AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG001453

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001453 MtrunA17_Chr1g0163181 78.054 442 79 5 26 465 11 436 0.0 694
MsaG001453 MtrunA17_Chr1g0163201 73.589 443 52 6 35 469 18 403 0.0 618
MsaG001453 MtrunA17_Chr1g0163251 50.633 395 145 8 26 401 11 374 2.09e-121 360
MsaG001453 MtrunA17_Chr1g0163111 71.094 256 46 5 207 460 1 230 5.93e-121 352
MsaG001453 MtrunA17_Chr1g0163151 66.929 254 51 2 207 459 1 222 4.24e-116 340
MsaG001453 MtrunA17_Chr1g0163261 43.730 311 130 4 29 329 18 293 5.50e-83 258
MsaG001453 MtrunA17_Chr1g0163231 46.667 300 118 9 29 322 18 281 1.03e-77 244
MsaG001453 MtrunA17_Chr1g0171611 45.000 300 111 7 29 322 18 269 4.29e-74 235
MsaG001453 MtrunA17_Chr1g0163191 74.251 167 27 1 26 192 11 161 7.50e-68 214
MsaG001453 MtrunA17_Chr1g0163241 60.112 178 43 2 25 201 12 162 4.91e-61 196
MsaG001453 MtrunA17_Chr6g0476171 34.948 289 134 9 177 457 2 244 1.45e-39 143
MsaG001453 MtrunA17_Chr8g0390841 25.257 487 288 14 29 457 48 516 3.67e-38 145
MsaG001453 MtrunA17_Chr1g0163131 34.014 294 177 10 29 319 27 306 1.53e-37 139
MsaG001453 MtrunA17_Chr1g0163131 55.696 79 31 2 384 460 232 308 3.77e-19 88.2
MsaG001453 MtrunA17_Chr1g0162151 34.496 258 110 6 207 457 1 206 3.29e-37 135
MsaG001453 MtrunA17_Chr1g0208771 24.786 468 284 14 35 457 12 456 6.96e-34 132
MsaG001453 MtrunA17_Chr1g0163091 43.182 132 69 2 207 332 1 132 1.04e-30 116
MsaG001453 MtrunA17_Chr7g0233561 29.904 311 190 8 29 328 27 320 2.87e-30 120
MsaG001453 MtrunA17_Chr7g0233541 30.435 299 174 10 36 320 2 280 4.79e-30 118
MsaG001453 MtrunA17_Chr3g0131891 30.769 299 177 8 29 320 28 303 1.25e-29 118
MsaG001453 MtrunA17_Chr7g0233521 30.584 291 167 9 36 320 2 263 3.61e-29 115
MsaG001453 MtrunA17_Chr1g0163101 45.113 133 63 3 29 158 26 151 2.19e-28 110
MsaG001453 MtrunA17_Chr3g0103171 25.676 296 172 8 35 318 5 264 8.87e-26 105
MsaG001453 MtrunA17_Chr1g0162161 36.747 166 79 5 36 201 4 143 1.21e-25 102
MsaG001453 MtrunA17_Chr1g0163071 25.566 309 201 8 36 327 2 298 1.65e-24 103
MsaG001453 MtrunA17_Chr1g0163121 44.545 110 58 2 34 141 9 117 3.29e-24 98.2
MsaG001453 MtrunA17_Chr3g0103181 25.246 305 176 10 26 318 14 278 8.86e-24 100
MsaG001453 MtrunA17_Chr7g0233531 28.763 299 162 9 36 320 2 263 1.75e-23 100
MsaG001453 MtrunA17_Chr6g0476181 36.747 166 91 5 36 201 2 153 1.20e-22 94.4
MsaG001453 MtrunA17_Chr1g0163081 36.923 130 72 3 36 163 6 127 1.92e-21 90.5
MsaG001453 MtrunA17_Chr4g0067431 28.179 291 191 10 25 306 16 297 2.52e-21 94.7
MsaG001453 MtrunA17_Chr7g0233571 28.000 225 142 4 20 237 6 217 4.54e-20 89.0
MsaG001453 MtrunA17_Chr1g0163221 26.923 312 174 11 29 323 20 294 5.83e-19 88.2
MsaG001453 MtrunA17_Chr1g0163141 38.400 125 74 2 32 156 7 128 6.04e-19 84.7
MsaG001453 MtrunA17_Chr3g0103151 35.200 125 74 4 25 145 13 134 3.88e-18 81.6
MsaG001453 MtrunA17_Chr3g0103191 33.577 137 81 4 16 145 1 134 6.10e-18 83.2
MsaG001453 MtrunA17_Chr5g0419201 34.646 127 76 3 29 149 25 150 6.57e-18 81.6
MsaG001453 MtrunA17_Chr1g0163161 37.615 109 55 2 48 156 1 96 2.26e-17 78.6
MsaG001453 MtrunA17_Chr6g0467351 36.937 111 67 2 28 135 23 133 6.00e-16 77.0
MsaG001453 MtrunA17_Chr1g0154041 21.410 383 240 10 32 378 27 384 4.65e-12 68.2
MsaG001453 MtrunA17_Chr3g0077461 29.371 143 91 4 17 156 240 375 1.16e-11 66.6
MsaG001453 MtrunA17_Chr4g0033961 33.333 129 76 3 29 149 15 141 1.40e-11 66.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001453 AT3G18990.2 24.699 332 202 10 29 321 15 337 3.54e-18 86.7
MsaG001453 AT3G18990.1 24.699 332 202 10 29 321 15 337 4.62e-18 85.9

Find 87 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAACACCGTTTGGAAATTTA+AGG 0.151014 1:-20279765 None:intergenic
TTTGCAAAGCCTTTCAAATA+TGG 0.200041 1:+20279850 MsaT001453.1:CDS
GAAACACCTAGTAATTTCTT+TGG 0.254190 1:-20281062 None:intergenic
AAATATTGTGGAGTTGAAAA+TGG 0.256652 1:+20282433 MsaT001453.1:CDS
CCCTCAAGAAAATTTCCTTT+TGG 0.271368 1:-20281258 None:intergenic
TATTTCTCCACATATATCTT+AGG 0.281171 1:-20279715 None:intergenic
GGAGTGTGGAAGTGGGTTTA+AGG 0.287521 1:+20280883 MsaT001453.1:CDS
GCATAACACATTCAAGGTTT+TGG 0.294441 1:+20282263 MsaT001453.1:CDS
TTTGGAAATTTAAGGAATAT+AGG 0.302976 1:-20279757 None:intergenic
TTCTCTCATCAATCAACTTA+AGG 0.303800 1:-20282574 None:intergenic
CTCTTAACTTTCAAATTCAT+TGG 0.314459 1:+20279877 MsaT001453.1:CDS
AGATATATGTGGAGAAATAT+TGG 0.326941 1:+20279719 MsaT001453.1:CDS
CTTGGAGAACAAACAGCTAA+TGG 0.342183 1:-20282632 None:intergenic
GTGTTTGATGTTTCAATTGC+AGG 0.344942 1:+20282602 MsaT001453.1:CDS
TTGGAAATTTAAGGAATATA+GGG 0.346499 1:-20279756 None:intergenic
ATAGTAACAGTGAATAAAAT+TGG 0.350107 1:-20281017 None:intergenic
ATGCTCAGCTAATGGATTCT+TGG 0.352041 1:-20282650 None:intergenic
AAACACCTAGTAATTTCTTT+GGG 0.357748 1:-20281061 None:intergenic
AATTATTATGAGAGTATTCA+TGG 0.374261 1:+20282482 MsaT001453.1:CDS
CCTAGTAATTTCTTTGGGCT+TGG 0.381459 1:-20281056 None:intergenic
TGGCAAAAGAAAAGCAAGTA+TGG 0.385288 1:+20280155 MsaT001453.1:CDS
TACCGAATTGCCGCTGAGCT+TGG 0.400116 1:-20278621 None:intergenic
TCATTAACAGCTTCGGATGT+TGG 0.413325 1:-20280655 None:intergenic
ATAATTTATTTCTAAAGTAT+TGG 0.414924 1:-20279932 None:intergenic
GAGGTGGTTGGAAAATATTC+AGG 0.424095 1:+20280937 MsaT001453.1:CDS
AAAGAATGCAAAGTGGAGAT+TGG 0.426567 1:+20282539 MsaT001453.1:CDS
TACCAAGGAAAACTCTTGTA+TGG 0.429636 1:+20280914 MsaT001453.1:CDS
CCAAGCCCAAAGAAATTACT+AGG 0.436880 1:+20281056 MsaT001453.1:CDS
TGGAGAGTAATGGTGATGTT+TGG 0.440699 1:+20279806 MsaT001453.1:CDS
GAGCTTGGCTGAACTGCAAT+CGG 0.449915 1:-20278606 None:intergenic
AATATTGTGGAGTTGAAAAT+GGG 0.451536 1:+20282434 MsaT001453.1:CDS
GATGAAGCATAACACATTCA+AGG 0.455053 1:+20282257 MsaT001453.1:CDS
CAAGCTCAAAGGACAAGAAA+TGG 0.458246 1:+20280135 MsaT001453.1:CDS
GGGATTCTCATTAACAGCTT+CGG 0.464683 1:-20280662 None:intergenic
CAAAGTGGCCATGGTGAAGA+AGG 0.465563 1:+20280621 MsaT001453.1:CDS
GATGATGAAGCCACAGAAGA+AGG 0.466466 1:+20280057 MsaT001453.1:CDS
TGTCATTATAACTTGAAAAG+AGG 0.472819 1:-20280683 None:intergenic
TTAACTTTCAAATTCATTGG+TGG 0.475675 1:+20279880 MsaT001453.1:CDS
GTCATTATAACTTGAAAAGA+GGG 0.482400 1:-20280682 None:intergenic
GGTGCTGAAGCCACTGAAGA+AGG 0.486856 1:+20279979 MsaT001453.1:CDS
AGCCAAGCTCAGCGGCAATT+CGG 0.488549 1:+20278619 MsaT001453.1:CDS
ACTACCAAACAAAATTTCTC+AGG 0.491692 1:+20280186 MsaT001453.1:CDS
TCATGGCTGCAGATTCAGTA+AGG 0.502175 1:+20282499 MsaT001453.1:CDS
TCATAGTAGTGTTGTAAAGA+AGG 0.502465 1:+20281206 MsaT001453.1:CDS
TGAAAATGGGGAGGAAGTCA+TGG 0.505391 1:+20282447 MsaT001453.1:CDS
ACTTTCTTCCCCTTCTTCTG+TGG 0.508711 1:-20280067 None:intergenic
CCAAAGGAGTTCATGAAAAG+AGG 0.514812 1:+20282401 MsaT001453.1:CDS
ACTTTCTTGAACTTCTTCTG+TGG 0.518992 1:-20280022 None:intergenic
AAGAGATATCCATATTTGAA+AGG 0.520085 1:-20279859 None:intergenic
GTTGTAAAGAAGGAAGACAT+TGG 0.525708 1:+20281216 MsaT001453.1:CDS
GAGTTCTGATGAAGTTGAAA+TGG 0.525927 1:+20280107 MsaT001453.1:CDS
AGGATGTCATGAAAATATTG+TGG 0.531604 1:+20282421 MsaT001453.1:CDS
ATATTCCTTAAATTTCCAAA+CGG 0.536219 1:+20279760 MsaT001453.1:CDS
ATGATGAAGCCACAGAAGAA+GGG 0.537678 1:+20280058 MsaT001453.1:CDS
AATATCAAAGCAGTTGATGA+AGG 0.544297 1:+20279958 MsaT001453.1:CDS
ACTTGACTCGCCTTCTTCAG+TGG 0.548239 1:-20279989 None:intergenic
TAATGAAAGGAGTGTGGAAG+TGG 0.550991 1:+20280875 MsaT001453.1:CDS
CAATAAGAGTTGGTAATGAA+AGG 0.551596 1:+20280862 MsaT001453.1:CDS
TGTTCTCTTGAAAACTCACT+TGG 0.555107 1:-20280813 None:intergenic
ACCAAGGAAAACTCTTGTAT+GGG 0.558782 1:+20280915 MsaT001453.1:CDS
ACTTCTATGAGCCATCCAAA+AGG 0.562331 1:+20281243 MsaT001453.1:CDS
GGGACTGCAACAATAAGAGT+TGG 0.570294 1:+20280852 MsaT001453.1:CDS
AACGACACTGCCATGTCTGT+TGG 0.574077 1:-20278580 None:intergenic
AGTTGGTAATGAAAGGAGTG+TGG 0.575242 1:+20280869 MsaT001453.1:CDS
GAAAACTCTTGTATGGGAGG+TGG 0.585914 1:+20280921 MsaT001453.1:CDS
ACTTACCAAGTGATAGCCAT+TGG 0.585954 1:-20280716 None:intergenic
GAGGGTTCCTAAGATATATG+TGG 0.586451 1:+20279708 MsaT001453.1:intron
GTATTTGTAGAGTGTACCAA+AGG 0.588430 1:+20282385 MsaT001453.1:intron
AGGTAGTAACAAAGTGGCCA+TGG 0.588636 1:+20280612 MsaT001453.1:intron
ACTCTTGTATGGGAGGTGGT+TGG 0.598499 1:+20280925 MsaT001453.1:CDS
TGATGAAGCCACAGAAGAAG+GGG 0.605605 1:+20280059 MsaT001453.1:CDS
ATGACACAATCTTACGCCAA+TGG 0.605919 1:+20280700 MsaT001453.1:CDS
ATTTATGAAAGAATGCAAAG+TGG 0.609427 1:+20282532 MsaT001453.1:CDS
TTACGCCAATGGCTATCACT+TGG 0.610546 1:+20280711 MsaT001453.1:CDS
TATGTGGAGAAATATTGGAA+AGG 0.617787 1:+20279724 MsaT001453.1:CDS
GCTGCAGATTCAGTAAGGGA+TGG 0.619047 1:+20282504 MsaT001453.1:CDS
TTTAAGGTATTATGATACCA+AGG 0.620069 1:+20280899 MsaT001453.1:CDS
TTTGGTGAAGAACACAGACC+CGG 0.625237 1:+20282281 MsaT001453.1:CDS
AAATGGCAAAGCAAGCTCAA+AGG 0.625671 1:+20280124 MsaT001453.1:CDS
AAGGAAAACTCTTGTATGGG+AGG 0.629797 1:+20280918 MsaT001453.1:CDS
TTGTGGAGTTGAAAATGGGG+AGG 0.632079 1:+20282438 MsaT001453.1:CDS
CATGGCTGCAGATTCAGTAA+GGG 0.636738 1:+20282500 MsaT001453.1:CDS
AATGAAAGGAGTGTGGAAGT+GGG 0.647980 1:+20280876 MsaT001453.1:CDS
CTTTGCAGGTAGTAACAAAG+TGG 0.652952 1:+20280606 MsaT001453.1:intron
TCATCTTCATCCAACAGACA+TGG 0.668320 1:+20278570 MsaT001453.1:CDS
TGCAGTTCAGCCAAGCTCAG+CGG 0.670925 1:+20278611 MsaT001453.1:CDS
ATATTGTGGAGTTGAAAATG+GGG 0.692849 1:+20282435 MsaT001453.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 20278564 20282664 20278564 ID=MsaG001453
Chr1 mRNA 20278564 20282664 20278564 ID=MsaT001453.1;Parent=MsaG001453
Chr1 exon 20278564 20278640 20278564 ID=MsaT001453.1.exon1;Parent=MsaT001453.1
Chr1 CDS 20278564 20278640 20278564 ID=cds.MsaT001453.1;Parent=MsaT001453.1
Chr1 exon 20279565 20279589 20279565 ID=MsaT001453.1.exon2;Parent=MsaT001453.1
Chr1 CDS 20279565 20279589 20279565 ID=cds.MsaT001453.1;Parent=MsaT001453.1
Chr1 exon 20279709 20280207 20279709 ID=MsaT001453.1.exon3;Parent=MsaT001453.1
Chr1 CDS 20279709 20280207 20279709 ID=cds.MsaT001453.1;Parent=MsaT001453.1
Chr1 exon 20280614 20280732 20280614 ID=MsaT001453.1.exon4;Parent=MsaT001453.1
Chr1 CDS 20280614 20280732 20280614 ID=cds.MsaT001453.1;Parent=MsaT001453.1
Chr1 exon 20280807 20281077 20280807 ID=MsaT001453.1.exon5;Parent=MsaT001453.1
Chr1 CDS 20280807 20281077 20280807 ID=cds.MsaT001453.1;Parent=MsaT001453.1
Chr1 exon 20281184 20281279 20281184 ID=MsaT001453.1.exon6;Parent=MsaT001453.1
Chr1 CDS 20281184 20281279 20281184 ID=cds.MsaT001453.1;Parent=MsaT001453.1
Chr1 exon 20282244 20282302 20282244 ID=MsaT001453.1.exon7;Parent=MsaT001453.1
Chr1 CDS 20282244 20282302 20282244 ID=cds.MsaT001453.1;Parent=MsaT001453.1
Chr1 exon 20282395 20282664 20282395 ID=MsaT001453.1.exon8;Parent=MsaT001453.1
Chr1 CDS 20282395 20282664 20282395 ID=cds.MsaT001453.1;Parent=MsaT001453.1
Gene Sequence

>MsaT001453.1

ATGTCTTCATCTTCATCCAACAGACATGGCAGTGTCGTTGCTCCGATTGCAGTTCAGCCAAGCTCAGCGGCAATTCGGATAATTTTGCAAGATAAGAAACTTAGGGTTCCTAAGATATATGTGGAGAAATATTGGAAAGGAATATCAAACCCTATATTCCTTAAATTTCCAAACGGTGTTGAACAAAAAATATTTTGGGTGGAGAGTAATGGTGATGTTTGGTTTCAAAAAAATTGGGAAAGTTTTGCAAAGCCTTTCAAATATGGATATCTCTTAACTTTCAAATTCATTGGTGGATCATATTTTAAGGTTAAGATATTTGGTGCCAATACTTTAGAAATAAATTATGCAAATATCAAAGCAGTTGATGAAGGTGCTGAAGCCACTGAAGAAGGCGAGTCAAGTGATGATGAAGCCACAGAAGAAGTTCAAGAAAGTGATGAATCAAGTGATGATGAAGCCACAGAAGAAGGGGAAGAAAGTGATGAAGAGAGTGATGAGAGTTCTGATGAAGTTGAAATGGCAAAGCAAGCTCAAAGGACAAGAAATGGCAAAAGAAAAGCAAGTATGGATTTTGACACTACCAAACAAAATTTCTCAGGTAGTAACAAAGTGGCCATGGTGAAGAAGGCTAGAAAATATCCAACATCCGAAGCTGTTAATGAGAATCCCTCTTTTCAAGTTATAATGACACAATCTTACGCCAATGGCTATCACTTGTGGTTACCAAGTGAGTTTTCAAGAGAACACTTGAAAGATTTTAAAGGGACTGCAACAATAAGAGTTGGTAATGAAAGGAGTGTGGAAGTGGGTTTAAGGTATTATGATACCAAGGAAAACTCTTGTATGGGAGGTGGTTGGAAAATATTCAGGCAAAAATATAATTTGCAAGTTGATGATGTTTGTAAATTTGAGATGATTCAAAGAAGACCAATTTTATTCACTGTTACTATTACTCGTGCTAAGAAACCAAGCCCAAAGAAATTACTAGGTTATAAAAAAGGGGTCTCTTGTCATAGTAGTGTTGTAAAGAAGGAAGACATTGGAGAAACTTCTATGAGCCATCCAAAAGGAAATTTTCTTGAGGAAGGTCGTGATGTGATGAAGCATAACACATTCAAGGTTTTGGTGAAGAACACAGACCCGAGTGTACCAAAGGAGTTCATGAAAAGAGGATGTCATGAAAATATTGTGGAGTTGAAAATGGGGAGGAAGTCATGGTTTGTAAAAGTGAATTATTATGAGAGTATTCATGGCTGCAGATTCAGTAAGGGATGGAGAAAATTTATGAAAGAATGCAAAGTGGAGATTGGAGATACTTGTCTCCTTAAGTTGATTGATGAGAGAAAATTTGTGTTTGATGTTTCAATTGCAGGAAAGAATCCATTAGCTGTTTGTTCTCCAAGAATCCATTAG
Protein sequence

>MsaT001453.1

MSSSSSNRHGSVVAPIAVQPSSAAIRIILQDKKLRVPKIYVEKYWKGISNPIFLKFPNGVEQKIFWVESNGDVWFQKNWESFAKPFKYGYLLTFKFIGGSYFKVKIFGANTLEINYANIKAVDEGAEATEEGESSDDEATEEVQESDESSDDEATEEGEESDEESDESSDEVEMAKQAQRTRNGKRKASMDFDTTKQNFSGSNKVAMVKKARKYPTSEAVNENPSFQVIMTQSYANGYHLWLPSEFSREHLKDFKGTATIRVGNERSVEVGLRYYDTKENSCMGGGWKIFRQKYNLQVDDVCKFEMIQRRPILFTVTITRAKKPSPKKLLGYKKGVSCHSSVVKKEDIGETSMSHPKGNFLEEGRDVMKHNTFKVLVKNTDPSVPKEFMKRGCHENIVELKMGRKSWFVKVNYYESIHGCRFSKGWRKFMKECKVEIGDTCLLKLIDERKFVFDVSIAGKNPLAVCSPRIH*