AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG011188

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG011188 MtrunA17_Chr2g0333641 92.361 288 18 4 1 286 1 286 0.0 522
MsaG011188 MtrunA17_Chr2g0333621 80.479 292 49 5 1 286 1 290 1.37e-156 439
MsaG011188 MtrunA17_Chr4g0002801 42.813 327 128 10 1 286 1 309 6.48e-67 212
MsaG011188 MtrunA17_Chr4g0002781 42.687 335 136 10 1 286 1 328 1.18e-64 207
MsaG011188 MtrunA17_Chr8g0336681 47.511 221 103 5 76 286 97 314 6.20e-51 171
MsaG011188 MtrunA17_Chr7g0249811 37.309 327 144 8 1 286 1 307 2.66e-48 164
MsaG011188 MtrunA17_Chr5g0400661 39.568 278 134 11 41 286 38 313 3.10e-40 143
MsaG011188 MtrunA17_Chr5g0400621 41.818 220 101 5 81 286 102 308 1.35e-39 141
MsaG011188 MtrunA17_Chr6g0468491 42.126 254 124 10 44 286 47 288 6.59e-38 136
MsaG011188 MtrunA17_Chr4g0054581 39.914 233 112 5 81 286 122 353 2.87e-36 133
MsaG011188 MtrunA17_Chr2g0307131 40.187 214 115 5 81 286 122 330 1.80e-35 130
MsaG011188 MtrunA17_Chr4g0033291 37.395 238 132 5 58 286 74 303 1.85e-34 127
MsaG011188 MtrunA17_Chr7g0225901 40.217 184 104 4 107 286 58 239 8.63e-34 124
MsaG011188 MtrunA17_Chr4g0033391 44.444 162 85 3 126 286 138 295 1.83e-33 125
MsaG011188 MtrunA17_Chr2g0280161 47.500 160 75 3 133 286 173 329 4.19e-33 124
MsaG011188 MtrunA17_Chr2g0333611 42.857 175 86 3 119 286 27 194 7.00e-33 120
MsaG011188 MtrunA17_Chr4g0049331 44.737 152 82 1 137 286 135 286 2.11e-32 121
MsaG011188 MtrunA17_Chr2g0307141 45.752 153 79 3 137 286 183 334 1.82e-31 120
MsaG011188 MtrunA17_Chr4g0054561 43.023 172 88 4 120 286 138 304 1.01e-30 117
MsaG011188 MtrunA17_Chr5g0400671 33.617 235 142 6 69 297 87 313 3.03e-30 116
MsaG011188 MtrunA17_Chr4g0054571 30.303 297 181 3 1 286 27 308 5.71e-30 115
MsaG011188 MtrunA17_Chr4g0054551 42.442 172 89 4 120 286 138 304 6.53e-30 115
MsaG011188 MtrunA17_Chr2g0333541 34.066 273 142 9 23 286 4 247 2.42e-29 112
MsaG011188 MtrunA17_Chr4g0033281 36.638 232 131 4 58 286 82 300 4.76e-29 113
MsaG011188 MtrunA17_Chr5g0400641 45.223 157 79 4 140 291 1 155 3.30e-28 106
MsaG011188 MtrunA17_Chr4g0054621 37.838 185 100 4 104 286 145 316 1.10e-27 109
MsaG011188 MtrunA17_Chr7g0233441 43.077 130 60 2 160 286 57 175 3.39e-22 91.7
MsaG011188 MtrunA17_Chr6g0468461 38.000 150 81 1 137 286 173 310 3.53e-22 94.7
MsaG011188 MtrunA17_Chr4g0002851 39.370 127 61 2 160 286 65 175 3.64e-17 78.2
MsaG011188 MtrunA17_Chr8g0368371 39.333 150 69 6 25 166 6 141 5.03e-17 76.3
MsaG011188 MtrunA17_Chr4g0002831 38.462 143 72 4 148 286 53 183 1.03e-16 77.0
MsaG011188 MtrunA17_Chr8g0366751 30.233 172 96 4 119 271 443 609 8.70e-15 74.7
MsaG011188 MtrunA17_Chr8g0346161 28.289 152 101 4 126 271 279 428 2.94e-14 72.8
MsaG011188 MtrunA17_Chr5g0411341 25.431 232 146 4 66 271 410 640 6.10e-14 72.0
MsaG011188 MtrunA17_Chr7g0275821 34.211 114 61 2 136 245 251 354 9.88e-13 68.2
MsaG011188 MtrunA17_Chr1g0185621 24.862 181 122 3 102 268 436 616 4.48e-12 66.6
MsaG011188 MtrunA17_Chr8g0336671 51.613 62 28 1 120 181 18 77 1.08e-11 59.7
MsaG011188 MtrunA17_Chr7g0260841 23.265 245 144 5 30 271 264 467 2.67e-11 63.9
MsaG011188 MtrunA17_Chr8g0346151 25.294 170 111 6 126 286 267 429 4.16e-11 63.2
MsaG011188 MtrunA17_Chr1g0211081 37.143 105 59 2 89 191 272 371 4.98e-11 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG011188 AT4G37850.2 39.234 209 110 6 88 289 109 307 2.55e-34 127
MsaG011188 AT4G37850.1 39.234 209 110 6 88 289 109 307 2.55e-34 127
MsaG011188 AT2G22760.2 41.176 170 95 2 129 293 111 280 2.20e-28 110
MsaG011188 AT2G22760.1 42.331 163 89 2 129 286 111 273 2.85e-28 110
MsaG011188 AT2G22750.2 36.681 229 122 7 77 290 65 285 8.28e-28 109
MsaG011188 AT2G22750.5 37.168 226 119 7 77 287 89 306 1.19e-27 109
MsaG011188 AT2G22750.3 37.168 226 119 7 77 287 93 310 1.35e-27 109
MsaG011188 AT2G22750.1 36.889 225 119 7 77 286 65 281 3.16e-27 108
MsaG011188 AT2G22750.4 36.889 225 119 7 77 286 93 309 5.02e-27 108
MsaG011188 AT2G22770.1 34.804 204 101 4 115 286 95 298 2.46e-23 97.8
MsaG011188 AT4G09820.1 33.803 142 76 2 127 268 353 476 3.66e-16 79.0
MsaG011188 AT4G17880.1 27.907 215 141 5 62 271 347 552 4.16e-16 79.0
MsaG011188 AT5G46760.1 28.226 248 150 8 40 271 320 555 1.03e-14 74.7
MsaG011188 AT2G46510.1 36.800 125 62 4 120 243 377 485 1.61e-14 74.3
MsaG011188 AT1G32640.1 28.652 178 108 7 126 288 440 613 5.30e-13 69.7

Find 57 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGTACTTCTTGTTCTGATTC+TGG 0.178025 2:-82397881 None:intergenic
CCTTCTTCCCTTCCTCCAAC+TGG 0.191139 2:-82400097 None:intergenic
CAGCAACCTGTTACATATTC+TGG 0.210205 2:+82397719 MsaT011188.1:CDS
CTACTTCTACTCTTTGTTCT+TGG 0.252338 2:-82397902 None:intergenic
GCTAGCAGTGTATTGGCTTT+TGG 0.252967 2:+82398632 MsaT011188.1:CDS
GATTCTTTGCTATTCTTGTT+TGG 0.275304 2:-82398404 None:intergenic
TGATGTTAAAGCAAGAATAT+TGG 0.324656 2:+82398514 MsaT011188.1:CDS
GCACTTTCAGCTACTATTCC+TGG 0.324686 2:+82398058 MsaT011188.1:CDS
TCAGTGTTTGGATCACATTA+TGG 0.344284 2:+82397994 MsaT011188.1:CDS
TGTAGTAGTAGCTGGTATTA+TGG 0.362086 2:-82397858 None:intergenic
TAGAAGTGGTTCTCAGTGTT+TGG 0.364117 2:+82397982 MsaT011188.1:CDS
TGTCACTGCTAGCAGTGTAT+TGG 0.365840 2:+82398625 MsaT011188.1:CDS
TGAGCCATCCATCTCATTAG+AGG 0.377502 2:-82397756 None:intergenic
AAGTAGTAATAAGAGGAGTT+TGG 0.386060 2:+82397919 MsaT011188.1:CDS
CTGCTTCCAGAATATGTAAC+AGG 0.414669 2:-82397725 None:intergenic
AGAGTAGAAGTAGTAATAAG+AGG 0.424376 2:+82397912 MsaT011188.1:CDS
TGGCTTTACTATTGTCGCTC+AGG 0.443880 2:+82398667 MsaT011188.1:CDS
GGAACATTGGCCTCTTCATT+CGG 0.453854 2:+82397463 MsaT011188.1:CDS
CTTCTTCCCTTCCTCCAACT+GGG 0.463799 2:-82400096 None:intergenic
AGAACATCATGGAGGAATCA+TGG 0.464890 2:+82397441 None:intergenic
TTCTACTCTTCTTTCCACTT+TGG 0.465419 2:-82397964 None:intergenic
GATTCTGGTGTAGTAGTAGC+TGG 0.465607 2:-82397866 None:intergenic
TTTATTACCTTCTTCAAGCC+AGG 0.465921 2:-82398076 None:intergenic
AAGGAGAGAATGAATGTCCT+TGG 0.473742 2:-82397824 None:intergenic
AGCAAGAATATTGGAAAATG+AGG 0.474113 2:+82398523 MsaT011188.1:CDS
TAATGGTGACAATAGGAATT+GGG 0.480317 2:+82397617 MsaT011188.1:intron
TACCACCTCAAATTCTGATC+AGG 0.481127 2:+82398469 MsaT011188.1:CDS
ATGGATGGCTCAGATTGCTC+AGG 0.485183 2:+82397767 MsaT011188.1:CDS
CCAGTTGGAGGAAGGGAAGA+AGG 0.509133 2:+82400097 MsaT011188.1:CDS
TGGAGGAATCATGGGAACAT+TGG 0.515296 2:+82397450 MsaT011188.1:CDS
TACTATTCCTGGCTTGAAGA+AGG 0.517604 2:+82398069 MsaT011188.1:CDS
TCATAACCCAGTTGGAGGAA+GGG 0.521814 2:+82400090 MsaT011188.1:CDS
ATAGGAATTGGGTGATGTTG+AGG 0.530496 2:+82397628 MsaT011188.1:intron
GCAATCCTGATCAGAATTTG+AGG 0.532272 2:-82398474 None:intergenic
GTCATAACCCAGTTGGAGGA+AGG 0.543020 2:+82400089 MsaT011188.1:CDS
AAGAGTCATAACCCAGTTGG+AGG 0.557437 2:+82400085 MsaT011188.1:CDS
TCTTTCATCCTCTAATGAGA+TGG 0.562481 2:+82397748 MsaT011188.1:CDS
AGTGGAAAGAAGAGTAGAAG+TGG 0.563816 2:+82397968 MsaT011188.1:CDS
GGTGATGTTGAGGATTTGCT+AGG 0.567202 2:+82397638 MsaT011188.1:CDS
ATGGACAAGAACTATATACT+TGG 0.584966 2:+82398326 MsaT011188.1:CDS
GCAAAAGCTAGTAACCAAAG+TGG 0.590525 2:+82397950 MsaT011188.1:CDS
GGAGTGGACGGTGTTGATGA+AGG 0.594219 2:-82397803 None:intergenic
GAACATCATGGAGGAATCAT+GGG 0.596545 2:+82397442 None:intergenic
CATTCAGATCCACTGTGAGA+AGG 0.601974 2:+82398550 MsaT011188.1:CDS
GAGAATGAATGTCCTTGGAG+TGG 0.602643 2:-82397819 None:intergenic
TCATCCTCTAATGAGATGGA+TGG 0.603818 2:+82397752 MsaT011188.1:CDS
CTTGCTTTAACATCAAAGAG+TGG 0.605135 2:-82398506 None:intergenic
AATATGTAACAGGTTGCTGA+AGG 0.616197 2:-82397715 None:intergenic
CATCAACACCGTCCACTCCA+AGG 0.620000 2:+82397807 MsaT011188.1:CDS
ATGAATGTCCTTGGAGTGGA+CGG 0.625719 2:-82397815 None:intergenic
TATTATGGTAGATTTATCAA+AGG 0.640354 2:-82397843 None:intergenic
AGAACGTGTGAAGGAGCTAG+AGG 0.643700 2:+82398379 MsaT011188.1:CDS
GTGATGTTGAGGATTTGCTA+GGG 0.643753 2:+82397639 MsaT011188.1:CDS
ACTACTTCAAGAACGTGTGA+AGG 0.653803 2:+82398370 MsaT011188.1:CDS
TGGATGGCTCAGATTGCTCA+GGG 0.676528 2:+82397768 MsaT011188.1:CDS
TGTCAATTTCCTTCTCACAG+TGG 0.679003 2:-82398559 None:intergenic
ATCCTGATCAGAATTTGAGG+TGG 0.691103 2:-82398471 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 82397449 82400123 82397449 ID=MsaG011188
Chr2 mRNA 82397449 82400123 82397449 ID=MsaT011188.1;Parent=MsaG011188
Chr2 exon 82397449 82397484 82397449 ID=MsaT011188.1.exon1;Parent=MsaT011188.1
Chr2 CDS 82397449 82397484 82397449 ID=cds.MsaT011188.1;Parent=MsaT011188.1
Chr2 exon 82397632 82398090 82397632 ID=MsaT011188.1.exon2;Parent=MsaT011188.1
Chr2 CDS 82397632 82398090 82397632 ID=cds.MsaT011188.1;Parent=MsaT011188.1
Chr2 exon 82398326 82398688 82398326 ID=MsaT011188.1.exon3;Parent=MsaT011188.1
Chr2 CDS 82398326 82398688 82398326 ID=cds.MsaT011188.1;Parent=MsaT011188.1
Chr2 exon 82400082 82400123 82400082 ID=MsaT011188.1.exon4;Parent=MsaT011188.1
Chr2 CDS 82400082 82400123 82400082 ID=cds.MsaT011188.1;Parent=MsaT011188.1
Gene Sequence

>MsaT011188.1

ATGGAGGAATCATGGGAACATTGGCCTCTTCATTCGGAATTGGGTGATGTTGAGGATTTGCTAGGGCAATACTGTAAAACTAGTGCTGATGATGAAGAAGAGTTCTTGAGAGACATAATCCTTCAGCAACCTGTTACATATTCTGGAAGCAGTCTTTCATCCTCTAATGAGATGGATGGCTCAGATTGCTCAGGGAAAAAGCTTCATCCTTCATCAACACCGTCCACTCCAAGGACATTCATTCTCTCCTTTGATAAATCTACCATAATACCAGCTACTACTACACCAGAATCAGAACAAGAAGTACCAAGAACAAAGAGTAGAAGTAGTAATAAGAGGAGTTTGGAAACAAAAGCAAAAGCTAGTAACCAAAGTGGAAAGAAGAGTAGAAGTGGTTCTCAGTGTTTGGATCACATTATGGCTGAGAGAAAAAGAAGACTAGAACTATCACAGAAGTTCATTGCACTTTCAGCTACTATTCCTGGCTTGAAGAAGATGGACAAGAACTATATACTTGGTGAAGCAATCAGTTATGTGAAACTACTTCAAGAACGTGTGAAGGAGCTAGAGGATCCAAACAAGAATAGCAAAGAATCAACAATAATTCTCAAGAAAACTGATATGTGTGTAAGTGAAGATACCACCTCAAATTCTGATCAGGATTGCTGCAAATCACCACTCTTTGATGTTAAAGCAAGAATATTGGAAAATGAGGTACTCATTCAGATCCACTGTGAGAAGGAAATTGACATTGAGATCAAAATATATAACGTGCTTCAAAATCTTGATCTCTTTGTCACTGCTAGCAGTGTATTGGCTTTTGGAACTTCAACTCTTGGCTTTACTATTGTCGCTCAGAAAAAGAGTCATAACCCAGTTGGAGGAAGGGAAGAAGGATGA
Protein sequence

>MsaT011188.1

MEESWEHWPLHSELGDVEDLLGQYCKTSADDEEEFLRDIILQQPVTYSGSSLSSSNEMDGSDCSGKKLHPSSTPSTPRTFILSFDKSTIIPATTTPESEQEVPRTKSRSSNKRSLETKAKASNQSGKKSRSGSQCLDHIMAERKRRLELSQKFIALSATIPGLKKMDKNYILGEAISYVKLLQERVKELEDPNKNSKESTIILKKTDMCVSEDTTSNSDQDCCKSPLFDVKARILENEVLIQIHCEKEIDIEIKIYNVLQNLDLFVTASSVLAFGTSTLGFTIVAQKKSHNPVGGREEG*