AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG043689

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG043689 MtrunA17_Chr8g0365711 89.744 429 33 3 1 428 1 419 0.0 788
MsaG043689 MtrunA17_Chr1g0211081 30.402 523 252 17 3 428 9 516 9.10e-70 229
MsaG043689 MtrunA17_Chr2g0298751 33.721 172 111 2 243 413 51 220 1.29e-25 104
MsaG043689 MtrunA17_Chr3g0131691 31.364 220 124 5 218 424 270 475 1.45e-20 93.6
MsaG043689 MtrunA17_Chr4g0048851 31.818 198 112 4 217 414 20 194 2.52e-20 89.0
MsaG043689 MtrunA17_Chr4g0028071 28.804 184 115 3 235 417 140 308 2.68e-18 85.5
MsaG043689 MtrunA17_Chr2g0320291 30.952 168 86 3 236 396 125 269 4.76e-18 84.3
MsaG043689 MtrunA17_Chr7g0252041 31.183 186 120 4 243 424 285 466 2.87e-15 77.4
MsaG043689 MtrunA17_Chr4g0054571 32.450 151 85 4 246 391 152 290 6.21e-15 75.5
MsaG043689 MtrunA17_Chr4g0049331 28.906 256 154 10 159 407 50 284 6.65e-15 75.1
MsaG043689 MtrunA17_Chr5g0400661 27.326 172 104 4 246 407 151 311 2.46e-13 70.9
MsaG043689 MtrunA17_Chr4g0033391 25.434 173 104 4 239 407 142 293 6.27e-13 69.3
MsaG043689 MtrunA17_Chr7g0225901 25.146 171 111 4 245 414 89 243 1.89e-12 67.0
MsaG043689 MtrunA17_Chr5g0400621 23.445 209 138 4 207 407 112 306 1.93e-12 68.2
MsaG043689 MtrunA17_Chr2g0280161 25.967 181 121 3 227 407 160 327 1.94e-12 68.2
MsaG043689 MtrunA17_Chr4g0054581 25.309 162 111 4 246 407 200 351 2.57e-12 68.2
MsaG043689 MtrunA17_Chr2g0307131 26.738 187 115 5 227 407 158 328 2.59e-12 67.8
MsaG043689 MtrunA17_Chr5g0411341 29.341 167 107 5 248 412 497 654 2.88e-12 68.6
MsaG043689 MtrunA17_Chr4g0002801 22.045 313 209 9 96 407 29 307 2.70e-11 64.7
MsaG043689 MtrunA17_Chr8g0366751 29.630 162 102 5 249 408 467 618 3.09e-11 65.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG043689 AT1G10610.1 33.181 437 245 11 3 414 10 424 8.94e-68 222
MsaG043689 AT1G10610.2 31.630 411 234 11 29 414 6 394 5.58e-53 182
MsaG043689 AT2G16910.1 43.421 152 72 5 3 147 8 152 2.26e-37 143
MsaG043689 AT2G16910.1 37.245 196 114 3 242 428 312 507 9.77e-30 121
MsaG043689 AT1G10610.3 29.360 344 200 11 87 409 1 322 4.25e-33 127
MsaG043689 AT5G57150.2 33.728 169 107 2 243 411 54 217 1.00e-28 112
MsaG043689 AT5G57150.3 33.333 171 109 2 243 413 54 219 2.27e-28 111
MsaG043689 AT5G57150.1 34.731 167 104 2 243 409 53 214 2.35e-28 112
MsaG043689 AT5G57150.5 34.337 166 104 2 243 408 53 213 2.90e-28 111
MsaG043689 AT5G57150.4 34.337 166 104 2 243 408 54 214 4.17e-28 112
MsaG043689 AT4G29930.6 28.743 167 100 2 243 409 53 200 2.07e-20 90.1
MsaG043689 AT4G29930.5 27.976 168 99 3 243 410 53 198 7.20e-20 88.6
MsaG043689 AT4G29930.2 28.144 167 98 3 243 409 53 197 8.23e-20 88.2
MsaG043689 AT4G29930.3 29.508 183 106 5 243 410 53 227 9.83e-20 89.0
MsaG043689 AT4G29930.7 29.508 183 106 5 243 410 53 227 9.83e-20 89.0
MsaG043689 AT4G29930.1 29.670 182 105 5 243 409 53 226 1.11e-19 88.6
MsaG043689 AT2G28160.2 30.189 159 98 3 239 396 126 272 3.56e-18 85.1
MsaG043689 AT2G28160.1 30.189 159 98 3 239 396 126 272 3.96e-18 85.1
MsaG043689 AT1G12860.1 32.609 184 114 4 243 424 266 441 9.37e-18 85.5
MsaG043689 AT1G12860.2 33.735 166 102 3 243 408 266 423 2.92e-17 84.0
MsaG043689 AT4G29930.4 46.479 71 34 1 243 313 53 119 3.90e-15 73.9
MsaG043689 AT3G26744.1 28.351 194 113 3 243 424 306 485 5.37e-15 77.4
MsaG043689 AT3G26744.4 28.351 194 113 3 243 424 306 485 5.37e-15 77.4
MsaG043689 AT3G26744.2 28.351 194 113 3 243 424 306 485 5.37e-15 77.4
MsaG043689 AT3G26744.6 28.409 176 102 2 243 408 306 467 1.29e-14 75.9
MsaG043689 AT4G21330.1 28.191 188 113 5 229 412 16 185 3.48e-14 71.6
MsaG043689 AT5G46760.1 29.293 198 111 5 229 412 387 569 7.22e-14 73.9
MsaG043689 AT4G17880.1 31.765 170 88 7 248 412 420 566 2.37e-13 72.4
MsaG043689 AT4G37850.2 28.571 224 122 8 196 414 119 309 5.43e-13 70.1
MsaG043689 AT4G37850.1 28.571 224 122 8 196 414 119 309 5.43e-13 70.1
MsaG043689 AT5G41315.3 23.889 180 122 3 232 399 434 610 1.86e-12 69.7
MsaG043689 AT5G41315.1 23.889 180 122 3 232 399 429 605 1.87e-12 69.7
MsaG043689 AT5G41315.2 23.889 180 122 3 232 399 437 613 1.95e-12 69.7
MsaG043689 AT1G32640.1 32.738 168 90 6 248 412 456 603 2.12e-12 69.3
MsaG043689 AT1G63650.3 25.287 174 111 4 236 399 400 564 2.05e-11 66.2
MsaG043689 AT1G63650.1 25.287 174 111 4 236 399 400 564 2.05e-11 66.2
MsaG043689 AT1G63650.2 25.287 174 111 4 236 399 400 564 2.05e-11 66.2

Find 76 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTACAGTGTCTCTTTATTCT+AGG 0.204070 8:-49749188 MsaT043689.1:intron
TATGTTGTTGTTTGGAAATA+TGG 0.204753 8:-49749577 MsaT043689.1:CDS
TTCATGATATTTATATCTTC+TGG 0.214432 8:+49748601 None:intergenic
ATATATACCTTGGTTATATT+CGG 0.247363 8:+49748199 None:intergenic
AACTTGTGAAGAAAATAATT+TGG 0.257116 8:-49749286 MsaT043689.1:CDS
ATCGGTGAGAGGTAGGTTTC+TGG 0.265091 8:+49747807 None:intergenic
CTCAACAAGACCGCCAATAA+TGG 0.265213 8:+49748740 None:intergenic
TTCTGACTGGATGATGAAAA+AGG 0.289400 8:+49749244 None:intergenic
AAAAGTTCTGAACATTCTTA+TGG 0.297211 8:-49747471 MsaT043689.1:CDS
GAATAAAGAGACACTGTAAA+AGG 0.342258 8:+49749192 None:intergenic
TCAACAAGACCGCCAATAAT+GGG 0.342312 8:+49748741 None:intergenic
CTTGGGATTATGTTGTTGTT+TGG 0.348246 8:-49749585 MsaT043689.1:CDS
TCATGATATTTATATCTTCT+GGG 0.361224 8:+49748602 None:intergenic
ATTGAAGCAATAGATTCATT+TGG 0.361378 8:-49747533 MsaT043689.1:CDS
ATCTTCGCCATTTCCACAAT+TGG 0.368226 8:+49748339 None:intergenic
GCAAACATGACCACATTTGA+TGG 0.371124 8:-49747494 MsaT043689.1:CDS
ATAATTTGGCTTCCATTTGT+AGG 0.380168 8:-49749272 MsaT043689.1:CDS
TTGGGATGTTGCTGTGGTGG+TGG 0.394599 8:-49749339 MsaT043689.1:CDS
TATATACCTTGGTTATATTC+GGG 0.397727 8:+49748200 None:intergenic
TATAAAGCAAGAAGCAATAT+CGG 0.417550 8:-49748551 MsaT043689.1:CDS
GGATGCGATTGAATATATAA+TGG 0.425745 8:-49747947 MsaT043689.1:CDS
ATCTTATCACAGAGAGGAAT+AGG 0.426459 8:-49748267 MsaT043689.1:CDS
TCGAGTGCCAATTGTGGAAA+TGG 0.428882 8:-49748346 MsaT043689.1:CDS
TGTAGGTTCATTGAGTGGTT+GGG 0.441252 8:-49749357 MsaT043689.1:intron
CTTTGTTGAGAGGAAAGCTT+GGG 0.443033 8:-49749602 MsaT043689.1:CDS
AATGATAAGTGCTCAGTTGA+AGG 0.446352 8:+49748466 None:intergenic
ACTTCATGGATAAGCCATCT+TGG 0.448339 8:+49748881 None:intergenic
TCTGAACATTCTTATGGTTG+AGG 0.459060 8:-49747465 MsaT043689.1:intron
TCACAAGTCTTTGTTCTGAC+TGG 0.460884 8:+49749231 None:intergenic
TAATTTGGCTTCCATTTGTA+GGG 0.474687 8:-49749271 MsaT043689.1:CDS
TTTGTCCCAGGCAACTGTGC+AGG 0.479947 8:-49746734 MsaT043689.1:intron
GTGTAGGTTCATTGAGTGGT+TGG 0.488555 8:-49749358 MsaT043689.1:intron
AGATAAAGAAAATATTGTTA+AGG 0.491618 8:-49748320 MsaT043689.1:CDS
TGGTTGGGATGTTGCTGTGG+TGG 0.495834 8:-49749342 MsaT043689.1:CDS
CCTTTGTTGAGAGGAAAGCT+TGG 0.499952 8:-49749603 MsaT043689.1:CDS
AGAATTTCAAGAAGAGGTCA+AGG 0.513955 8:-49747905 MsaT043689.1:CDS
TTTGTAGTGTGCTCTTCCCA+CGG 0.515454 8:+49747866 None:intergenic
TGAGAAGGTGAAGTTGAAAG+AGG 0.517970 8:-49749310 MsaT043689.1:CDS
TTCTTAGACCCTTTGTTGAG+AGG 0.521603 8:-49749612 MsaT043689.1:CDS
CTCCATCCGTGTCTTTCTAG+TGG 0.522923 8:+49747762 None:intergenic
CAAGCTTTCCTCTCAACAAA+GGG 0.525491 8:+49749604 None:intergenic
GCTAAAATTGAAGTTCATGT+TGG 0.530705 8:+49748516 None:intergenic
GGTCAAGGCTTTAGAAGTTG+AGG 0.531075 8:-49747890 MsaT043689.1:CDS
AGACACTGTAAAAGGAAGCT+TGG 0.535351 8:+49749200 None:intergenic
AGAGAAAGAATTTCAAGAAG+AGG 0.551008 8:-49747911 MsaT043689.1:CDS
CCAAGCTTTCCTCTCAACAA+AGG 0.551769 8:+49749603 None:intergenic
GCATGATACACTTTCTCTTG+AGG 0.560146 8:+49748295 None:intergenic
GATCAAGATCGGTGAGAGGT+AGG 0.562213 8:+49747800 None:intergenic
TTATCATTTGATTCAAACGA+TGG 0.566969 8:-49748451 MsaT043689.1:CDS
AGACGAACTTTGATCAAGAT+CGG 0.586612 8:+49747789 None:intergenic
GTGATATTGCTACCTCTGCA+TGG 0.587930 8:+49748909 None:intergenic
CAATATCACAACAACCAAGA+TGG 0.588239 8:-49748895 MsaT043689.1:CDS
CTTTAGAAGTTGAGGACCGT+GGG 0.594996 8:-49747882 MsaT043689.1:CDS
GAGTGGTTGGGATGTTGCTG+TGG 0.602776 8:-49749345 MsaT043689.1:CDS
AGTATTTGATGCAGAAAACA+AGG 0.604081 8:-49746687 MsaT043689.1:CDS
TCTTGTGTAGGTTCATTGAG+TGG 0.606506 8:-49749362 MsaT043689.1:intron
TGTAGTTCGAGTGCCAATTG+TGG 0.606732 8:-49748352 MsaT043689.1:CDS
GTAGAAGTGAATCATATCGC+CGG 0.619401 8:-49747614 MsaT043689.1:CDS
GGTTGATTCAAATATTCAAG+CGG 0.621147 8:+49748418 None:intergenic
GCTTTAGAAGTTGAGGACCG+TGG 0.622520 8:-49747883 MsaT043689.1:CDS
AATATGGAAATGATCCAACT+AGG 0.624297 8:-49749561 MsaT043689.1:intron
AATATATAATGGAATTGCAG+AGG 0.626528 8:-49747936 MsaT043689.1:CDS
CAACAAGACCGCCAATAATG+GGG 0.630577 8:+49748742 None:intergenic
AAAGACAAAGAACTTGCAGA+AGG 0.635182 8:-49747832 MsaT043689.1:CDS
GGACAGAGTAGCAATTCTTG+AGG 0.640821 8:-49747968 MsaT043689.1:CDS
GATCTACAGTGTCCATGCAG+AGG 0.648208 8:-49748921 MsaT043689.1:intron
AGGAGAAACAGAATAAAACA+AGG 0.649066 8:-49748247 MsaT043689.1:CDS
TTCCACTAGAAAGACACGGA+TGG 0.652546 8:-49747764 MsaT043689.1:CDS
CTGATTCCACTAGAAAGACA+CGG 0.659773 8:-49747768 MsaT043689.1:CDS
CACTAGAAAGACACGGATGG+AGG 0.661720 8:-49747761 MsaT043689.1:intron
GGAGAAACAGAATAAAACAA+GGG 0.669280 8:-49748246 MsaT043689.1:CDS
CTTTGATCAAGATCGGTGAG+AGG 0.680787 8:+49747796 None:intergenic
TGGTGGTGGAAATATTGAGA+AGG 0.686408 8:-49749325 MsaT043689.1:CDS
TCTAGTCCCGAATATAACCA+AGG 0.688391 8:-49748206 MsaT043689.1:intron
TTGTGCTGTGAGCAGAAGCA+AGG 0.689984 8:-49747572 MsaT043689.1:CDS
AGTCAGAACAAAGACTTGTG+AGG 0.691527 8:-49749229 MsaT043689.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 49746684 49749650 49746684 ID=MsaG043689
Chr8 mRNA 49746684 49749650 49746684 ID=MsaT043689.1;Parent=MsaG043689
Chr8 exon 49746684 49746746 49746684 ID=MsaT043689.1.exon8;Parent=MsaT043689.1
Chr8 CDS 49746684 49746746 49746684 ID=cds.MsaT043689.1;Parent=MsaT043689.1
Chr8 exon 49747466 49747642 49747466 ID=MsaT043689.1.exon7;Parent=MsaT043689.1
Chr8 CDS 49747466 49747642 49747466 ID=cds.MsaT043689.1;Parent=MsaT043689.1
Chr8 exon 49747762 49747992 49747762 ID=MsaT043689.1.exon6;Parent=MsaT043689.1
Chr8 CDS 49747762 49747992 49747762 ID=cds.MsaT043689.1;Parent=MsaT043689.1
Chr8 exon 49748207 49748626 49748207 ID=MsaT043689.1.exon5;Parent=MsaT043689.1
Chr8 CDS 49748207 49748626 49748207 ID=cds.MsaT043689.1;Parent=MsaT043689.1
Chr8 exon 49748722 49748790 49748722 ID=MsaT043689.1.exon4;Parent=MsaT043689.1
Chr8 CDS 49748722 49748790 49748722 ID=cds.MsaT043689.1;Parent=MsaT043689.1
Chr8 exon 49748883 49748934 49748883 ID=MsaT043689.1.exon3;Parent=MsaT043689.1
Chr8 CDS 49748883 49748934 49748883 ID=cds.MsaT043689.1;Parent=MsaT043689.1
Chr8 exon 49749189 49749374 49749189 ID=MsaT043689.1.exon2;Parent=MsaT043689.1
Chr8 CDS 49749189 49749374 49749189 ID=cds.MsaT043689.1;Parent=MsaT043689.1
Chr8 exon 49749562 49749650 49749562 ID=MsaT043689.1.exon1;Parent=MsaT043689.1
Chr8 CDS 49749562 49749650 49749562 ID=cds.MsaT043689.1;Parent=MsaT043689.1
Gene Sequence

>MsaT043689.1

ATGGGCGTTGTTGAATTTCTTAGACCCTTTGTTGAGAGGAAAGCTTGGGATTATGTTGTTGTTTGGAAATATGGAAATGATCCAACTAGGTTCATTGAGTGGTTGGGATGTTGCTGTGGTGGTGGAAATATTGAGAAGGTGAAGTTGAAAGAGGAAACTTGTGAAGAAAATAATTTGGCTTCCATTTGTAGGGATACCCTTTTTCATCATCCAGTCAGAACAAAGACTTGTGAGGCTCTTGCCAAGCTTCCTTTTACAGTGTCTCTTTATTCTAGTGTCCATGCAGAGGTAGCAATATCACAACAACCAAGATGGCTTATCCATGAAGACTCAGTTGGAACTCAAGTTTTAATCCCCATTATTGGCGGTCTTGTTGAGCTTTTCACTGCAAAGCATATCCCAGAAGATATAAATATCATGAAGTTCATCTCAGCACACTGTTGTGTCTCTATAAAGCAAGAAGCAATATCGGCACATAGCTATGCCAACATGAACTTCAATTTTAGCATGGAAGGACACTTCAGTGAATCTAATCCTTCAACTGAGCACTTATCATTTGATTCAAACGATGGTTGCTTGATTCCGCTTGAATATTTGAATCAACCACTTAAAAGCCAAAAACGCAATAAAATTTCAGTGAAACGTCAGTGTAGTTCGAGTGCCAATTGTGGAAATGGCGAAGATAAAGAAAATATTGTTAAGGAGCCTCAAGAGAAAGTGTATCATGCTAAAAATCTTATCACAGAGAGGAATAGGAGAAACAGAATAAAACAAGGGCTTTTTACTCTAAGGTCTCTAGTCCCGAATATAACCAAGATGGACAGAGTAGCAATTCTTGAGGATGCGATTGAATATATAATGGAATTGCAGAGGCAAGAGAAAGAATTTCAAGAAGAGGTCAAGGCTTTAGAAGTTGAGGACCGTGGGAAGAGCACACTACAAATAAGAGTGCAAAAAGACAAAGAACTTGCAGAAGGAACCAGAAACCTACCTCTCACCGATCTTGATCAAAGTTCGTCTGATTCCACTAGAAAGACACGGATGGAGTTGCAAGTAGAAGTGAATCATATCGCCGGAAAAGATTTCATGATTAAGTTGTGCTGTGAGCAGAAGCAAGGTGTGTTTTCAAGGTTGATTGAAGCAATAGATTCATTTGGACTGCATGTGTTAAGTGCAAACATGACCACATTTGATGGAAAAGTTCTGAACATTCTTATGGTTGAGGCAACTGTGCAGGATATTCACCCGAAGAAAATCATAGAGTATTTGATGCAGAAAACAAGGTAA
Protein sequence

>MsaT043689.1

MGVVEFLRPFVERKAWDYVVVWKYGNDPTRFIEWLGCCCGGGNIEKVKLKEETCEENNLASICRDTLFHHPVRTKTCEALAKLPFTVSLYSSVHAEVAISQQPRWLIHEDSVGTQVLIPIIGGLVELFTAKHIPEDINIMKFISAHCCVSIKQEAISAHSYANMNFNFSMEGHFSESNPSTEHLSFDSNDGCLIPLEYLNQPLKSQKRNKISVKRQCSSSANCGNGEDKENIVKEPQEKVYHAKNLITERNRRNRIKQGLFTLRSLVPNITKMDRVAILEDAIEYIMELQRQEKEFQEEVKALEVEDRGKSTLQIRVQKDKELAEGTRNLPLTDLDQSSSDSTRKTRMELQVEVNHIAGKDFMIKLCCEQKQGVFSRLIEAIDSFGLHVLSANMTTFDGKVLNILMVEATVQDIHPKKIIEYLMQKTR*