AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG009646

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009646 MtrunA17_Chr2g0315641 97.594 374 6 1 1 374 1 371 0.0 761
MsaG009646 MtrunA17_Chr2g0315651 74.933 375 82 5 4 374 1 367 0.0 561
MsaG009646 MtrunA17_Chr2g0286441 52.877 365 143 5 37 374 31 393 1.30e-133 387
MsaG009646 MtrunA17_Chr8g0373001 50.954 367 150 3 38 374 46 412 1.80e-127 372
MsaG009646 MtrunA17_Chr5g0404321 50.276 362 148 2 45 374 55 416 1.06e-126 370
MsaG009646 MtrunA17_Chr1g0201891 48.564 383 146 6 42 374 50 431 3.21e-121 357
MsaG009646 MtrunA17_Chr1g0155301 50.992 353 150 7 45 374 70 422 6.74e-121 356
MsaG009646 MtrunA17_Chr1g0196071 48.819 381 158 7 22 374 31 402 1.76e-120 354
MsaG009646 MtrunA17_Chr2g0278511 48.404 376 146 8 45 374 54 427 1.18e-117 348
MsaG009646 MtrunA17_Chr8g0373361 40.659 364 173 8 38 367 51 405 9.88e-79 248
MsaG009646 MtrunA17_Chr8g0373331 40.517 348 141 11 38 365 45 346 2.51e-67 216
MsaG009646 MtrunA17_Chr8g0373341 35.920 348 120 8 44 364 49 320 6.64e-46 159
MsaG009646 MtrunA17_Chr1g0156151 48.077 156 77 1 60 211 66 221 1.68e-44 153
MsaG009646 MtrunA17_Chr8g0373351 33.535 331 138 10 52 366 22 286 2.17e-39 141
MsaG009646 MtrunA17_Chr3g0091401 38.372 86 47 1 88 173 9 88 1.44e-11 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009646 AT1G53320.1 71.316 380 102 3 1 374 1 379 0.0 541
MsaG009646 AT2G47900.2 49.300 357 152 5 45 374 52 406 2.74e-123 362
MsaG009646 AT2G47900.1 49.300 357 152 5 45 374 52 406 2.74e-123 362
MsaG009646 AT2G47900.3 49.162 358 152 5 45 374 52 407 3.76e-123 361
MsaG009646 AT2G18280.2 51.289 349 148 5 45 374 48 393 1.03e-119 352
MsaG009646 AT2G18280.1 51.289 349 148 5 45 374 48 393 1.03e-119 352
MsaG009646 AT1G76900.2 45.297 404 146 7 43 374 55 455 4.30e-117 348
MsaG009646 AT1G76900.1 45.297 404 146 7 43 374 55 455 4.30e-117 348
MsaG009646 AT1G76900.3 45.297 404 146 7 43 374 55 455 4.30e-117 348
MsaG009646 AT1G25280.1 47.680 388 144 8 45 374 59 445 2.41e-115 343
MsaG009646 AT1G47270.3 47.091 361 158 8 38 374 37 388 9.02e-111 329
MsaG009646 AT1G47270.1 47.091 361 158 8 38 374 62 413 1.51e-110 329
MsaG009646 AT1G47270.2 47.091 361 158 8 38 374 61 412 1.86e-110 329
MsaG009646 AT3G06380.1 46.486 370 162 7 32 374 20 380 1.02e-109 326
MsaG009646 AT1G43640.1 42.824 432 186 9 1 374 1 429 3.34e-109 327
MsaG009646 AT5G18680.1 47.200 375 171 8 25 374 17 389 1.93e-107 321
MsaG009646 AT1G43640.2 46.995 366 143 7 57 374 1 363 5.86e-106 316
MsaG009646 AT5G18680.2 49.141 291 124 6 106 374 9 297 6.00e-87 265
MsaG009646 AT3G06380.2 47.099 293 120 6 108 374 5 288 2.26e-84 258
MsaG009646 AT1G25280.3 46.642 268 85 7 164 374 1 267 4.39e-72 226
MsaG009646 AT1G25280.2 46.642 268 85 7 164 374 1 267 4.39e-72 226
MsaG009646 AT1G61940.2 47.126 87 46 0 48 134 1 87 1.69e-22 95.9
MsaG009646 AT1G61940.1 47.541 61 32 0 48 108 1 61 1.19e-13 70.5

Find 111 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACGATGGTTTGGCACCATTA+TGG 0.220136 2:-62753852 None:intergenic
CTTCACAGCTCGGACTTTCT+TGG 0.231255 2:+62753796 MsaT009646.1:intron
GCAGCCCTTGTCCGCCTTCC+AGG 0.253322 2:+62754314 MsaT009646.1:CDS
GCGATATAACATACTCAGTA+TGG 0.267086 2:-62752905 None:intergenic
CTTTCCCTCCCGGTTGGCTT+TGG 0.300866 2:-62754224 None:intergenic
CTTCAAAAGGTTGAACTTGT+AGG 0.307145 2:-62753956 None:intergenic
CGATGGTTTGGCACCATTAT+GGG 0.310618 2:-62753851 None:intergenic
GTTTAGTACCAAAGCTAGTT+AGG 0.325857 2:-62754350 None:intergenic
GCCATTTGCCTAACTAGCTT+TGG 0.333355 2:+62754342 MsaT009646.1:CDS
TGGCACCATTATGGGGTGGC+TGG 0.351579 2:-62753843 None:intergenic
GGCAAAACGCCGGCTAGCTC+TGG 0.355300 2:-62753878 None:intergenic
TTGAGGGCTTATCTGTTTGC+TGG 0.356555 2:-62753899 None:intergenic
TCGCCAGCATTCACAGATAA+AGG 0.367850 2:+62752843 MsaT009646.1:intron
AACTAGCTTTGGTACTAAAC+TGG 0.385771 2:+62754353 MsaT009646.1:CDS
CAAATTCTCGAAATCCTTCA+AGG 0.391328 2:+62750079 MsaT009646.1:CDS
TGCTGGTGCTTGAACTTTCA+TGG 0.404252 2:+62754150 MsaT009646.1:CDS
TCTTCATCTCCTTTCCCTCC+CGG 0.407140 2:-62754234 None:intergenic
TATTAGCAGCTAGAAGATAT+AGG 0.409814 2:+62752874 MsaT009646.1:CDS
CGATTCGCCGTCACCGCCCC+CGG 0.410857 2:-62750144 None:intergenic
GAAACGGTTCTCCTCCAGTT+TGG 0.411512 2:+62754255 MsaT009646.1:CDS
CGTCCCCTACTTTACCAAAC+TGG 0.415882 2:-62754269 None:intergenic
TACTGTGGACCAAAGCCAAC+CGG 0.423752 2:+62754215 MsaT009646.1:CDS
TTGGCCCTCTCGACTTCAAA+AGG 0.424052 2:-62753969 None:intergenic
GCCGATGACCGGAGAGGCGC+CGG 0.428598 2:+62750125 MsaT009646.1:CDS
AAAGTTTCCTGTCTCATCAA+TGG 0.435431 2:+62754011 MsaT009646.1:CDS
GATAGATTGAACTTCCTTGA+AGG 0.441232 2:-62750093 None:intergenic
AGCTCTGGCACACGATGGTT+TGG 0.442139 2:-62753863 None:intergenic
ATACCTTCACCATGGACTAT+AGG 0.445930 2:+62754292 MsaT009646.1:CDS
TCCTCCAGTTTGGTAAAGTA+GGG 0.446113 2:+62754265 MsaT009646.1:CDS
CAAAGCCAACCGGGAGGGAA+AGG 0.450993 2:+62754225 MsaT009646.1:CDS
CTTGTGCCTGCGTGTGTAAA+CGG 0.451934 2:+62750273 MsaT009646.1:CDS
CTCCTCCAGTTTGGTAAAGT+AGG 0.453347 2:+62754264 MsaT009646.1:CDS
CCGATGACCGGAGAGGCGCC+GGG 0.457918 2:+62750126 MsaT009646.1:CDS
AGCAGTACTTACATGATGTA+AGG 0.460796 2:-62751407 None:intergenic
GGCATGAGCATTTGCAATGC+TGG 0.463812 2:+62754133 MsaT009646.1:CDS
AAACGCCTGGAAGGCGGACA+AGG 0.466204 2:-62754319 None:intergenic
CCCGGCGCCTCTCCGGTCAT+CGG 0.466698 2:-62750126 None:intergenic
TCCGCTTTATAAGACAATGA+TGG 0.469186 2:-62751350 None:intergenic
ATTATCTCTGCAAGGAGATC+CGG 0.469997 2:-62750197 None:intergenic
GCCTCTCCGGTCATCGGCGA+CGG 0.470591 2:-62750120 None:intergenic
GACAGCCAGCCACCCCATAA+TGG 0.478762 2:+62753838 MsaT009646.1:CDS
ACCAAAGCTAGTTAGGCAAA+TGG 0.480991 2:-62754343 None:intergenic
AAGTTTCCTGTCTCATCAAT+GGG 0.481200 2:+62754012 MsaT009646.1:CDS
CCGCTTTATAAGACAATGAT+GGG 0.481752 2:-62751349 None:intergenic
CATCTCCTTTCCCTCCCGGT+TGG 0.483246 2:-62754230 None:intergenic
AGTGAGCACATCATCCTCCT+TGG 0.487846 2:-62753988 None:intergenic
TGCTGGTAACTTCGAGGCAG+GGG 0.489666 2:+62753927 MsaT009646.1:CDS
TTAGGCAAATGGCAAACGCC+TGG 0.502545 2:-62754332 None:intergenic
CTTTCACCCATTGATGAGAC+AGG 0.505376 2:-62754018 None:intergenic
CAAGGAAGTAATGCTTATGT+TGG 0.506103 2:+62752948 MsaT009646.1:CDS
ACGGTGCGGCCACTGTTCCT+CGG 0.508536 2:-62750237 None:intergenic
CTTTCAGCTGGTTGCTACTG+TGG 0.512635 2:+62754200 MsaT009646.1:CDS
CCTGCTGGTAACTTCGAGGC+AGG 0.517968 2:+62753925 MsaT009646.1:CDS
ATCAGTGAAGAACTTTCAGC+TGG 0.522886 2:+62754188 MsaT009646.1:CDS
TGCAAATGCTCATGCCACCT+TGG 0.523848 2:-62754126 None:intergenic
CCCATCATTGTCTTATAAAG+CGG 0.524392 2:+62751349 MsaT009646.1:CDS
TGGGGAAGATCACGTGGTCC+TGG 0.524705 2:-62751330 None:intergenic
AAGTTACCAGCAGGAACTTG+AGG 0.529054 2:-62753916 None:intergenic
GATGACCGGAGAGGCGCCGG+GGG 0.530838 2:+62750128 MsaT009646.1:CDS
ACTACAAATGTCGTTAATGA+AGG 0.531969 2:+62750043 None:intergenic
GGGCGGTGACGGCGAATCGG+CGG 0.533020 2:+62750148 MsaT009646.1:CDS
ATGCTTATGTTGGCAAGCTA+AGG 0.535171 2:+62752958 MsaT009646.1:CDS
CATCGTGTGCCAGAGCTAGC+CGG 0.539800 2:+62753869 MsaT009646.1:CDS
ATGATGTAAGGGCAAGATAG+AGG 0.541692 2:-62751395 None:intergenic
ATAAGCCCTCAAGTTCCTGC+TGG 0.547760 2:+62753910 MsaT009646.1:CDS
TCGACACCGTCGCCGATGAC+CGG 0.551670 2:+62750114 MsaT009646.1:CDS
AGTTACCAGCAGGAACTTGA+GGG 0.551679 2:-62753915 None:intergenic
CTGCTGGTAACTTCGAGGCA+GGG 0.552365 2:+62753926 MsaT009646.1:CDS
GATGGTTTGGCACCATTATG+GGG 0.557500 2:-62753850 None:intergenic
AATCGGCGGATGGAACTGAT+TGG 0.560005 2:+62750162 MsaT009646.1:CDS
GGCAAGATAGAGGTAAAATG+TGG 0.562187 2:-62751385 None:intergenic
TGATTGGTCGACCATGCTAC+CGG 0.570589 2:+62750178 MsaT009646.1:CDS
AGTACCTGTTTAAGACAAGA+AGG 0.570907 2:-62750356 None:intergenic
GCTGTCGTAAATTGTGAAGT+TGG 0.573043 2:-62753821 None:intergenic
CAAGGGCTGCCTATAGTCCA+TGG 0.582759 2:-62754301 None:intergenic
TGCAAGGAGATCCGGTAGCA+TGG 0.583668 2:-62750189 None:intergenic
AGGGAAAGGAGATGAAGAAA+CGG 0.585294 2:+62754239 MsaT009646.1:CDS
AACGCCTGGAAGGCGGACAA+GGG 0.585668 2:-62754318 None:intergenic
TCTGTTTGCTGGCAAAACGC+CGG 0.592503 2:-62753888 None:intergenic
GCAGTACTTACATGATGTAA+GGG 0.595316 2:-62751406 None:intergenic
TCGACGTCGCCGAGGAACAG+TGG 0.597224 2:+62750228 MsaT009646.1:CDS
AGTTCCTGCTGGTAACTTCG+AGG 0.598795 2:+62753921 MsaT009646.1:CDS
GCAAATGGCAAACGCCTGGA+AGG 0.600612 2:-62754328 None:intergenic
CCTGCCTCGAAGTTACCAGC+AGG 0.604926 2:-62753925 None:intergenic
TAAAAGAGTCGACGTCGCCG+AGG 0.606773 2:+62750220 MsaT009646.1:CDS
GGTGACGGCGAATCGGCGGA+TGG 0.608774 2:+62750152 MsaT009646.1:CDS
CGATATAACATACTCAGTAT+GGG 0.610140 2:-62752904 None:intergenic
CGATGACCGGAGAGGCGCCG+GGG 0.614020 2:+62750127 MsaT009646.1:CDS
ACTGTGGACCAAAGCCAACC+GGG 0.622254 2:+62754216 MsaT009646.1:CDS
AATGGCAAACGCCTGGAAGG+CGG 0.622747 2:-62754325 None:intergenic
CTGCCTATAGTCCATGGTGA+AGG 0.631313 2:-62754295 None:intergenic
CCTCCAGTTTGGTAAAGTAG+GGG 0.636441 2:+62754266 MsaT009646.1:CDS
TGGACCAAAGCCAACCGGGA+GGG 0.641249 2:+62754220 MsaT009646.1:CDS
CAATGATGGGGAAGATCACG+TGG 0.646996 2:-62751336 None:intergenic
CTTTCATGGTCGTGTGACAG+TGG 0.649357 2:+62754164 MsaT009646.1:CDS
TCTTGAAGAACAAAGCTCCA+AGG 0.652245 2:+62754109 MsaT009646.1:CDS
GTTAAGTCACCTCAACGTAA+CGG 0.655976 2:+62750320 MsaT009646.1:CDS
CCCCTACTTTACCAAACTGG+AGG 0.658277 2:-62754266 None:intergenic
GGTTTGGCACCATTATGGGG+TGG 0.668160 2:-62753847 None:intergenic
CGGCTAGCTCTGGCACACGA+TGG 0.676984 2:-62753868 None:intergenic
TGAAGTCGAGAGGGCCAAGG+AGG 0.682719 2:+62753974 MsaT009646.1:CDS
CGCTTTATAAGACAATGATG+GGG 0.686571 2:-62751348 None:intergenic
GTGATTGTGCCGTTACGTTG+AGG 0.690998 2:-62750329 None:intergenic
AGGGGACGATACCTTCACCA+TGG 0.697116 2:+62754284 MsaT009646.1:CDS
GCAGCTAGAAGATATAGGTG+TGG 0.701333 2:+62752879 MsaT009646.1:CDS
TGAAGAACAAAGCTCCAAGG+TGG 0.704573 2:+62754112 MsaT009646.1:CDS
TCTCCACCGTTTACACACGC+AGG 0.710172 2:-62750279 None:intergenic
GATGCTGACGACTTATCACA+AGG 0.713430 2:+62752930 MsaT009646.1:CDS
GTGCCTGCGTGTGTAAACGG+TGG 0.728961 2:+62750276 MsaT009646.1:CDS
GTGGACCAAAGCCAACCGGG+AGG 0.734579 2:+62754219 MsaT009646.1:CDS
ACCGTCGCCGATGACCGGAG+AGG 0.743550 2:+62750119 MsaT009646.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 62750050 62754386 62750050 ID=MsaG009646
Chr2 mRNA 62750050 62754386 62750050 ID=MsaT009646.1;Parent=MsaG009646
Chr2 exon 62750050 62750373 62750050 ID=MsaT009646.1.exon1;Parent=MsaT009646.1
Chr2 CDS 62750050 62750373 62750050 ID=cds.MsaT009646.1;Parent=MsaT009646.1
Chr2 exon 62751330 62751417 62751330 ID=MsaT009646.1.exon2;Parent=MsaT009646.1
Chr2 CDS 62751330 62751417 62751330 ID=cds.MsaT009646.1;Parent=MsaT009646.1
Chr2 exon 62752850 62752979 62752850 ID=MsaT009646.1.exon3;Parent=MsaT009646.1
Chr2 CDS 62752850 62752979 62752850 ID=cds.MsaT009646.1;Parent=MsaT009646.1
Chr2 exon 62753804 62754386 62753804 ID=MsaT009646.1.exon4;Parent=MsaT009646.1
Chr2 CDS 62753804 62754386 62753804 ID=cds.MsaT009646.1;Parent=MsaT009646.1
Gene Sequence

>MsaT009646.1

ATGTCGTTAATGAAGGTATTTCGATCTCGCAAATTCTCGAAATCCTTCAAGGAAGTTCAATCTATCGACACCGTCGCCGATGACCGGAGAGGCGCCGGGGGCGGTGACGGCGAATCGGCGGATGGAACTGATTGGTCGACCATGCTACCGGATCTCCTTGCAGAGATAATTAAAAGAGTCGACGTCGCCGAGGAACAGTGGCCGCACCGTCAAAACGTCGTCGCTTGTGCCTGCGTGTGTAAACGGTGGAGAGATATTACACGTGAGATCGTTAAGTCACCTCAACGTAACGGCACAATCACTTTTCCTTCTTGTCTTAAACAGCCAGGACCACGTGATCTTCCCCATCATTGTCTTATAAAGCGGAGTAAGAAGACTTCCACATTTTACCTCTATCTTGCCCTTACATCATCATTCACAGATAAAGGAAAGTTTCTATTAGCAGCTAGAAGATATAGGTGTGGTACCCATACTGAGTATGTTATATCGCTTGATGCTGACGACTTATCACAAGGAAGTAATGCTTATGTTGGCAAGCTAAGCTCGGACTTTCTTGGCACCAACTTCACAATTTACGACAGCCAGCCACCCCATAATGGTGCCAAACCATCGTGTGCCAGAGCTAGCCGGCGTTTTGCCAGCAAACAGATAAGCCCTCAAGTTCCTGCTGGTAACTTCGAGGCAGGGGATGTTTCCTACAAGTTCAACCTTTTGAAGTCGAGAGGGCCAAGGAGGATGATGTGCTCACTAAAGTTTCCTGTCTCATCAATGGGTGAAAGTTCAGATAGCAAGTCTTTTGATGGTCAAAAGATGCACAGTAAAGAACATGCTGCTTCTGCGCACACAATCTTGAAGAACAAAGCTCCAAGGTGGCATGAGCATTTGCAATGCTGGTGCTTGAACTTTCATGGTCGTGTGACAGTGGCATCAGTGAAGAACTTTCAGCTGGTTGCTACTGTGGACCAAAGCCAACCGGGAGGGAAAGGAGATGAAGAAACGGTTCTCCTCCAGTTTGGTAAAGTAGGGGACGATACCTTCACCATGGACTATAGGCAGCCCTTGTCCGCCTTCCAGGCGTTTGCCATTTGCCTAACTAGCTTTGGTACTAAACTGGCTTGTGAGTAA
Protein sequence

>MsaT009646.1

MSLMKVFRSRKFSKSFKEVQSIDTVADDRRGAGGGDGESADGTDWSTMLPDLLAEIIKRVDVAEEQWPHRQNVVACACVCKRWRDITREIVKSPQRNGTITFPSCLKQPGPRDLPHHCLIKRSKKTSTFYLYLALTSSFTDKGKFLLAARRYRCGTHTEYVISLDADDLSQGSNAYVGKLSSDFLGTNFTIYDSQPPHNGAKPSCARASRRFASKQISPQVPAGNFEAGDVSYKFNLLKSRGPRRMMCSLKFPVSSMGESSDSKSFDGQKMHSKEHAASAHTILKNKAPRWHEHLQCWCLNFHGRVTVASVKNFQLVATVDQSQPGGKGDEETVLLQFGKVGDDTFTMDYRQPLSAFQAFAICLTSFGTKLACE*