-53915672 None:intergenic
CAACAAGATTATGCTCTATT+TGG 0.198611 3:+53913763 MsaT013473.1:CDS
TTCATTTCAGCTGCCTTTCT+TGG 0.201003 3:+53914263 MsaT013473.1:intron
TTCTTTGACCTAATTGGATT+TGG 0.299426 3:-53915666 None:intergenic
TGTTCTTGAGGCAGGGAAAA+AGG 0.322946 3:+53915518 MsaT013473.1:CDS
GCCGATATTTATTGTTTGTT+CGG 0.341758 3:-53913813 None:intergenic
TTTGCTTCTTCCGAGCTATA+AGG 0.345757 3:-53915734 None:intergenic
GGTTTCGAATGTTGATGTTT+TGG 0.354913 3:+53915101 MsaT013473.1:CDS
CTCAACGGTGTTCTTGAGGC+AGG 0.386173 3:+53915510 MsaT013473.1:CDS
AACAATAAATATCGGCCATT+AGG 0.388497 3:+53913820 MsaT013473.1:CDS
ACCGAACAAACAATAAATAT+CGG 0.389395 3:+53913812 MsaT013473.1:CDS
GTCTTTAGTGCCAACATTCA+TGG 0.395146 3:-53915394 None:intergenic
TTCTCATACTCAACAAGAAC+TGG 0.395633 3:-53913284 None:intergenic
AAGAAAGACCAAATCCAATT+AGG 0.397771 3:+53915658 MsaT013473.1:CDS
TTTGGTCTTTCTTTGAACTT+TGG 0.398856 3:-53915648 None:intergenic
TTCCTTCAAATACTATTATG+AGG 0.399583 3:+53914980 MsaT013473.1:CDS
AATCGCTTTGAAGACTTAGA+AGG 0.401618 3:-53915594 None:intergenic
GAGGAGTTTCTTATTTCTAA+AGG 0.403538 3:+53915543 MsaT013473.1:CDS
TAAAGAATCATGGAAGTCTT+TGG 0.408500 3:+53913055 MsaT013473.1:CDS
CATGTCGTATGTTTGAGAAC+CGG 0.411671 3:+53915226 MsaT013473.1:CDS
GATTATGATCTTCAAACCTT+GGG 0.413114 3:-53915149 None:intergenic
ATAACACTGGATTCTCTGTT+AGG 0.417808 3:+53913126 MsaT013473.1:CDS
CGATTATGATCTTCAAACCT+TGG 0.425681 3:-53915150 None:intergenic
CGAGAAGTAAATGAAGTTCA+AGG 0.430014 3:+53913461 MsaT013473.1:CDS
AGCTGGAATATATTTGAAGT+TGG 0.433136 3:+53913343 MsaT013473.1:CDS
TTGTCTGTGAACCATCTGTT+GGG 0.437215 3:+53915619 MsaT013473.1:CDS
GAAAGGGTTGGTTGTAAAGC+TGG 0.447509 3:+53913326 MsaT013473.1:CDS
CGCTTTAAAACATATTGTGC+AGG 0.447633 3:-53915327 None:intergenic
CGTTATGTTTGTAACAAAGA+AGG 0.449439 3:+53913209 MsaT013473.1:CDS
GCTTTAATAAATTCTAAAGC+TGG 0.450264 3:+53913491 MsaT013473.1:CDS
ATCTGAGAGTGGACAATTGA+CGG 0.452529 3:+53912980 MsaT013473.1:CDS
ATGTCGTATGTTTGAGAACC+GGG 0.461344 3:+53915227 MsaT013473.1:CDS
TTTGTCTGTGAACCATCTGT+TGG 0.467762 3:+53915618 MsaT013473.1:CDS
ACAAAATAAGAAATCGGATA+AGG 0.469178 3:+53913175 MsaT013473.1:CDS
GGGTTGTCACAGTCGACATT+GGG 0.480993 3:+53915184 MsaT013473.1:CDS
GAAGTGATGGGTCAAGGAGT+TGG 0.484292 3:+53913536 MsaT013473.1:CDS
CTCCTCATAATAGTATTTGA+AGG 0.485089 3:-53914982 None:intergenic
TTACAACCAACCCTTTCCTC+TGG 0.485330 3:-53913320 None:intergenic
TTTAATTATGCATATAACAC+TGG 0.485542 3:+53913113 MsaT013473.1:CDS
TCTAATGACAACTCGTCAAA+AGG 0.488137 3:+53913604 MsaT013473.1:CDS
CTCAAGTAGCACAAATGCTC+TGG 0.489977 3:-53913431 None:intergenic
CAATTCACAAAATAAGAAAT+CGG 0.490263 3:+53913169 MsaT013473.1:CDS
ATGATTGTCAAAACCAAGAA+AGG 0.491378 3:-53914276 None:intergenic
CGTCAAAAGGAGATGGTGGC+TGG 0.492100 3:+53913617 MsaT013473.1:CDS
GAGAACATCTTATGAAGTGA+TGG 0.499875 3:+53913523 MsaT013473.1:CDS
AAATGCTCTGGTTTATGTAA+TGG 0.504865 3:-53913419 None:intergenic
ATCATAATCGACTTGATGAA+AGG 0.507955 3:+53915163 MsaT013473.1:CDS
TTTAAGTCCGAAAATCGAAA+AGG 0.508080 3:-53913575 None:intergenic
TGTCTATAAGATATATAAGT+GGG 0.514682 3:+53913379 MsaT013473.1:CDS
GATCTTCAAACCTTGGGGAA+AGG 0.519004 3:-53915143 None:intergenic
TAACAAAGAAGGTTTCAAGA+AGG 0.525236 3:+53913220 MsaT013473.1:CDS
TCATAATCGACTTGATGAAA+GGG 0.526860 3:+53915164 MsaT013473.1:CDS
CATAATAGTATTTGAAGGAA+AGG 0.529686 3:-53914977 None:intergenic
GACAGAAATTCCTTATAGCT+CGG 0.533906 3:+53915724 MsaT013473.1:CDS
AGGGTTGTCACAGTCGACAT+TGG 0.538587 3:+53915183 MsaT013473.1:CDS
AACAAAGAAGGTTTCAAGAA+GGG 0.545537 3:+53913221 MsaT013473.1:CDS
CATTTAGTGATAAAGAATCA+TGG 0.546005 3:+53913045 MsaT013473.1:CDS
TATGAGGAGGACACAACAAA+AGG 0.553880 3:+53914996 MsaT013473.1:CDS
CTGAAATCCACCATGAATGT+TGG 0.557140 3:+53915384 MsaT013473.1:CDS
TGAAAATTCAGTTATTGATG+CGG 0.565546 3:+53913004 MsaT013473.1:CDS
GTGATGGGTCAAGGAGTTGG+AGG 0.568802 3:+53913539 MsaT013473.1:CDS
TACACGTGTTTGCGCAGATG+CGG 0.571672 3:+53915470 MsaT013473.1:CDS
ATGTCTATAAGATATATAAG+TGG 0.572287 3:+53913378 MsaT013473.1:CDS
TTTGGTGCAGTCCCAACAGA+TGG 0.581566 3:-53915630 None:intergenic
GAAGCAAAAGAAAGATGATG+AGG 0.585686 3:+53915749 MsaT013473.1:CDS
ATATTAACTTCATCTGAGAG+TGG 0.588105 3:+53912969 MsaT013473.1:CDS
TCTTATGAAGTGATGGGTCA+AGG 0.589029 3:+53913530 MsaT013473.1:CDS
TCAACGGTGTTCTTGAGGCA+GGG 0.590097 3:+53915511 MsaT013473.1:CDS
ATTTCTCAACGGTGTTCTTG+AGG 0.591378 3:+53915506 MsaT013473.1:CDS
TTGAAGAAAACCTTTCCCCA+AGG 0.594796 3:+53915133 MsaT013473.1:CDS
GACAACTCGTCAAAAGGAGA+TGG 0.599038 3:+53913610 MsaT013473.1:CDS
AGAACATCTTATGAAGTGAT+GGG 0.601988 3:+53913524 MsaT013473.1:CDS
AACTCGTCAAAAGGAGATGG+TGG 0.603142 3:+53913613 MsaT013473.1:CDS
ACGTGTTTGCGCAGATGCGG+AGG 0.605934 3:+53915473 MsaT013473.1:CDS
CTTCAAATACTATTATGAGG+AGG 0.607664 3:+53914983 MsaT013473.1:CDS
TTGATATCGTTGCGCTTCAG+TGG 0.611060 3:-53915418 None:intergenic
AATGAAGCTCTCTCAAAACC+AGG 0.618452 3:+53913671 MsaT013473.1:CDS
AGAACTGGACTGTCACATGT+TGG 0.620791 3:-53913269 None:intergenic
GGGTCAAGGAGTTGGAGGCA+CGG 0.621882 3:+53913544 MsaT013473.1:CDS
ATTATGATCTTCAAACCTTG+GGG 0.630358 3:-53915148 None:intergenic
TGAAGACTTAGAAGGCGTAA+CGG 0.635757 3:-53915586 None:intergenic
TTTAGTGCCAACATTCATGG+TGG 0.641441 3:-53915391 None:intergenic
GATTTCAGCTTATCGACAGA+CGG 0.644926 3:-53915369 None:intergenic
GCATCTGAAATATTTCTCAA+CGG 0.661104 3:+53915495 MsaT013473.1:CDS
CATGTCGACATAAGAAACCC+CGG 0.663279 3:-53915245 None:intergenic
TGTCGTATGTTTGAGAACCG+GGG 0.673760 3:+53915228 MsaT013473.1:CDS
ATGTTGATAATGATAATGAG+AGG 0.683310 3:+53915079 MsaT013473.1:CDS
TGTTGATAATGATAATGAGA+GGG 0.689129 3:+53915080 MsaT013473.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 53912960 53915785 53912960 ID=MsaG013473
Chr3 mRNA 53912960 53915785 53912960 ID=MsaT013473.1;Parent=MsaG013473
Chr3 exon 53912960 53913692 53912960 ID=MsaT013473.1.exon1;Parent=MsaT013473.1
Chr3 CDS 53912960 53913692 53912960 ID=cds.MsaT013473.1;Parent=MsaT013473.1
Chr3 exon 53913725 53913841 53913725 ID=MsaT013473.1.exon2;Parent=MsaT013473.1
Chr3 CDS 53913725 53913841 53913725 ID=cds.MsaT013473.1;Parent=MsaT013473.1
Chr3 exon 53914273 53914299 53914273 ID=MsaT013473.1.exon3;Parent=MsaT013473.1
Chr3 CDS 53914273 53914299 53914273 ID=cds.MsaT013473.1;Parent=MsaT013473.1
Chr3 exon 53914968 53915785 53914968 ID=MsaT013473.1.exon4;Parent=MsaT013473.1
Chr3 CDS 53914968 53915785 53914968 ID=cds.MsaT013473.1;Parent=MsaT013473.1
Gene Sequence

>MsaT013473.1

ATGGATTTGATATTAACTTCATCTGAGAGTGGACAATTGACGGTTGAAAATTCAGTTATTGATGCGGATAGTTCTCAATGTTACTCATTTAGTGATAAAGAATCATGGAAGTCTTTGGTCTTTAAATCTATAAAAGAGATTGAAGATTTTTATTTTAATTATGCATATAACACTGGATTCTCTGTTAGGAGTATGTTGAAGTCCAAGAACAATTCACAAAATAAGAAATCGGATAAGGTACATTATGTGCGTTATGTTTGTAACAAAGAAGGTTTCAAGAAGGGAAGTCTGCTTAATCCTAAAAACAGGCCAACATGTGACAGTCCAGTTCTTGTTGAGTATGAGAAAGCTAAAGAAAAACCAGAGGAAAGGGTTGGTTGTAAAGCTGGAATATATTTGAAGTTGGATGAAGCGTTGAATGTCTATAAGATATATAAGTGGGAAGTTGATCACTGTCATCCATTACATAAACCAGAGCATTTGTGCTACTTGAGATCATTTCGAGAAGTAAATGAAGTTCAAGGACAACTTGCTTTAATAAATTCTAAAGCTGGAATGTCGATGAGAACATCTTATGAAGTGATGGGTCAAGGAGTTGGAGGCACGGAGAATCTTCCTTTTCGATTTTCGGACTTAAAGAACTATCTAATGACAACTCGTCAAAAGGAGATGGTGGCTGGTGAAGCAACTGTTATTCAAGAATTCTTTAGAAATGAAGCTCTCTCAAAACCAGAAGACATAGCCAGTATTTTTTGGGCAGATGGAATTATGCAACAAGATTATGCTCTATTTGGTGATGTTGTCAGTTTTGATACAACTTACCGAACAAACAATAAATATCGGCCATTAGCTGCCTTTCTTGGTTTTGACAATCATCTCAGTATGACCTTTCCTTCAAATACTATTATGAGGAGGACACAACAAAAGGTCGAATTGAACAAGTTCTTCAAAGTTTTCACAATTGAGAAGGTTGATTATAATTACGATGATGTTGATAATGATAATGAGAGGGTTTCGAATGTTGATGTTTTGGATGCAGAATTTGAAGAAAACCTTTCCCCAAGGTTTGAAGATCATAATCGACTTGATGAAAGGGTTGTCACAGTCGACATTGGGAGCAAAAGTTTTACTTGTTCATGTCGTATGTTTGAGAACCGGGGTTTCTTATGTCGACATGTTTTCAAGATTTTGGAGGTCTTAGGTGGTCATGTGCAATATCATTTTTTGAAGACTATACCTGCACAATATGTTTTAAAGCGGTGGACTAGAGATGTGCGTCCGTCTGTCGATAAGCTGAAATCCACCATGAATGTTGGCACTAAAGACACCACTGAAGCGCAACGATATCAACAAATTTGTGCTGTTACAGTTCAGCTTTCTACACGTGTTTGCGCAGATGCGGAGGCATCTGAAATATTTCTCAACGGTGTTCTTGAGGCAGGGAAAAAGGCAGAGGAGTTTCTTATTTCTAAAGGTATTCATACAGATCGATCATCCGTTACGCCTTCTAAGTCTTCAAAGCGATTCTTTGTCTGTGAACCATCTGTTGGGACTGCACCAAAGTTCAAAGAAAGACCAAATCCAATTAGGTCAAAGAAGCGACTTAAAAGTGATTATGAAAAAGCTAGAGCAAGACAGAAATTCCTTATAGCTCGGAAGAAGCAAAAGAAAGATGATGAGGCTTTAACAAATTAA
Protein sequence

>MsaT013473.1

MDLILTSSESGQLTVENSVIDADSSQCYSFSDKESWKSLVFKSIKEIEDFYFNYAYNTGFSVRSMLKSKNNSQNKKSDKVHYVRYVCNKEGFKKGSLLNPKNRPTCDSPVLVEYEKAKEKPEERVGCKAGIYLKLDEALNVYKIYKWEVDHCHPLHKPEHLCYLRSFREVNEVQGQLALINSKAGMSMRTSYEVMGQGVGGTENLPFRFSDLKNYLMTTRQKEMVAGEATVIQEFFRNEALSKPEDIASIFWADGIMQQDYALFGDVVSFDTTYRTNNKYRPLAAFLGFDNHLSMTFPSNTIMRRTQQKVELNKFFKVFTIEKVDYNYDDVDNDNERVSNVDVLDAEFEENLSPRFEDHNRLDERVVTVDIGSKSFTCSCRMFENRGFLCRHVFKILEVLGGHVQYHFLKTIPAQYVLKRWTRDVRPSVDKLKSTMNVGTKDTTEAQRYQQICAVTVQLSTRVCADAEASEIFLNGVLEAGKKAEEFLISKGIHTDRSSVTPSKSSKRFFVCEPSVGTAPKFKERPNPIRSKKRLKSDYEKARARQKFLIARKKQKKDDEALTN*