AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG014401

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG014401 MtrunA17_Chr1g0187591 66.180 479 94 3 1 420 43 512 0.0 574
MsaG014401 MtrunA17_Chr3g0105131 61.098 437 130 5 6 421 32 449 4.80e-166 476
MsaG014401 MtrunA17_Chr3g0105101 60.922 412 80 7 1 376 35 401 2.36e-155 445
MsaG014401 MtrunA17_Chr5g0430211 45.353 538 165 12 1 412 45 579 2.21e-128 387
MsaG014401 MtrunA17_Chr5g0437251 40.805 522 196 13 2 412 41 560 2.69e-110 339
MsaG014401 MtrunA17_Chr7g0257831 39.400 467 174 11 2 366 58 517 8.80e-96 303
MsaG014401 MtrunA17_Chr3g0113651 38.085 470 156 14 2 412 21 414 7.53e-88 276
MsaG014401 MtrunA17_Chr3g0088521 37.748 453 165 12 14 359 68 510 8.88e-83 269
MsaG014401 MtrunA17_Chr3g0105121 48.026 304 106 5 161 421 8 302 3.09e-80 251
MsaG014401 MtrunA17_Chr1g0171151 32.900 462 196 12 2 365 42 487 4.19e-66 222
MsaG014401 MtrunA17_Chr3g0092171 40.244 246 98 3 16 226 108 339 6.61e-50 176
MsaG014401 MtrunA17_Chr3g0092221 47.619 147 41 2 139 251 137 281 1.14e-40 149
MsaG014401 MtrunA17_Chr3g0105141 64.356 101 35 1 127 226 1 101 4.45e-40 141
MsaG014401 MtrunA17_Chr3g0105151 55.862 145 43 4 288 420 1 136 3.28e-38 138
MsaG014401 MtrunA17_Chr8g0389561 68.116 69 22 0 158 226 77 145 1.24e-29 119
MsaG014401 MtrunA17_Chr6g0487481 47.009 117 46 2 117 226 60 167 1.49e-29 118
MsaG014401 MtrunA17_Chr3g0135351 55.056 89 30 2 139 226 39 118 6.31e-28 111
MsaG014401 MtrunA17_Chr2g0324781 58.462 65 27 0 162 226 77 141 3.87e-25 106
MsaG014401 MtrunA17_Chr4g0040391 53.623 69 32 0 158 226 56 124 2.44e-24 102
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG014401 AT5G58620.1 43.648 488 183 13 6 412 30 506 5.02e-109 334
MsaG014401 AT2G40140.2 44.941 425 167 9 5 384 48 450 8.05e-106 325
MsaG014401 AT2G40140.1 44.941 425 167 9 5 384 48 450 8.05e-106 325
MsaG014401 AT3G55980.1 42.889 443 151 15 2 384 41 441 2.29e-95 298
MsaG014401 AT3G55980.2 42.889 443 151 15 2 384 108 508 2.66e-94 297
MsaG014401 AT2G41900.1 38.789 446 172 10 7 365 64 495 4.73e-88 283
MsaG014401 AT5G12850.1 39.150 447 171 13 14 366 64 503 5.48e-88 282
MsaG014401 AT5G07500.1 56.627 83 36 0 144 226 34 116 2.49e-30 117
MsaG014401 AT4G29190.1 59.524 84 25 1 143 226 69 143 2.45e-29 117
MsaG014401 AT2G25900.2 60.870 69 27 0 158 226 86 154 1.28e-28 115
MsaG014401 AT2G25900.1 60.870 69 27 0 158 226 86 154 1.28e-28 115
MsaG014401 AT2G19810.1 56.250 80 35 0 147 226 63 142 8.56e-28 113
MsaG014401 AT5G44260.1 51.111 90 39 2 138 226 40 125 1.07e-24 105
MsaG014401 AT1G03790.1 46.875 96 46 2 132 226 56 147 1.39e-24 105

Find 114 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCTCTTCATTGTGCTGTTTC+TGG 0.098846 3:+72588523 MsaT014401.1:CDS
CTTATGGTTTCTGCCTTATT+TGG 0.186884 3:+72588421 MsaT014401.1:CDS
CTTACCAATTCAAATGTTAT+TGG 0.199131 3:+72589610 MsaT014401.1:CDS
TTCACAGATGTTGTTGAAAA+AGG 0.211504 3:+72588316 MsaT014401.1:CDS
GGTGTCCTGTCTTATATTAT+TGG 0.263939 3:+72588451 MsaT014401.1:CDS
TCCCTTCCTGAGATAAATAA+TGG 0.281745 3:+72588797 MsaT014401.1:CDS
GACACCCTTGCTTCCAAATA+AGG 0.305473 3:-72588434 None:intergenic
GTGTCCCTTGCCCCGACTTT+CGG 0.317518 3:+72588966 MsaT014401.1:CDS
CAAGGGCTTATTCTCATGAT+TGG 0.318225 3:+72588873 MsaT014401.1:CDS
CTTGTAGCAGCTTCACCATT+TGG 0.321292 3:-72588727 None:intergenic
TATATAGTACAAATGAATTT+AGG 0.321742 3:+72588822 MsaT014401.1:CDS
TCTCCTTCAAATAGGCTTGC+AGG 0.328651 3:+72589478 MsaT014401.1:CDS
TGAAGAGAGGACACCTCTTA+TGG 0.347611 3:+72588405 MsaT014401.1:CDS
GTCTTTCATCTCCTTCAAAT+AGG 0.348830 3:+72589470 MsaT014401.1:CDS
GAGGGTTGGATCGAAGGAAA+TGG 0.360734 3:+72588378 MsaT014401.1:CDS
TTTCTTGGCATCTGAAGAGC+TGG 0.379566 3:-72589352 None:intergenic
CATGATCCCTTCCGAAAGTC+GGG 0.387890 3:-72588977 None:intergenic
TGATCCAATAACATTTGAAT+TGG 0.388637 3:-72589614 None:intergenic
CTGTCTTATATTATTGGAAC+CGG 0.409250 3:+72588457 MsaT014401.1:CDS
TGACACTGACAATATTCTTA+AGG 0.414329 3:+72588694 MsaT014401.1:CDS
AAGGATAGCCCCAGAGTTGA+TGG 0.415284 3:-72589582 None:intergenic
AGGGTTGGATCGAAGGAAAT+GGG 0.426387 3:+72588379 MsaT014401.1:CDS
TTCTGCCTTATTTGGAAGCA+AGG 0.427911 3:+72588429 MsaT014401.1:CDS
TCAAAGTGAAGCCTTGTTCA+AGG 0.431149 3:+72588855 MsaT014401.1:CDS
CTGTTGTTGCGAATGGCAAC+CGG 0.431758 3:+72588608 MsaT014401.1:CDS
GACAATATTCTTAAGGAAGC+AGG 0.436071 3:+72588701 MsaT014401.1:CDS
TTGTGCTACCTCACTTGCTA+TGG 0.437333 3:+72589715 MsaT014401.1:CDS
TATATCCCATTATTTATCTC+AGG 0.446350 3:-72588803 None:intergenic
CCCTTCCTGAGATAAATAAT+GGG 0.448156 3:+72588798 MsaT014401.1:CDS
CCGTCATTAACTTCCGCATA+AGG 0.448177 3:-72589435 None:intergenic
GAGTGTCCCTTTGTTCATCC+AGG 0.455762 3:+72588899 MsaT014401.1:CDS
ACTCCTGCAAGCCTATTTGA+AGG 0.456472 3:-72589481 None:intergenic
TTCACCTAGTTCTTCTTCAT+CGG 0.461261 3:+72589198 MsaT014401.1:CDS
TTGCTTGATGCATCTACAAA+TGG 0.463232 3:+72588580 MsaT014401.1:CDS
TTAAGGTATGGAAGGAGGGT+TGG 0.464678 3:+72588364 MsaT014401.1:CDS
CAGGTATAATGATATTTCCT+TGG 0.467024 3:-72588944 None:intergenic
TGGAAGGAGGGTTGGATCGA+AGG 0.473211 3:+72588372 MsaT014401.1:CDS
CCGAGTATGCGGCTCAGATA+AGG 0.487863 3:+72588495 MsaT014401.1:CDS
CGACCGTTGTATGTTTCTAC+CGG 0.492251 3:+72589142 MsaT014401.1:CDS
AGAACACGAACCATCAACTC+TGG 0.495455 3:+72589572 MsaT014401.1:CDS
CCCTTGCCCCGACTTTCGGA+AGG 0.498336 3:+72588970 MsaT014401.1:CDS
CCCTTCCGAAAGTCGGGGCA+AGG 0.501706 3:-72588971 None:intergenic
AGGTGAAGGCAAAGCAGAAC+CGG 0.502979 3:-72589161 None:intergenic
TTCTTGGCATCTGAAGAGCT+GGG 0.503638 3:-72589351 None:intergenic
GCATGATCCCTTCCGAAAGT+CGG 0.505621 3:-72588978 None:intergenic
ATGTTGATGAGGTAGGGTTA+AGG 0.507383 3:+72588347 MsaT014401.1:CDS
AGGGTTAAGGTATGGAAGGA+GGG 0.508084 3:+72588360 MsaT014401.1:CDS
CCTTATCTGAGCCGCATACT+CGG 0.510920 3:-72588495 None:intergenic
TAGGGTTAAGGTATGGAAGG+AGG 0.513386 3:+72588359 MsaT014401.1:CDS
GCAGCATCATTGCCTACGGC+TGG 0.514430 3:+72589289 MsaT014401.1:CDS
CAAAGTGAAGCCTTGTTCAA+GGG 0.517860 3:+72588856 MsaT014401.1:CDS
TTTGAATTGGTAAGATCAGA+AGG 0.519210 3:-72589601 None:intergenic
CTTGATAACCTCAGCAGAAG+TGG 0.528251 3:-72588554 None:intergenic
TCAGGAAGGGATCGATCAAT+CGG 0.528745 3:-72588785 None:intergenic
GAACACGAACCATCAACTCT+GGG 0.533588 3:+72589573 MsaT014401.1:CDS
AATAAGGCAGAAACCATAAG+AGG 0.534423 3:-72588418 None:intergenic
AAAGTCGGGGCAAGGGACAC+AGG 0.535861 3:-72588963 None:intergenic
TAAGGAAGCAGGTTTCCAAA+TGG 0.540705 3:+72588712 MsaT014401.1:CDS
TCTGCCTTATTTGGAAGCAA+GGG 0.541989 3:+72588430 MsaT014401.1:CDS
CCCATTATTTATCTCAGGAA+GGG 0.543475 3:-72588798 None:intergenic
ATGCAAAGCGCCGTGATCCA+AGG 0.543626 3:+72588927 MsaT014401.1:CDS
GATGAGGTAGGGTTAAGGTA+TGG 0.544700 3:+72588352 MsaT014401.1:CDS
AACATGATGTTGATGAGGTA+GGG 0.544918 3:+72588341 MsaT014401.1:CDS
GCAGATGGAGTCAAAGGTGG+CGG 0.558024 3:-72589268 None:intergenic
TCCCATTATTTATCTCAGGA+AGG 0.558706 3:-72588799 None:intergenic
GGTGAATTCGAATATGATGT+AGG 0.560129 3:-72589181 None:intergenic
GGACTTAAAGCTTGCCACGC+TGG 0.562068 3:-72589692 None:intergenic
GTGAAGCTGCTACAAGATGC+AGG 0.566185 3:+72588734 MsaT014401.1:CDS
AATGATATTTCCTTGGATCA+CGG 0.568390 3:-72588937 None:intergenic
GAACATGATGTTGATGAGGT+AGG 0.574038 3:+72588340 MsaT014401.1:CDS
TTCGAATATGATGTAGGTGA+AGG 0.575873 3:-72589175 None:intergenic
CGGAAGGGATCATGCAGCAA+AGG 0.575933 3:+72588986 MsaT014401.1:CDS
AGTGTCCCTTTGTTCATCCA+GGG 0.576667 3:+72588900 MsaT014401.1:CDS
TTGTTCTGCCACTTCTGCTG+AGG 0.578024 3:+72588546 MsaT014401.1:CDS
CCTTGCCCCGACTTTCGGAA+GGG 0.578605 3:+72588971 MsaT014401.1:CDS
ATCTGCAGCATCATTGCCTA+CGG 0.579402 3:+72589285 MsaT014401.1:CDS
GCTCTCGCTCCGCTTTGTGA+TGG 0.581388 3:-72589656 None:intergenic
GTAGGCAATGATGCTGCAGA+TGG 0.582817 3:-72589283 None:intergenic
TAATCTTTCTTCTCAGTGTG+AGG 0.583800 3:-72588761 None:intergenic
AGAAGAATCCATAGCAAGTG+AGG 0.583861 3:-72589723 None:intergenic
AGGTAGGGTTAAGGTATGGA+AGG 0.584899 3:+72588356 MsaT014401.1:CDS
CGGTTCCAATAATATAAGAC+AGG 0.589189 3:-72588456 None:intergenic
GGCCACATGGTTCCAGCCGT+AGG 0.590587 3:-72589301 None:intergenic
GGTAGTTCTGTTGTTGCGAA+TGG 0.592685 3:+72588601 MsaT014401.1:CDS
TCGGTTAACATCTACACGAC+CGG 0.594422 3:-72588476 None:intergenic
CTTATGCGGAAGTTAATGAC+GGG 0.596514 3:+72589436 MsaT014401.1:CDS
GCAGATTGTGTCAAATAAGA+CGG 0.597954 3:-72589241 None:intergenic
CCGAGTCTGAGTCGGCCACA+TGG 0.598478 3:-72589314 None:intergenic
CCTTCCGAAAGTCGGGGCAA+GGG 0.599933 3:-72588970 None:intergenic
CCTTATGCGGAAGTTAATGA+CGG 0.602861 3:+72589435 MsaT014401.1:CDS
GCGGAAGTTAATGACGGGAG+AGG 0.608895 3:+72589441 MsaT014401.1:CDS
GTGTTCTGATGCGACTGCAT+TGG 0.609359 3:-72589556 None:intergenic
TAATCCGATGAAGAAGAACT+AGG 0.616056 3:-72589202 None:intergenic
AGGCGAACATGATGTTGATG+AGG 0.616849 3:+72588336 MsaT014401.1:CDS
TGGATGAACAAAGGGACACT+CGG 0.617153 3:-72588897 None:intergenic
CCATGTGGCCGACTCAGACT+CGG 0.618450 3:+72589314 MsaT014401.1:CDS
TGATGCGACTGCATTGGTGT+CGG 0.622152 3:-72589550 None:intergenic
TGAGAATAAGCCCTTGAACA+AGG 0.627841 3:-72588866 None:intergenic
AACATGAAAATCTCCTTATG+CGG 0.633353 3:+72589422 MsaT014401.1:CDS
GTGTCCCTTTGTTCATCCAG+GGG 0.633464 3:+72588901 MsaT014401.1:CDS
GATGCTGCAGATGGAGTCAA+AGG 0.643097 3:-72589274 None:intergenic
GTATGAAGCCGAGTCTGAGT+CGG 0.648321 3:-72589322 None:intergenic
AGGAAATGGGATATGAAGAG+AGG 0.649200 3:+72588392 MsaT014401.1:CDS
GTAGATGTTAACCGAGTATG+CGG 0.658936 3:+72588484 MsaT014401.1:CDS
CTTTATTGAGCGCACCAGCG+TGG 0.660917 3:+72589678 MsaT014401.1:CDS
ATGATCCCTTCCGAAAGTCG+GGG 0.672164 3:-72588976 None:intergenic
TGCCTACGGCTGGAACCATG+TGG 0.681407 3:+72589299 MsaT014401.1:CDS
GCTGCAGATGGAGTCAAAGG+TGG 0.696337 3:-72589271 None:intergenic
ATGGCATCAACTCTTAATTG+TGG 0.699766 3:-72589637 None:intergenic
GATGCTTGTAAATATGCACA+TGG 0.719936 3:+72589010 MsaT014401.1:CDS
ATAGCAAGTGAGGTAGCACA+AGG 0.724605 3:-72589713 None:intergenic
GAGTTGATGCCATCACAAAG+CGG 0.725373 3:+72589647 MsaT014401.1:CDS
AACACGAACCATCAACTCTG+GGG 0.733137 3:+72589574 MsaT014401.1:CDS
GAACCGGTAGAAACATACAA+CGG 0.789878 3:-72589145 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 72588310 72589747 72588310 ID=MsaG014401
Chr3 mRNA 72588310 72589747 72588310 ID=MsaT014401.1;Parent=MsaG014401
Chr3 exon 72588310 72588629 72588310 ID=MsaT014401.1.exon1;Parent=MsaT014401.1
Chr3 CDS 72588310 72588629 72588310 ID=cds.MsaT014401.1;Parent=MsaT014401.1
Chr3 exon 72588673 72589031 72588673 ID=MsaT014401.1.exon2;Parent=MsaT014401.1
Chr3 CDS 72588673 72589031 72588673 ID=cds.MsaT014401.1;Parent=MsaT014401.1
Chr3 exon 72589134 72589747 72589134 ID=MsaT014401.1.exon3;Parent=MsaT014401.1
Chr3 CDS 72589134 72589747 72589134 ID=cds.MsaT014401.1;Parent=MsaT014401.1
Gene Sequence

>MsaT014401.1

ATGGCTTTCACAGATGTTGTTGAAAAAGGCGAACATGATGTTGATGAGGTAGGGTTAAGGTATGGAAGGAGGGTTGGATCGAAGGAAATGGGATATGAAGAGAGGACACCTCTTATGGTTTCTGCCTTATTTGGAAGCAAGGGTGTCCTGTCTTATATTATTGGAACCGGTCGTGTAGATGTTAACCGAGTATGCGGCTCAGATAAGGCTACTGCTCTTCATTGTGCTGTTTCTGGTTGTTCTGCCACTTCTGCTGAGGTTATCAAGCTTTTGCTTGATGCATCTACAAATGGTAGTTCTGTTGTTGCGAATGGCAACCGTGAAGATGACTTTTATGTTGATGACACTGACAATATTCTTAAGGAAGCAGGTTTCCAAATGGTGAAGCTGCTACAAGATGCAGGTACACCTCACACTGAGAAGAAAGATTATCCGATTGATCGATCCCTTCCTGAGATAAATAATGGGATATATAGTACAAATGAATTTAGGATGTTTACATTCAAAGTGAAGCCTTGTTCAAGGGCTTATTCTCATGATTGGACCGAGTGTCCCTTTGTTCATCCAGGGGAAAATGCAAAGCGCCGTGATCCAAGGAAATATCATTATACCTGTGTCCCTTGCCCCGACTTTCGGAAGGGATCATGCAGCAAAGGAGATGCTTGTAAATATGCACATGATGAGCTTCGACCGTTGTATGTTTCTACCGGTTCTGCTTTGCCTTCACCTACATCATATTCGAATTCACCTAGTTCTTCTTCATCGGATTATTTCACATTGAGCTCTCCGTCTTATTTGACACAATCTGCATCGCCGCCACCTTTGACTCCATCTGCAGCATCATTGCCTACGGCTGGAACCATGTGGCCGACTCAGACTCGGCTTCATACTGTAGTCCCAGCTCTTCAGATGCCAAGAAACAGATTGAAAACTGCACTGAATGCTGTAGATAACATTGAATTTATCGAACATGAAAATCTCCTTATGCGGAAGTTAATGACGGGAGAGGTGACAAGTCTTTCATCTCCTTCAAATAGGCTTGCAGGAGTTAATCCCGCTAACCTTGAAAACATTTTCGGGTCATCAACACAATCTCCGACACCAATGCAGTCGCATCAGAACACGAACCATCAACTCTGGGGCTATCCTTCTGATCTTACCAATTCAAATGTTATTGGATCACCACAATTAAGAGTTGATGCCATCACAAAGCGGAGCGAGAGCTTTATTGAGCGCACCAGCGTGGCAAGCTTTAAGTCCTTGTGCTACCTCACTTGCTATGGATTCTTCTAA
Protein sequence

>MsaT014401.1

MAFTDVVEKGEHDVDEVGLRYGRRVGSKEMGYEERTPLMVSALFGSKGVLSYIIGTGRVDVNRVCGSDKATALHCAVSGCSATSAEVIKLLLDASTNGSSVVANGNREDDFYVDDTDNILKEAGFQMVKLLQDAGTPHTEKKDYPIDRSLPEINNGIYSTNEFRMFTFKVKPCSRAYSHDWTECPFVHPGENAKRRDPRKYHYTCVPCPDFRKGSCSKGDACKYAHDELRPLYVSTGSALPSPTSYSNSPSSSSSDYFTLSSPSYLTQSASPPPLTPSAASLPTAGTMWPTQTRLHTVVPALQMPRNRLKTALNAVDNIEFIEHENLLMRKLMTGEVTSLSSPSNRLAGVNPANLENIFGSSTQSPTPMQSHQNTNHQLWGYPSDLTNSNVIGSPQLRVDAITKRSESFIERTSVASFKSLCYLTCYGFF*