AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG015204

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG015204 MtrunA17_Chr3g0115371 97.207 358 8 1 1 356 1 358 0.0 714
MsaG015204 MtrunA17_Chr5g0424861 66.382 351 109 5 1 344 1 349 1.29e-159 451
MsaG015204 MtrunA17_Chr3g0124601 49.425 348 171 2 1 345 14 359 2.43e-117 344
MsaG015204 MtrunA17_Chr8g0382861 46.000 350 174 5 1 345 15 354 1.88e-100 301
MsaG015204 MtrunA17_Chr5g0424851 64.253 221 78 1 124 343 1 221 5.03e-98 297
MsaG015204 MtrunA17_Chr5g0424851 56.373 204 89 0 134 337 225 428 4.56e-79 248
MsaG015204 MtrunA17_Chr8g0353501 50.331 302 139 2 53 347 169 466 2.02e-96 294
MsaG015204 MtrunA17_Chr7g0256211 46.765 340 158 5 13 345 127 450 2.03e-96 293
MsaG015204 MtrunA17_Chr2g0321431 50.174 287 136 3 65 351 194 473 7.19e-89 276
MsaG015204 MtrunA17_Chr1g0174701 48.299 294 144 2 60 345 211 504 5.56e-86 268
MsaG015204 MtrunA17_Chr4g0026401 44.062 320 169 2 32 351 156 465 1.28e-83 262
MsaG015204 MtrunA17_Chr7g0258321 45.875 303 156 3 51 345 159 461 1.35e-83 261
MsaG015204 MtrunA17_Chr1g0210151 43.894 303 160 4 50 345 39 338 1.22e-81 252
MsaG015204 MtrunA17_Chr5g0422771 44.138 290 151 2 63 345 177 462 8.69e-80 251
MsaG015204 MtrunA17_Chr3g0093451 42.623 183 95 4 50 223 30 211 4.83e-42 145
MsaG015204 MtrunA17_Chr1g0196951 35.329 167 89 5 167 332 84 232 1.02e-17 81.6
MsaG015204 MtrunA17_Chr2g0315631 29.082 196 103 5 154 329 23 202 4.08e-14 70.9
MsaG015204 MtrunA17_Chr7g0242651 29.050 179 111 4 171 337 45 219 9.73e-13 67.0
MsaG015204 MtrunA17_Chr8g0384821 26.383 235 136 5 136 334 14 247 7.25e-11 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG015204 AT1G22070.1 51.374 364 156 4 1 345 19 380 1.17e-126 369
MsaG015204 AT1G77920.1 49.861 359 156 4 1 345 16 364 3.39e-119 349
MsaG015204 AT5G10030.5 48.415 347 173 2 1 343 14 358 1.25e-114 337
MsaG015204 AT5G10030.3 48.415 347 173 2 1 343 14 358 1.25e-114 337
MsaG015204 AT5G10030.1 48.415 347 173 2 1 343 14 358 1.25e-114 337
MsaG015204 AT5G10030.4 48.415 347 173 2 1 343 14 358 1.25e-114 337
MsaG015204 AT5G10030.2 48.415 347 173 2 1 343 14 358 1.25e-114 337
MsaG015204 AT5G65210.5 48.718 351 166 3 3 343 16 362 8.25e-114 335
MsaG015204 AT5G65210.7 48.718 351 166 3 3 343 16 362 8.25e-114 335
MsaG015204 AT5G65210.3 48.718 351 166 3 3 343 16 362 8.25e-114 335
MsaG015204 AT5G65210.1 48.718 351 166 3 3 343 16 362 8.25e-114 335
MsaG015204 AT5G65210.2 48.718 351 166 3 3 343 16 362 8.25e-114 335
MsaG015204 AT5G65210.4 48.718 351 166 3 3 343 16 362 8.25e-114 335
MsaG015204 AT5G65210.6 53.472 288 134 0 56 343 5 292 7.13e-107 315
MsaG015204 AT3G12250.5 48.161 299 145 2 53 345 7 301 1.94e-91 276
MsaG015204 AT3G12250.3 46.474 312 157 2 40 345 15 322 1.99e-91 277
MsaG015204 AT3G12250.6 48.161 299 145 2 53 345 34 328 2.23e-91 277
MsaG015204 AT3G12250.2 48.161 299 145 2 53 345 34 328 2.23e-91 277
MsaG015204 AT3G12250.7 48.161 299 145 2 53 345 34 328 2.23e-91 277
MsaG015204 AT3G12250.1 48.161 299 145 2 53 345 34 328 2.23e-91 277
MsaG015204 AT5G06950.2 47.826 299 146 2 53 345 34 328 2.99e-91 276
MsaG015204 AT5G06950.4 47.826 299 146 2 53 345 34 328 2.99e-91 276
MsaG015204 AT5G06950.1 47.826 299 146 2 53 345 34 328 2.99e-91 276
MsaG015204 AT5G06950.5 47.826 299 146 2 53 345 34 328 2.99e-91 276
MsaG015204 AT5G06950.3 47.826 299 146 2 53 345 34 328 2.99e-91 276
MsaG015204 AT3G12250.4 48.161 299 145 2 53 345 59 353 1.43e-90 276
MsaG015204 AT5G06960.3 49.481 289 136 2 63 345 24 308 2.77e-90 273
MsaG015204 AT5G06960.2 49.481 289 136 2 63 345 44 328 5.08e-90 273
MsaG015204 AT5G06960.1 49.481 289 136 2 63 345 44 328 5.08e-90 273
MsaG015204 AT1G08320.2 44.172 326 163 4 34 351 19 333 3.85e-89 272
MsaG015204 AT1G08320.5 44.172 326 163 4 34 351 19 333 3.85e-89 272
MsaG015204 AT1G08320.1 44.377 329 163 4 32 351 140 457 4.54e-87 271
MsaG015204 AT1G08320.4 44.377 329 163 4 32 351 140 457 4.54e-87 271
MsaG015204 AT1G08320.3 44.377 329 163 4 32 351 140 457 4.54e-87 271
MsaG015204 AT5G06839.1 45.902 305 142 4 60 345 113 413 6.91e-82 255
MsaG015204 AT5G06839.2 45.752 306 142 4 60 345 113 414 1.03e-81 255
MsaG015204 AT5G06839.3 45.902 305 142 4 60 345 156 456 1.33e-81 256
MsaG015204 AT1G68640.1 43.581 296 155 3 60 347 161 452 3.45e-75 239
MsaG015204 AT1G58330.1 26.816 179 118 4 171 337 46 223 2.22e-11 63.5
MsaG015204 AT3G14880.2 23.077 234 141 5 133 341 6 225 2.72e-11 63.5

Find 83 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCATGATTTGCTGCATTTAA+TGG 0.080172 3:+83857478 None:intergenic
TTGAAATTGAATACGGAAAT+TGG 0.106575 3:-83857982 MsaT015204.1:CDS
TTCGTACTATTTGTTCTCTA+TGG 0.263825 3:-83857085 MsaT015204.1:CDS
CTAGGGGCTTGATTGCTCTT+GGG 0.318816 3:-83857124 MsaT015204.1:CDS
GCTAGGGGCTTGATTGCTCT+TGG 0.321096 3:-83857125 MsaT015204.1:CDS
TCCCATAAAACTGGTATCTA+AGG 0.348603 3:+83858116 None:intergenic
CACCCCACATGCTAACTTGC+TGG 0.350263 3:+83859023 None:intergenic
CACCTAGGATTACTCCTTAG+AGG 0.368350 3:-83857034 None:intergenic
GAAAAGCCGGGAGCGCAAAA+AGG 0.370740 3:-83858578 MsaT015204.1:intron
ATGCAATTGGAGCTGGAGAT+TGG 0.373155 3:-83858286 MsaT015204.1:CDS
TGAAATTGAATACGGAAATT+GGG 0.386776 3:-83857981 MsaT015204.1:CDS
ACAAGAGACTACAAACAATA+AGG 0.391876 3:-83858753 MsaT015204.1:intron
TTCAGATGATCCCATAAAAC+TGG 0.394744 3:+83858107 None:intergenic
TCCTTGTGAAAGAGCATCTT+CGG 0.402772 3:+83857546 None:intergenic
CAGATTGAAGCTCATGCAAT+TGG 0.405773 3:-83858299 MsaT015204.1:CDS
GTTGCGTTTGAAATTGAATA+CGG 0.408058 3:-83857989 MsaT015204.1:CDS
AAATAAACTCCAGGAGAGTC+TGG 0.422863 3:-83857521 MsaT015204.1:CDS
TGAGCTCTTCGTTCCGCCTA+TGG 0.423220 3:+83857948 None:intergenic
TGCAATTGGAGCTGGAGATT+GGG 0.428890 3:-83858285 MsaT015204.1:CDS
TCAGCTTCTGAATGATCCCT+TGG 0.431043 3:+83858776 None:intergenic
AGTAATCCTAGGTGATATCT+TGG 0.431819 3:+83857043 None:intergenic
GTCCGAAGTGCAGCTTCGTC+TGG 0.433393 3:-83857903 MsaT015204.1:CDS
GTCTACACACCAAGCTGCTA+GGG 0.462470 3:-83857141 MsaT015204.1:CDS
ATGGAACAAATGCCATGTCT+TGG 0.464262 3:+83857497 None:intergenic
GGTGACAGCTTTAAAGTTGA+AGG 0.469579 3:-83859004 MsaT015204.1:CDS
CCATTAAATGCAGCAAATCA+TGG 0.469880 3:-83857478 MsaT015204.1:CDS
GTCGACAGGCAGATCATCTC+AGG 0.470981 3:-83857196 MsaT015204.1:intron
TAGGGGCTTGATTGCTCTTG+GGG 0.473329 3:-83857123 MsaT015204.1:CDS
TGTCTTGGACCAGACTCTCC+TGG 0.474340 3:+83857512 None:intergenic
CACATGCTAACTTGCTGGAA+TGG 0.476844 3:+83859028 None:intergenic
TAGCAGCTTGGTGTGTAGAC+AGG 0.495952 3:+83857144 None:intergenic
ATCCTCCGATCCATAGGAAA+AGG 0.500037 3:+83857768 None:intergenic
CACTACTAGCATGGAGAACA+AGG 0.505528 3:-83858936 MsaT015204.1:intron
CCATAGGAAAAGGCGCTCTA+CGG 0.507714 3:+83857778 None:intergenic
GATTGGGAGAGCAAGAAAGC+AGG 0.518438 3:-83858269 MsaT015204.1:intron
TATTGCTATAGACAAATTTG+AGG 0.520557 3:-83857443 MsaT015204.1:CDS
TAGTTGCAGGGTATTTGCAC+AGG 0.526630 3:-83858144 MsaT015204.1:intron
TGTCTACACACCAAGCTGCT+AGG 0.531973 3:-83857142 MsaT015204.1:CDS
TGTACATTTAGAAGTTGTGA+TGG 0.532177 3:+83857740 None:intergenic
GAAGCTCATGCAATTGGAGC+TGG 0.532336 3:-83858293 MsaT015204.1:CDS
GAGAGGCTGCTAAGAAAAGC+CGG 0.533392 3:-83858591 MsaT015204.1:CDS
AATGAAAACGGATGCTGCAA+AGG 0.533573 3:-83857840 MsaT015204.1:CDS
GATCCCCTCTATTTAATCTC+CGG 0.535169 3:-83857815 MsaT015204.1:CDS
CAATCAAGCCCCTAGCAGCT+TGG 0.546448 3:+83857132 None:intergenic
TTCCTCTAAGGAGTAATCCT+AGG 0.546737 3:+83857032 None:intergenic
CTTGGTGTGTAGACAGGATG+CGG 0.550201 3:+83857150 None:intergenic
TTACTGTTCACTAGTAACAT+TGG 0.550321 3:+83858959 None:intergenic
ATTGCTATAGACAAATTTGA+GGG 0.550505 3:-83857442 MsaT015204.1:CDS
GACAAATTTGAGGGACTCGA+AGG 0.552796 3:-83857433 MsaT015204.1:CDS
GTACATTTAGAAGTTGTGAT+GGG 0.555666 3:+83857741 None:intergenic
ACACACCGGAGATTAAATAG+AGG 0.563190 3:+83857810 None:intergenic
ATTGGGTTGACGAGAACCAT+AGG 0.567572 3:-83857964 MsaT015204.1:CDS
GGTGATATCTTGGAATCGAA+TGG 0.569812 3:+83857053 None:intergenic
TCTATTTAATCTCCGGTGTG+TGG 0.577155 3:-83857808 MsaT015204.1:CDS
AGGAAAAGGCGCTCTACGGA+TGG 0.579044 3:+83857782 None:intergenic
TCAGACAAAGGCTCAAGTTG+TGG 0.581334 3:+83857616 None:intergenic
CACACCGGAGATTAAATAGA+GGG 0.585253 3:+83857811 None:intergenic
GAATGATCCCTTGGTTCATG+AGG 0.586065 3:+83858785 None:intergenic
CATTCCAGCAAGTTAGCATG+TGG 0.586492 3:-83859027 MsaT015204.1:CDS
AGAGGCTGCTAAGAAAAGCC+GGG 0.588682 3:-83858590 MsaT015204.1:CDS
CAGCCTCTCGATTCTGTGCG+AGG 0.589111 3:+83858605 None:intergenic
ACAAGGACTAAATAAACTCC+AGG 0.589120 3:-83857530 MsaT015204.1:CDS
GAACAGTAACACTACTAGCA+TGG 0.589169 3:-83858945 MsaT015204.1:CDS
GGCGAGATCCTCCGATCCAT+AGG 0.593085 3:+83857762 None:intergenic
GAGTGTCTTGAATCATTACT+CGG 0.593826 3:-83857873 MsaT015204.1:CDS
AATATATTCCTCATGAACCA+AGG 0.594797 3:-83858793 MsaT015204.1:CDS
TTCCAGCAAGTTAGCATGTG+GGG 0.599412 3:-83859025 MsaT015204.1:CDS
AACCAGACGAAGCTGCACTT+CGG 0.601003 3:+83857901 None:intergenic
ATATATTCCTCATGAACCAA+GGG 0.601063 3:-83858792 MsaT015204.1:CDS
GCCGAAGATGCTCTTTCACA+AGG 0.601136 3:-83857547 MsaT015204.1:CDS
AACATTTGTTCATCAGACAA+AGG 0.607845 3:+83857604 None:intergenic
GGAGAGTCTGGTCCAAGACA+TGG 0.608703 3:-83857509 MsaT015204.1:CDS
AGCAAATCATGGAATTCAGA+TGG 0.610088 3:-83857467 MsaT015204.1:CDS
TTGGTGTGTAGACAGGATGC+GGG 0.620480 3:+83857151 None:intergenic
TACGGATGGTTTCCACACAC+CGG 0.623678 3:+83857796 None:intergenic
GACAGCTTTAAAGTTGAAGG+TGG 0.628685 3:-83859001 MsaT015204.1:CDS
ATTCCAGCAAGTTAGCATGT+GGG 0.642837 3:-83859026 MsaT015204.1:CDS
TCATCTGAAACAATTAACCC+AGG 0.648000 3:-83858093 MsaT015204.1:intron
TCGATTCCAAGATATCACCT+AGG 0.670756 3:-83857049 MsaT015204.1:CDS
TCTACACACCAAGCTGCTAG+GGG 0.671811 3:-83857140 MsaT015204.1:CDS
ACGCCTCGCACAGAATCGAG+AGG 0.704571 3:-83858608 MsaT015204.1:CDS
ACACCGGAGATTAAATAGAG+GGG 0.728769 3:+83857812 None:intergenic
GGGTTGACGAGAACCATAGG+CGG 0.739081 3:-83857961 MsaT015204.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 83857037 83859065 83857037 ID=MsaG015204
Chr3 mRNA 83857037 83859065 83857037 ID=MsaT015204.1;Parent=MsaG015204
Chr3 exon 83857037 83857210 83857037 ID=MsaT015204.1.exon8;Parent=MsaT015204.1
Chr3 CDS 83857037 83857210 83857037 ID=cds.MsaT015204.1;Parent=MsaT015204.1
Chr3 exon 83857420 83857647 83857420 ID=MsaT015204.1.exon7;Parent=MsaT015204.1
Chr3 CDS 83857420 83857647 83857420 ID=cds.MsaT015204.1;Parent=MsaT015204.1
Chr3 exon 83857745 83858016 83857745 ID=MsaT015204.1.exon6;Parent=MsaT015204.1
Chr3 CDS 83857745 83858016 83857745 ID=cds.MsaT015204.1;Parent=MsaT015204.1
Chr3 exon 83858094 83858157 83858094 ID=MsaT015204.1.exon5;Parent=MsaT015204.1
Chr3 CDS 83858094 83858157 83858094 ID=cds.MsaT015204.1;Parent=MsaT015204.1
Chr3 exon 83858270 83858347 83858270 ID=MsaT015204.1.exon4;Parent=MsaT015204.1
Chr3 CDS 83858270 83858347 83858270 ID=cds.MsaT015204.1;Parent=MsaT015204.1
Chr3 exon 83858579 83858638 83858579 ID=MsaT015204.1.exon3;Parent=MsaT015204.1
Chr3 CDS 83858579 83858638 83858579 ID=cds.MsaT015204.1;Parent=MsaT015204.1
Chr3 exon 83858754 83858819 83858754 ID=MsaT015204.1.exon2;Parent=MsaT015204.1
Chr3 CDS 83858754 83858819 83858754 ID=cds.MsaT015204.1;Parent=MsaT015204.1
Chr3 exon 83858937 83859065 83858937 ID=MsaT015204.1.exon1;Parent=MsaT015204.1
Chr3 CDS 83858937 83859065 83858937 ID=cds.MsaT015204.1;Parent=MsaT015204.1
Gene Sequence

>MsaT015204.1

ATGGATATATACGAGCCATTCCAGCAAGTTAGCATGTGGGGTGACAGCTTTAAAGTTGAAGGTGGTCTTAATTCAATTGCTTCTCCAATGTTACTAGTGAACAGTAACACTACTAGCATGGAGAACAAGTCTAAATATATTCCTCATGAACCAAGGGATCATTCAGAAGCTGAACAAGAGACTACAAACAATAAGGTACTTAGACGCCTCGCACAGAATCGAGAGGCTGCTAAGAAAAGCCGGGAGCGCAAAAAGGCTTATGTTAAACAATTAGAATCAAGCAGATTGAAGCTCATGCAATTGGAGCTGGAGATTGGGAGAGCAAGAAAGCAGGGTATTTGCACAGGAAGCGCCTTAGATACCAGTTTTATGGGATCATCTGAAACAATTAACCCAGGGATTGTTGCGTTTGAAATTGAATACGGAAATTGGGTTGACGAGAACCATAGGCGGAACGAAGAGCTCAGAAATGCATTTCAAACTAATGCGTCCGAAGTGCAGCTTCGTCTGGTTGTTCAGAGTGTCTTGAATCATTACTCGGATCTTTTCAGAATGAAAACGGATGCTGCAAAGGCTGATCCCCTCTATTTAATCTCCGGTGTGTGGAAACCATCCGTAGAGCGCCTTTTCCTATGGATCGGAGGATCTCGCCCATCACAACTTCTAAATCTCATTGTGCCACAACTTGAGCCTTTGTCTGATGAACAAATGTTGAGCATTAAAAAACTTCATCTGTCGTCTCAGCAAGCCGAAGATGCTCTTTCACAAGGACTAAATAAACTCCAGGAGAGTCTGGTCCAAGACATGGCATTTGTTCCATTAAATGCAGCAAATCATGGAATTCAGATGGCTATTGCTATAGACAAATTTGAGGGACTCGAAGGTTTTGTAATCCAGGCAGATCATCTCAGGCAGCAAACTCTGATACACATGTCCCGCATCCTGTCTACACACCAAGCTGCTAGGGGCTTGATTGCTCTTGGGGAATACTTTCATCGTCTTCGTACTATTTGTTCTCTATGGACTTCTTGTCCATTCGATTCCAAGATATCACCTAGGATTACTCCTTAG
Protein sequence

>MsaT015204.1

MDIYEPFQQVSMWGDSFKVEGGLNSIASPMLLVNSNTTSMENKSKYIPHEPRDHSEAEQETTNNKVLRRLAQNREAAKKSRERKKAYVKQLESSRLKLMQLELEIGRARKQGICTGSALDTSFMGSSETINPGIVAFEIEYGNWVDENHRRNEELRNAFQTNASEVQLRLVVQSVLNHYSDLFRMKTDAAKADPLYLISGVWKPSVERLFLWIGGSRPSQLLNLIVPQLEPLSDEQMLSIKKLHLSSQQAEDALSQGLNKLQESLVQDMAFVPLNAANHGIQMAIAIDKFEGLEGFVIQADHLRQQTLIHMSRILSTHQAARGLIALGEYFHRLRTICSLWTSCPFDSKISPRITP*