AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG002178

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002178 MtrunA17_Chr1g0163231 90.175 285 25 3 1 284 1 283 0.0 524
MsaG002178 MtrunA17_Chr1g0171611 86.364 286 22 2 1 284 1 271 2.49e-173 485
MsaG002178 MtrunA17_Chr1g0163261 56.566 297 102 7 1 282 1 285 8.08e-102 304
MsaG002178 MtrunA17_Chr1g0163251 48.466 326 136 8 1 304 1 316 6.33e-93 284
MsaG002178 MtrunA17_Chr1g0163181 42.469 405 182 12 1 366 1 393 2.56e-91 281
MsaG002178 MtrunA17_Chr1g0163201 45.355 366 150 12 24 366 18 356 8.54e-88 271
MsaG002178 MtrunA17_Chr1g0163241 59.055 127 49 1 24 147 22 148 3.82e-45 153
MsaG002178 MtrunA17_Chr1g0163191 55.285 123 50 2 1 122 1 119 2.20e-39 138
MsaG002178 MtrunA17_Chr7g0233561 31.633 294 178 7 6 276 15 308 2.37e-33 127
MsaG002178 MtrunA17_Chr1g0163111 42.857 210 98 11 161 366 1 192 6.56e-33 123
MsaG002178 MtrunA17_Chr3g0131891 31.959 291 171 11 6 276 16 299 6.00e-32 123
MsaG002178 MtrunA17_Chr1g0163151 38.235 204 100 7 161 362 1 180 1.47e-30 117
MsaG002178 MtrunA17_Chr1g0163091 49.600 125 56 3 161 282 1 121 4.52e-28 108
MsaG002178 MtrunA17_Chr1g0162161 43.662 142 67 5 25 155 4 143 8.21e-28 107
MsaG002178 MtrunA17_Chr1g0162151 41.315 213 82 9 161 369 1 174 7.08e-27 107
MsaG002178 MtrunA17_Chr1g0163131 36.875 160 91 4 5 155 14 172 1.98e-26 107
MsaG002178 MtrunA17_Chr1g0163101 36.310 168 92 4 2 158 3 166 3.54e-26 103
MsaG002178 MtrunA17_Chr6g0476171 32.579 221 122 5 158 368 7 210 3.23e-24 100
MsaG002178 MtrunA17_Chr1g0163121 43.750 112 62 1 20 131 6 116 4.70e-24 97.1
MsaG002178 MtrunA17_Chr8g0390841 26.518 313 175 10 2 276 32 327 6.18e-24 103
MsaG002178 MtrunA17_Chr7g0233521 27.839 273 161 7 25 276 2 259 7.39e-24 100
MsaG002178 MtrunA17_Chr7g0233531 30.037 273 155 9 25 276 2 259 1.04e-23 99.8
MsaG002178 MtrunA17_Chr1g0163081 43.925 107 59 1 25 131 6 111 2.04e-23 95.1
MsaG002178 MtrunA17_Chr7g0233541 26.644 289 161 6 25 276 2 276 8.11e-23 97.4
MsaG002178 MtrunA17_Chr1g0163141 36.923 130 72 2 23 143 9 137 2.55e-22 93.6
MsaG002178 MtrunA17_Chr5g0419201 33.333 180 93 4 3 155 10 189 1.23e-21 91.7
MsaG002178 MtrunA17_Chr7g0233571 31.429 175 110 3 6 175 7 176 2.34e-21 91.7
MsaG002178 MtrunA17_Chr6g0476181 36.601 153 74 4 25 155 2 153 2.75e-21 89.7
MsaG002178 MtrunA17_Chr1g0208771 25.685 292 161 10 24 276 12 286 3.96e-21 94.7
MsaG002178 MtrunA17_Chr1g0163221 27.338 278 174 7 9 268 11 278 3.28e-20 91.3
MsaG002178 MtrunA17_Chr3g0103181 24.382 283 187 8 6 276 9 276 7.07e-20 89.0
MsaG002178 MtrunA17_Chr4g0067431 24.590 305 182 10 9 276 15 308 1.33e-18 85.9
MsaG002178 MtrunA17_Chr1g0163071 24.242 297 165 10 25 276 2 283 5.53e-18 84.0
MsaG002178 MtrunA17_Chr3g0103191 34.646 127 72 3 6 130 9 126 6.67e-18 82.8
MsaG002178 MtrunA17_Chr3g0103151 34.921 126 72 3 6 129 9 126 1.38e-17 79.7
MsaG002178 MtrunA17_Chr6g0467351 40.179 112 60 3 9 117 15 122 1.54e-17 81.3
MsaG002178 MtrunA17_Chr3g0103171 23.985 271 175 10 24 276 5 262 1.84e-17 81.6
MsaG002178 MtrunA17_Chr1g0163161 35.417 96 61 1 37 132 1 95 2.35e-14 69.7
MsaG002178 MtrunA17_Chr1g0163061 36.634 101 61 2 8 105 14 114 1.34e-13 70.5
MsaG002178 MtrunA17_Chr3g0077451 24.046 262 160 8 23 281 10 235 1.96e-11 63.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002178 AT3G18990.2 22.849 372 203 11 9 310 6 363 6.42e-12 67.0

Find 67 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCTTGCAGATGACACTTTA+AGG 0.106253 1:-33532418 None:intergenic
GTGCTCAAAAGGAAATATTT+TGG 0.171981 1:+33531670 MsaT002178.1:CDS
AAAATCTTAACCTTAAAATA+TGG 0.178478 1:-33531792 None:intergenic
TCTTCTTATGATGATGATAT+TGG 0.197327 1:+33532762 MsaT002178.1:CDS
ATTATCAGTCAACAGGATTT+AGG 0.220407 1:+33533497 MsaT002178.1:CDS
ATATTTGGTTTAAGAGAAAT+TGG 0.235240 1:+33531709 MsaT002178.1:CDS
AGAAATTTGTGGAGAAATAT+TGG 0.241294 1:+33531607 MsaT002178.1:CDS
TTTGGAAGTCTAAGAATTAC+TGG 0.251892 1:-33531645 None:intergenic
GCTTTAGTATTCAAATATTT+AGG 0.260785 1:+33531765 MsaT002178.1:CDS
AGTCTAAGAATTACTGGATT+TGG 0.299817 1:-33531639 None:intergenic
ATATTTCTCCACAAATTTCT+TGG 0.318034 1:-33531604 None:intergenic
ACTATCTTCAAGAACTCTTC+TGG 0.329140 1:-33531349 None:intergenic
AGGTAGATTTACTCGGTTGC+AGG 0.345540 1:-33541284 None:intergenic
AAGAAGCATAAAGAGCTTCA+TGG 0.346703 1:+33533421 MsaT002178.1:CDS
CTTCTTATGATGATGATATT+GGG 0.358933 1:+33532763 MsaT002178.1:CDS
ATTTGTTCTCGTTTGTTGTT+TGG 0.359373 1:-33541319 None:intergenic
TGGAGCGTGAAGGTGATATT+TGG 0.370024 1:+33531694 MsaT002178.1:CDS
GGGAAGAGAAGAGGCATTGA+AGG 0.377729 1:+33532783 MsaT002178.1:CDS
AACATCACCTTCACTTTCAT+AGG 0.384516 1:-33532461 None:intergenic
TTTGGCTTGGGTAGTAGTTA+TGG 0.389093 1:-33532612 None:intergenic
TCGAAATCATGAACTACATA+AGG 0.397577 1:+33531372 MsaT002178.1:CDS
TATTTCTCCACAAATTTCTT+GGG 0.405795 1:-33531603 None:intergenic
TTTGCAAAGTCTCTAAAAGA+TGG 0.419454 1:+33531738 MsaT002178.1:CDS
TCATCTGCAAGCATTAGATT+TGG 0.426141 1:+33532428 MsaT002178.1:CDS
GACAATTCAAGTTCAAAACT+TGG 0.430631 1:-33532164 None:intergenic
GTGACATATTATCAGTCAAC+AGG 0.441169 1:+33533490 MsaT002178.1:CDS
AAATTTGTGGAGTTGACAAA+TGG 0.443876 1:+33533445 MsaT002178.1:CDS
ACTTCCAAATGGTGCTCAAA+AGG 0.444677 1:+33531659 MsaT002178.1:CDS
AAATCTTAACCTTAAAATAT+GGG 0.446492 1:-33531791 None:intergenic
AGAGCTTCATGGAAAATTTG+TGG 0.455759 1:+33533432 MsaT002178.1:CDS
GGCAAATGGCTTCCAACCAC+TGG 0.462531 1:-33532519 None:intergenic
AATTTGTGGAGTTGACAAAT+GGG 0.465975 1:+33533446 MsaT002178.1:CDS
TATTTGGTTTAAGAGAAATT+GGG 0.488183 1:+33531710 MsaT002178.1:CDS
TTACGCCCATGGCTATACTT+TGG 0.489114 1:+33532193 MsaT002178.1:CDS
GAGGGTTCCCAAGAAATTTG+TGG 0.503049 1:+33531596 MsaT002178.1:intron
CGAAATCATGAACTACATAA+GGG 0.505471 1:+33531373 MsaT002178.1:CDS
ACAGGATTTAGGTTCTATGC+AGG 0.511151 1:+33533508 MsaT002178.1:CDS
GAGAGGAGGTATGATTAAGA+AGG 0.513052 1:+33532097 MsaT002178.1:CDS
TTCATTGATGAAAGTTGTGA+AGG 0.513828 1:+33531855 MsaT002178.1:CDS
TACTTTGCAGGTAGTAAGAG+AGG 0.516159 1:+33532080 MsaT002178.1:intron
TTTGTGGAGTTGACAAATGG+GGG 0.523569 1:+33533448 MsaT002178.1:CDS
GACTTACCAAAGTATAGCCA+TGG 0.533080 1:-33532199 None:intergenic
GTAGTTATGGTGAATGAAAG+TGG 0.542900 1:-33532599 None:intergenic
GTAATTCTTAGACTTCCAAA+TGG 0.548786 1:+33531648 MsaT002178.1:CDS
GAGGCATTGAAGGAAGTTCA+AGG 0.552649 1:+33532793 MsaT002178.1:CDS
ACACGAATCTCGATTGTGAT+CGG 0.556178 1:-33533278 None:intergenic
GACAATGTTACTAATAGTGC+TGG 0.567424 1:+33531912 MsaT002178.1:CDS
ATTATTCAGCAAAATATCAC+AGG 0.568492 1:+33531969 MsaT002178.1:CDS
TAGATCAGGTAGATCTAGCA+AGG 0.575522 1:-33541345 None:intergenic
ATTTGTGGAGTTGACAAATG+GGG 0.577541 1:+33533447 MsaT002178.1:CDS
TCGTGTGAATTCTACTTACC+CGG 0.579086 1:+33533295 MsaT002178.1:CDS
GATGATATTGGGAAGAGAAG+AGG 0.582027 1:+33532774 MsaT002178.1:CDS
TTAGTATTCAAATATTTAGG+TGG 0.586781 1:+33531768 MsaT002178.1:CDS
TTGTTTGGTTGTAAAAGCAA+AGG 0.587852 1:-33541304 None:intergenic
TATGCTCTTGAAAAGTCACT+TGG 0.596669 1:-33532383 None:intergenic
AAAGCAAAGGTAGATTTACT+CGG 0.598353 1:-33541291 None:intergenic
ATAGTGCTGGCACATCTCAA+AGG 0.602521 1:+33531925 MsaT002178.1:CDS
CTTGCATTGTGACCAGTGGT+TGG 0.607128 1:+33532507 MsaT002178.1:CDS
TTGTCACAATCTTACGCCCA+TGG 0.612713 1:+33532182 MsaT002178.1:CDS
TGTGTTTCAGCAGACTTAGG+TGG 0.616192 1:+33533242 MsaT002178.1:intron
CGGTTGCAGGAAAGATCAGT+CGG 0.623783 1:-33541271 None:intergenic
TTTGCAGGTAGTAAGAGAGG+AGG 0.644007 1:+33532083 MsaT002178.1:intron
ACTTACCAAAGTATAGCCAT+GGG 0.659069 1:-33532198 None:intergenic
ATAACTACTACCCAAGCCAA+AGG 0.667030 1:+33532614 MsaT002178.1:CDS
AGAACTTGCATTGTGACCAG+TGG 0.689771 1:+33532503 MsaT002178.1:CDS
AGATCAGGTAGATCTAGCAA+GGG 0.692769 1:-33541344 None:intergenic
GAACATGCCTATGAAAGTGA+AGG 0.707159 1:+33532454 MsaT002178.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 33531334 33541363 33531334 ID=MsaG002178
Chr1 mRNA 33531334 33541363 33531334 ID=MsaT002178.1;Parent=MsaG002178
Chr1 exon 33531334 33531402 33531334 ID=MsaT002178.1.exon1;Parent=MsaT002178.1
Chr1 CDS 33531334 33531402 33531334 ID=cds.MsaT002178.1;Parent=MsaT002178.1
Chr1 exon 33531597 33531990 33531597 ID=MsaT002178.1.exon2;Parent=MsaT002178.1
Chr1 CDS 33531597 33531990 33531597 ID=cds.MsaT002178.1;Parent=MsaT002178.1
Chr1 exon 33532090 33532214 33532090 ID=MsaT002178.1.exon3;Parent=MsaT002178.1
Chr1 CDS 33532090 33532214 33532090 ID=cds.MsaT002178.1;Parent=MsaT002178.1
Chr1 exon 33532377 33532635 33532377 ID=MsaT002178.1.exon4;Parent=MsaT002178.1
Chr1 CDS 33532377 33532635 33532377 ID=cds.MsaT002178.1;Parent=MsaT002178.1
Chr1 exon 33532754 33532819 33532754 ID=MsaT002178.1.exon5;Parent=MsaT002178.1
Chr1 CDS 33532754 33532819 33532754 ID=cds.MsaT002178.1;Parent=MsaT002178.1
Chr1 exon 33533255 33533316 33533255 ID=MsaT002178.1.exon6;Parent=MsaT002178.1
Chr1 CDS 33533255 33533316 33533255 ID=cds.MsaT002178.1;Parent=MsaT002178.1
Chr1 exon 33533400 33533529 33533400 ID=MsaT002178.1.exon7;Parent=MsaT002178.1
Chr1 CDS 33533400 33533529 33533400 ID=cds.MsaT002178.1;Parent=MsaT002178.1
Chr1 exon 33541269 33541363 33541269 ID=MsaT002178.1.exon8;Parent=MsaT002178.1
Chr1 CDS 33541269 33541363 33541269 ID=cds.MsaT002178.1;Parent=MsaT002178.1
Gene Sequence

>MsaT002178.1

ATGTCATTACATCATCCAGAAGAGTTCTTGAAGATAGTTCGAAATCATGAACTACATAAGGGAGAGCTTAGGGTTCCCAAGAAATTTGTGGAGAAATATTGGAAAAAAATACCAAATCCAGTAATTCTTAGACTTCCAAATGGTGCTCAAAAGGAAATATTTTGGGTGGAGCGTGAAGGTGATATTTGGTTTAAGAGAAATTGGGAGAATTTTGCAAAGTCTCTAAAAGATGGATATGCTTTAGTATTCAAATATTTAGGTGGCCCATATTTTAAGGTTAAGATTTTTGGTCACAATACATTGGAAAAAGACTATTCCAATATAAAATTCATTGATGAAAGTTGTGAAGGTAGAGAAGTTCAAGAAGTTGTTGAACTGAGTGATGACAATGTTACTAATAGTGCTGGCACATCTCAAAGGAGAAAAAACGGCAAGAGAAAAATTATTCAGCAAAATATCACAGGTAGTAAGAGAGGAGGTATGATTAAGAAGGCTAAAAAATGCTCAACAATTAGTGAGAGAGACAATAATGAGAATCCAAGTTTTGAACTTGAATTGTCACAATCTTACGCCCATGGCTATACTTTGAGGATACCAAGTGACTTTTCAAGAGCATATTTGAATGAGAACCTTAAAGTGTCATCTGCAAGCATTAGATTTGGTGAGAACATGCCTATGAAAGTGAAGGTGATGTTTCAAGATATCAAGAATAATAGAACTTGCATTGTGACCAGTGGTTGGAAGCCATTTGCCAAAAAATATAACTTACAAGTTGGTGATAAATGTAAATTTGTGATGACTCAACTTCAACCACTTTCATTCACCATAACTACTACCCAAGCCAAAGGAATGATCTCTTCTTATGATGATGATATTGGGAAGAGAAGAGGCATTGAAGGAAGTTCAAGGAGCTACTTAGGTGGTAATGTGATGAAACCGATCACAATCGAGATTCGTGTGAATTCTACTTACCCGTATATTCGACATGAGTTTTTTAAGAAGCATAAAGAGCTTCATGGAAAATTTGTGGAGTTGACAAATGGGGGAAAATCATGGTTGGTAAAAGTGACATATTATCAGTCAACAGGATTTAGGTTCTATGCAGATCCGACTGATCTTTCCTGCAACCGAGTAAATCTACCTTTGCTTTTACAACCAAACAACAAACGAGAACAAATCACCCTTGCTAGATCTACCTGA
Protein sequence

>MsaT002178.1

MSLHHPEEFLKIVRNHELHKGELRVPKKFVEKYWKKIPNPVILRLPNGAQKEIFWVEREGDIWFKRNWENFAKSLKDGYALVFKYLGGPYFKVKIFGHNTLEKDYSNIKFIDESCEGREVQEVVELSDDNVTNSAGTSQRRKNGKRKIIQQNITGSKRGGMIKKAKKCSTISERDNNENPSFELELSQSYAHGYTLRIPSDFSRAYLNENLKVSSASIRFGENMPMKVKVMFQDIKNNRTCIVTSGWKPFAKKYNLQVGDKCKFVMTQLQPLSFTITTTQAKGMISSYDDDIGKRRGIEGSSRSYLGGNVMKPITIEIRVNSTYPYIRHEFFKKHKELHGKFVELTNGGKSWLVKVTYYQSTGFRFYADPTDLSCNRVNLPLLLQPNNKREQITLARST*