AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG035472

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG035472 MtrunA17_Chr1g0198761 69.091 220 14 2 75 240 262 481 5.89e-96 296
MsaG035472 MtrunA17_Chr1g0198761 95.775 71 3 0 5 75 93 163 1.62e-39 144
MsaG035472 MtrunA17_Chr5g0431001 56.250 208 37 4 75 228 276 483 5.31e-66 212
MsaG035472 MtrunA17_Chr5g0431001 54.639 97 35 1 5 101 107 194 2.29e-25 103
MsaG035472 MtrunA17_Chr2g0276841 40.455 220 77 2 75 240 280 499 9.71e-48 167
MsaG035472 MtrunA17_Chr2g0276841 43.056 72 41 0 4 75 110 181 5.12e-14 71.2
MsaG035472 MtrunA17_Chr2g0294841 36.596 235 91 3 63 239 242 476 3.00e-45 160
MsaG035472 MtrunA17_Chr2g0290391 34.685 222 91 2 75 242 269 490 6.62e-36 134
MsaG035472 MtrunA17_Chr2g0290391 45.946 74 40 0 2 75 87 160 1.66e-15 75.5
MsaG035472 MtrunA17_Chr2g0296781 31.481 216 95 3 75 237 197 412 1.18e-28 113
MsaG035472 MtrunA17_Chr6g0477261 30.698 215 96 2 76 237 87 301 5.36e-28 111
MsaG035472 MtrunA17_Chr5g0441581 28.700 223 103 3 71 237 218 440 2.28e-27 110
MsaG035472 MtrunA17_Chr1g0202341 30.986 213 93 3 79 237 259 471 3.79e-26 106
MsaG035472 MtrunA17_Chr5g0448761 31.081 222 95 5 71 234 263 484 6.07e-26 105
MsaG035472 MtrunA17_Chr1g0196541 29.148 223 102 4 71 237 190 412 1.85e-24 101
MsaG035472 MtrunA17_Chr3g0080351 27.523 218 102 3 75 237 270 486 5.47e-23 97.4
MsaG035472 MtrunA17_Chr3g0082121 28.111 217 102 3 77 239 242 458 1.15e-22 96.3
MsaG035472 MtrunA17_Chr1g0203051 26.070 257 138 4 30 237 242 495 4.36e-22 94.7
MsaG035472 MtrunA17_Chr2g0291591 26.697 221 107 3 69 234 256 476 9.21e-22 93.6
MsaG035472 MtrunA17_Chr2g0287651 27.273 209 103 3 77 236 284 492 9.82e-20 87.8
MsaG035472 MtrunA17_Chr5g0448511 25.926 216 106 5 76 237 44 259 4.69e-19 85.9
MsaG035472 MtrunA17_Chr2g0329031 24.903 257 130 7 42 241 179 429 2.11e-18 84.0
MsaG035472 MtrunA17_Chr3g0118611 27.041 196 86 4 71 209 142 337 3.38e-17 80.5
MsaG035472 MtrunA17_Chr1g0164591 26.203 187 84 3 77 209 122 308 2.11e-16 77.0
MsaG035472 MtrunA17_Chr2g0287061 25.714 210 102 4 77 235 354 560 9.13e-16 76.3
MsaG035472 MtrunA17_Chr5g0440451 25.000 216 106 4 76 237 253 466 1.33e-15 75.9
MsaG035472 MtrunA17_Chr8g0363841 42.029 69 40 0 76 144 223 291 3.07e-13 68.9
MsaG035472 MtrunA17_Chr2g0291581 40.789 76 42 1 71 143 254 329 3.08e-12 65.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG035472 AT1G10240.2 38.393 224 84 2 72 241 255 478 1.45e-45 161
MsaG035472 AT1G10240.2 44.444 72 40 0 4 75 88 159 3.59e-13 68.9
MsaG035472 AT1G10240.1 38.393 224 84 2 72 241 255 478 1.45e-45 161
MsaG035472 AT1G10240.1 44.444 72 40 0 4 75 88 159 3.59e-13 68.9
MsaG035472 AT4G38180.1 30.516 213 94 3 76 234 281 493 2.00e-25 104
MsaG035472 AT4G15090.1 28.182 220 104 5 76 241 257 476 1.96e-23 99.0
MsaG035472 AT4G15090.5 28.182 220 104 5 76 241 257 476 1.96e-23 99.0
MsaG035472 AT4G15090.3 28.182 220 104 5 76 241 257 476 1.96e-23 99.0
MsaG035472 AT4G15090.2 28.182 220 104 5 76 241 257 476 1.96e-23 99.0
MsaG035472 AT4G15090.4 28.182 220 104 5 76 241 257 476 1.96e-23 99.0
MsaG035472 AT3G22170.2 27.354 223 106 5 69 235 257 479 2.32e-21 93.2
MsaG035472 AT3G22170.1 27.354 223 106 5 69 235 257 479 2.32e-21 93.2
MsaG035472 AT5G28530.1 55.072 69 31 0 75 143 273 341 4.77e-21 92.0
MsaG035472 AT5G28530.1 46.479 71 38 0 5 75 94 164 1.38e-14 73.2
MsaG035472 AT5G28530.3 55.072 69 31 0 75 143 273 341 5.44e-21 92.0
MsaG035472 AT5G28530.3 46.479 71 38 0 5 75 94 164 1.62e-14 72.8
MsaG035472 AT5G28530.2 55.072 69 31 0 75 143 273 341 5.44e-21 92.0
MsaG035472 AT5G28530.2 46.479 71 38 0 5 75 94 164 1.62e-14 72.8
MsaG035472 AT1G76320.1 24.201 219 112 3 77 241 195 413 5.82e-20 89.0
MsaG035472 AT1G76320.4 24.201 219 112 3 77 241 195 413 5.82e-20 89.0
MsaG035472 AT1G76320.2 24.201 219 112 3 77 241 195 413 6.04e-20 89.0
MsaG035472 AT5G28530.5 28.649 185 86 2 5 143 94 278 3.37e-19 86.7
MsaG035472 AT5G28530.4 28.649 185 86 2 5 143 94 278 3.38e-19 86.7
MsaG035472 AT4G38170.1 23.982 221 113 3 72 237 41 261 5.84e-18 82.8
MsaG035472 AT1G80010.1 25.112 223 111 5 69 235 294 516 1.88e-17 81.6
MsaG035472 AT2G27110.2 24.766 214 103 5 76 234 228 438 1.61e-14 73.2
MsaG035472 AT2G27110.1 24.766 214 103 5 76 234 228 438 1.61e-14 73.2
MsaG035472 AT2G27110.3 24.766 214 103 5 76 234 83 293 2.01e-14 72.8
MsaG035472 AT1G76320.3 32.990 97 64 1 145 241 318 413 2.56e-11 63.5

Find 36 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTATTCGCTTCGTCAATTT+TGG 0.087673 7:+14628369 MsaT035472.1:CDS
ACAAATTGGAGCACATTATT+TGG 0.097710 7:+14627775 MsaT035472.1:intron
CGACATGCCGCTTGGTATTT+TGG 0.131409 7:+14627878 MsaT035472.1:CDS
TTCCTTTACATGGGCTATAA+AGG 0.281917 7:+14627968 MsaT035472.1:CDS
TAGAACACAACCAAAGAAAA+TGG 0.288289 7:-14627925 None:intergenic
AATCATCTTCACATTCTAAA+TGG 0.310029 7:-14628280 None:intergenic
GCGAATAGAGCAAGTAAATA+TGG 0.328166 7:-14628355 None:intergenic
CAAATTGGAGCACATTATTT+GGG 0.331042 7:+14627776 MsaT035472.1:intron
ATAATGAAGTGGAAGGTAAA+AGG 0.341694 7:+14627339 MsaT035472.1:CDS
GAGCACATTATTTGGGCATT+TGG 0.347058 7:+14627783 MsaT035472.1:intron
GAAATCAGTCAGACTTGTAT+TGG 0.379332 7:-14628486 None:intergenic
TTTGCTGGAATGACTACAAC+TGG 0.388310 7:+14628419 MsaT035472.1:CDS
AGAAGATTCCTTCCTTTACA+TGG 0.405041 7:+14627958 MsaT035472.1:CDS
TGAGAGGGAATGGAAATTGA+TGG 0.437961 7:+14628304 MsaT035472.1:CDS
TTGGGCCCTAGCTTATTTGA+AGG 0.438270 7:+14628388 MsaT035472.1:CDS
GTAACGATTTATTCGATAAG+TGG 0.456829 7:-14627856 None:intergenic
TTGGTTGGGGTCGATAATCA+TGG 0.477466 7:+14627897 MsaT035472.1:CDS
TGAGTTATTAGATGATAAAG+AGG 0.481430 7:+14627472 MsaT035472.1:CDS
AGAAGTCCTTCAAATAAGCT+AGG 0.482445 7:-14628394 None:intergenic
TGGTTGTGGTGCTAAATTGT+TGG 0.487405 7:+14627382 MsaT035472.1:CDS
ATTCGAGCATATGAAGCCTT+CGG 0.487986 7:+14627813 MsaT035472.1:CDS
TCAGACTTGTATTGGCTCCC+AGG 0.503601 7:-14628478 None:intergenic
GAGTTTGTTTGTCATCGTGC+TGG 0.506578 7:+14627296 MsaT035472.1:CDS
TGAAATCACATGCCAAGAAA+AGG 0.511492 7:+14626747 None:intergenic
CTTTATCATCTAATAACTCA+TGG 0.514899 7:-14627469 None:intergenic
AATCGTTACGACATGCCGCT+TGG 0.519527 7:+14627870 MsaT035472.1:CDS
TACCTTTATAGCCCATGTAA+AGG 0.539233 7:-14627970 None:intergenic
AAGTGGAAGGTAAAAGGAAA+CGG 0.542859 7:+14627345 MsaT035472.1:CDS
GAAGATTCCTTCCTTTACAT+GGG 0.569744 7:+14627959 MsaT035472.1:CDS
CGTAGACAAAGATAATGAAG+TGG 0.583069 7:+14627328 MsaT035472.1:CDS
TTTATAGCCCATGTAAAGGA+AGG 0.583563 7:-14627966 None:intergenic
GACAAAGATAATGAAGTGGA+AGG 0.597807 7:+14627332 MsaT035472.1:CDS
GAAGTCCTTCAAATAAGCTA+GGG 0.599709 7:-14628393 None:intergenic
AAACGGAAGTCGTCAAGATG+TGG 0.638263 7:+14627362 MsaT035472.1:CDS
AAGTCGTCAAGATGTGGTTG+TGG 0.648789 7:+14627368 MsaT035472.1:CDS
ACCCCAACCAAAATACCAAG+CGG 0.669960 7:-14627885 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 14626756 14628628 14626756 ID=MsaG035472
Chr7 mRNA 14626756 14628628 14626756 ID=MsaT035472.1;Parent=MsaG035472
Chr7 exon 14626756 14626768 14626756 ID=MsaT035472.1.exon1;Parent=MsaT035472.1
Chr7 CDS 14626756 14626768 14626756 ID=cds.MsaT035472.1;Parent=MsaT035472.1
Chr7 exon 14627282 14627493 14627282 ID=MsaT035472.1.exon2;Parent=MsaT035472.1
Chr7 CDS 14627282 14627493 14627282 ID=cds.MsaT035472.1;Parent=MsaT035472.1
Chr7 exon 14627786 14627989 14627786 ID=MsaT035472.1.exon3;Parent=MsaT035472.1
Chr7 CDS 14627786 14627989 14627786 ID=cds.MsaT035472.1;Parent=MsaT035472.1
Chr7 exon 14628236 14628517 14628236 ID=MsaT035472.1.exon4;Parent=MsaT035472.1
Chr7 CDS 14628236 14628517 14628236 ID=cds.MsaT035472.1;Parent=MsaT035472.1
Chr7 exon 14628611 14628628 14628611 ID=MsaT035472.1.exon5;Parent=MsaT035472.1
Chr7 CDS 14628611 14628628 14628611 ID=cds.MsaT035472.1;Parent=MsaT035472.1
Gene Sequence

>MsaT035472.1

ATGCCAAGAAAAGGTGTTTATAAAAGAGAGTTTGTTTGTCATCGTGCTGGTACTATTAGCGTAGACAAAGATAATGAAGTGGAAGGTAAAAGGAAACGGAAGTCGTCAAGATGTGGTTGTGGTGCTAAATTGTTGGTGAATATAGCAACAATTAACTCTGAGAAAAACTGGGTGGTGAAATATTTTAATAATAATCATAACCATGAGTTATTAGATGATAAAGAGCACATTATTTGGGCATTTGGTGATTCAATTCGAGCATATGAAGCCTTCGGAGATGTGATTGTTTTTGATACCACTTATCGAATAAATCGTTACGACATGCCGCTTGGTATTTTGGTTGGGGTCGATAATCATGGCAATTCCATTTTCTTTGGTTGTGTTCTATTGCAAAATGAGAAGATTCCTTCCTTTACATGGGCTATAAAGGGTCGAGATACGATGATTTTAAAGATGAGTTTTTATCGATTATACCATTTAGAATGTGAAGATGATTTTGAGAGGGAATGGAAATTGATGGTTGAACAGTTTTGTCTTAGCAAGGATAACCATATTTACTTGCTCTATTCGCTTCGTCAATTTTGGGCCCTAGCTTATTTGAAGGACTTCTTTTTTGCTGGAATGACTACAACTGGACGTTCAGAATCTATAAATTCATATCTAAAAAGATTCCTGGGAGCCAATACAAGTCTGACTGATTTCATAAATCAAGTTGGGGTTCTTTGTTAA
Protein sequence

>MsaT035472.1

MPRKGVYKREFVCHRAGTISVDKDNEVEGKRKRKSSRCGCGAKLLVNIATINSEKNWVVKYFNNNHNHELLDDKEHIIWAFGDSIRAYEAFGDVIVFDTTYRINRYDMPLGILVGVDNHGNSIFFGCVLLQNEKIPSFTWAIKGRDTMILKMSFYRLYHLECEDDFEREWKLMVEQFCLSKDNHIYLLYSLRQFWALAYLKDFFFAGMTTTGRSESINSYLKRFLGANTSLTDFINQVGVLC*