AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG041522

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG041522 MtrunA17_Chr8g0341421 96.752 431 10 2 1 428 1 430 0.0 860
MsaG041522 MtrunA17_Chr2g0330641 49.127 458 111 21 1 416 1 378 8.66e-97 295
MsaG041522 MtrunA17_Chr3g0134001 46.528 144 59 2 271 400 103 242 3.19e-36 134
MsaG041522 MtrunA17_Chr8g0384141 64.948 97 28 2 298 393 87 178 3.95e-36 133
MsaG041522 MtrunA17_Chr8g0375121 52.239 134 50 2 272 395 69 198 9.26e-29 113
MsaG041522 MtrunA17_Chr5g0402161 62.626 99 33 1 297 395 109 203 9.12e-28 110
MsaG041522 MtrunA17_Chr7g0243041 56.923 65 28 0 335 399 32 96 7.72e-20 85.9
MsaG041522 MtrunA17_Chr5g0435021 60.714 56 22 0 336 391 225 280 5.68e-17 81.3
MsaG041522 MtrunA17_Chr1g0152651 60.714 56 22 0 338 393 283 338 6.01e-17 82.0
MsaG041522 MtrunA17_Chr1g0207301 48.000 75 39 0 319 393 278 352 1.03e-15 78.6
MsaG041522 MtrunA17_Chr1g0179061 48.649 74 36 1 321 394 164 235 1.94e-15 75.9
MsaG041522 MtrunA17_Chr5g0393721 53.448 58 27 0 336 393 231 288 2.48e-15 76.6
MsaG041522 MtrunA17_Chr1g0207311 53.448 58 27 0 336 393 203 260 6.21e-15 75.1
MsaG041522 MtrunA17_Chr3g0134741 49.231 65 33 0 329 393 229 293 1.72e-14 73.9
MsaG041522 MtrunA17_Chr2g0311101 47.887 71 33 1 324 394 168 234 1.27e-13 71.2
MsaG041522 MtrunA17_Chr4g0074161 55.357 56 25 0 336 391 213 268 1.31e-13 72.0
MsaG041522 MtrunA17_Chr1g0190731 55.357 56 25 0 336 391 200 255 2.29e-13 71.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG041522 AT3G21330.1 48.428 318 123 12 110 416 72 359 1.37e-70 228
MsaG041522 AT4G00120.1 54.386 114 45 3 301 413 88 195 3.03e-31 119
MsaG041522 AT3G50330.1 62.105 95 32 1 298 392 92 182 1.28e-25 104
MsaG041522 AT5G09750.1 65.263 95 27 2 298 391 92 181 1.89e-25 103
MsaG041522 AT5G67060.2 61.053 95 33 1 298 392 83 173 2.21e-25 103
MsaG041522 AT5G67060.1 61.053 95 33 1 298 392 95 185 3.10e-25 103
MsaG041522 AT5G01305.1 59.677 62 25 0 327 388 35 96 1.58e-19 85.9
MsaG041522 AT5G43175.1 47.059 68 36 0 326 393 129 196 6.64e-16 77.0
MsaG041522 AT5G37800.1 53.846 65 30 0 327 391 199 263 7.99e-16 78.2
MsaG041522 AT1G66470.1 50.000 68 34 0 324 391 190 257 1.01e-15 77.8
MsaG041522 AT4G33880.1 51.562 64 31 0 330 393 267 330 1.28e-15 78.2
MsaG041522 AT2G14760.1 51.562 64 31 0 330 393 238 301 1.53e-15 77.8
MsaG041522 AT4G30980.1 49.367 79 37 2 325 400 125 203 5.55e-15 75.9
MsaG041522 AT2G24260.2 57.143 56 24 0 336 391 42 97 9.31e-15 74.3
MsaG041522 AT4G30980.2 49.367 79 37 2 325 400 173 251 1.12e-14 75.5
MsaG041522 AT1G27740.1 47.059 68 36 0 326 393 164 231 1.44e-14 73.9
MsaG041522 AT2G24260.1 57.143 56 24 0 336 391 145 200 2.40e-14 74.3
MsaG041522 AT5G58010.1 41.111 90 44 2 323 403 92 181 6.63e-14 72.4
MsaG041522 AT2G14760.3 42.857 77 31 1 330 393 238 314 2.24e-12 68.2

Find 61 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCATTTGTGCTATTGCTTC+TGG 0.163364 8:+8050071 None:intergenic
AAAGAATAAGTGAAAGAATT+AGG 0.176959 8:-8049908 MsaT041522.1:CDS
GCATTTAGACCAGTGAATTT+TGG 0.189702 8:-8050026 MsaT041522.1:CDS
TATCCATGGATGGTCTAAAT+TGG 0.204516 8:-8050958 None:intergenic
CAACACATTGATGATGAATT+TGG 0.223534 8:+8050119 None:intergenic
TGAAATGATTGAGGTATTAA+AGG 0.270091 8:+8050704 None:intergenic
GTTAAGGCACTTGAAAGTTT+AGG 0.322532 8:-8049792 MsaT041522.1:CDS
AAGAATAAGTGAAAGAATTA+GGG 0.351830 8:-8049907 MsaT041522.1:CDS
GAGATGCATAAAGTTCAAAT+TGG 0.386265 8:-8050836 MsaT041522.1:CDS
TGTACCTGGTGGAAGCAAAA+TGG 0.387485 8:-8049871 MsaT041522.1:CDS
ATCTTAACATTCTTCCTCTT+AGG 0.391471 8:+8049972 None:intergenic
TGTCTTGCAGCAACAGTTTG+TGG 0.403895 8:+8049939 None:intergenic
CAAGGTCCCTTATCACATCT+TGG 0.412458 8:+8050167 None:intergenic
TGGTGGGCCATGTTGAAATC+TGG 0.417693 8:+8050647 None:intergenic
AAAGAGAAAGCAATACTAGT+TGG 0.418809 8:+8049741 None:intergenic
GAGTGAGGATTATGATTACT+AGG 0.423589 8:+8049699 None:intergenic
CATAATTCTTCACCTGTTGA+AGG 0.428854 8:-8050233 MsaT041522.1:CDS
CTGTTGCTGCAAGACATAGA+AGG 0.446002 8:-8049932 MsaT041522.1:CDS
ATCCATGGATGGTCTAAATT+GGG 0.452946 8:-8050957 None:intergenic
TGTTGAGTACTCCACAAGAT+TGG 0.454815 8:+8050908 None:intergenic
AGTCTAAAGCCACCTTCAAC+AGG 0.457555 8:+8050221 None:intergenic
TAAAGGTTCTTCTCTCCAGC+TGG 0.468965 8:+8050721 None:intergenic
ATTCTGATTGAAGGTGTGTC+TGG 0.471321 8:+8050386 None:intergenic
AAATCTGGCATAATGTTGTA+AGG 0.495981 8:+8050662 None:intergenic
AGGTAACAAAGTTAATGCTA+TGG 0.507469 8:-8049772 MsaT041522.1:CDS
TGTTGTGAAAGATTTGTGTT+TGG 0.510255 8:+8050782 None:intergenic
TCTGTTGAAAATGATAATGA+TGG 0.512969 8:-8050551 MsaT041522.1:CDS
TAATCATAATCCTCACTCAC+AGG 0.514322 8:-8049694 MsaT041522.1:CDS
GTAAGGTCTACTGTCTGAAA+AGG 0.516969 8:+8050679 None:intergenic
AGAAGCAATAGCACAAATGA+AGG 0.517584 8:-8050069 MsaT041522.1:CDS
AGTAACACAGCAACCTCCTC+AGG 0.518382 8:-8050476 MsaT041522.1:CDS
AGGATTATGATTACTAGGGA+TGG 0.519072 8:+8049704 None:intergenic
AACAATCTCTCAAAGTTCCT+CGG 0.520026 8:-8050300 MsaT041522.1:CDS
TTACTAGGGATGGGAAAAGA+AGG 0.524109 8:+8049714 None:intergenic
AATCAAAAGCTGGATCCAGC+TGG 0.531706 8:-8050736 MsaT041522.1:CDS
ATGAAAGTGAAATCAAAAGC+TGG 0.539625 8:-8050746 MsaT041522.1:CDS
ATCCCAATTTAGACCATCCA+TGG 0.539878 8:+8050955 None:intergenic
GCACTGACAATTCTGATTGA+AGG 0.540825 8:+8050377 None:intergenic
GTTTCATCAAATTCATTGAG+TGG 0.542529 8:+8050320 None:intergenic
TCATCCATTCCAAAATTCAC+TGG 0.545940 8:+8050017 None:intergenic
GAAAAGGACTGAAATGATTG+AGG 0.553231 8:+8050695 None:intergenic
GGATTATGATTACTAGGGAT+GGG 0.558180 8:+8049705 None:intergenic
AAGAGAACACACCAATCTTG+TGG 0.562304 8:-8050919 MsaT041522.1:CDS
ACTATCAGTTTCACCTGAGG+AGG 0.566828 8:+8050463 None:intergenic
GTCAGTGCTACAGATGGTAC+CGG 0.569310 8:-8050362 MsaT041522.1:CDS
AATTCTTCACCTGTTGAAGG+TGG 0.574829 8:-8050230 MsaT041522.1:CDS
AGTACTCAACAATTTGAAGA+AGG 0.576847 8:-8050896 MsaT041522.1:CDS
TACTAGGGATGGGAAAAGAA+GGG 0.586236 8:+8049715 None:intergenic
TGTTGCTGCAAGACATAGAA+GGG 0.587506 8:-8049931 MsaT041522.1:CDS
CACTGCTTCAATGCTTGATG+AGG 0.590511 8:-8049847 MsaT041522.1:CDS
TCATGTCAACCCTGTGAGTG+AGG 0.610783 8:+8049684 None:intergenic
TAGAACATCATATCCATGGA+TGG 0.614303 8:-8050968 None:intergenic
TGGATGGATGTATTGATCCG+AGG 0.618195 8:+8050283 None:intergenic
AATCATAATCCTCACTCACA+GGG 0.622444 8:-8049693 MsaT041522.1:CDS
ATGGATGGTCTAAATTGGGA+TGG 0.624739 8:-8050953 MsaT041522.1:CDS
AGTGAGGATTATGATTACTA+GGG 0.626305 8:+8049700 None:intergenic
AGAATTGTCAGTGCTACAGA+TGG 0.636327 8:-8050368 MsaT041522.1:CDS
AAATTGATATTAGTTGAACA+AGG 0.637098 8:+8050149 None:intergenic
CATTATGCCAGATTTCAACA+TGG 0.655208 8:-8050654 MsaT041522.1:CDS
ATTACTATCAGTTTCACCTG+AGG 0.681052 8:+8050460 None:intergenic
TTGCAAAAGATTGTACCTGG+TGG 0.687101 8:-8049882 MsaT041522.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 8049689 8050975 8049689 ID=MsaG041522
Chr8 mRNA 8049689 8050975 8049689 ID=MsaT041522.1;Parent=MsaG041522
Chr8 exon 8049689 8050975 8049689 ID=MsaT041522.1.exon1;Parent=MsaT041522.1
Chr8 CDS 8049689 8050975 8049689 ID=cds.MsaT041522.1;Parent=MsaT041522.1
Gene Sequence

>MsaT041522.1

ATGGATGGTCTAAATTGGGATGGCTCACAATTTCAAGAGAACACACCAATCTTGTGGAGTACTCAACAATTTGAAGAAGGCTACAACATATCAAACTCTCTTACTCATCAAATACAAGAGATGCATAAAGTTCAAATTGGTAACACATATTCAAATTCTGAAAGATTGATTCCAAACACAAATCTTTCACAACAGCATGCAACAAATATGAAAGTGAAATCAAAAGCTGGATCCAGCTGGAGAGAAGAACCTTTAATACCTCAATCATTTCAGTCCTTTTCAGACAGTAGACCTTACAACATTATGCCAGATTTCAACATGGCCCACCAACAACAAAAACTCAACAACTCTTTTGAGTCTTTTGATTGTTTGCTTTCAGGTACTAACAGTAACACAGACACTTCTGTTGAAAATGATAATGATGGAATTTCAAAGCTATTTTCTGACTGCAAAAACTTATGGAACTTCAGTTATGTCAGTAACACAGCAACCTCCTCAGGTGAAACTGATAGTAATGTTTCAAACAGTACAAGCTACGAAGCACTGACACAAACACAGACACATACACCAGACACACCTTCAATCAGAATTGTCAGTGCTACAGATGGTACCGGAAACAAAAACATTCAGTGTCCACTCAATGAATTTGATGAAACAATCTCTCAAAGTTCCTCGGATCAATACATCCATCCAAGAAAAGCAATACAATCAAGTACTATTCATAATTCTTCACCTGTTGAAGGTGGCTTTAGACTTATCACTGATAAACCACCAAAATGCAAAAAACCAAGATGTGATAAGGGACCTTGTTCAACTAATATCAATTTTCAACAACCAAATTCATCATCAATGTGTTGTTCTTCTTCAATTGAAGAAGCTGATCCAGAAGCAATAGCACAAATGAAGGAAATGATGTATAGAGCTGCAGCATTTAGACCAGTGAATTTTGGAATGGATGATATTGATGTAATTGAAAAAAAGCCTAAGAGGAAGAATGTTAAGATATCAAATGATCCACAAACTGTTGCTGCAAGACATAGAAGGGAAAGAATAAGTGAAAGAATTAGGGTTTTGCAAAAGATTGTACCTGGTGGAAGCAAAATGGACACTGCTTCAATGCTTGATGAGGCTGCAAATTATCTAAAGTTTTTAAGGTCACAGGTTAAGGCACTTGAAAGTTTAGGTAACAAAGTTAATGCTATGGATTGTAATCCAACTAGTATTGCTTTCTCTTTTAACCCTTCTTTTCCCATCCCTAGTAATCATAATCCTCACTCACAGGGTTGA
Protein sequence

>MsaT041522.1

MDGLNWDGSQFQENTPILWSTQQFEEGYNISNSLTHQIQEMHKVQIGNTYSNSERLIPNTNLSQQHATNMKVKSKAGSSWREEPLIPQSFQSFSDSRPYNIMPDFNMAHQQQKLNNSFESFDCLLSGTNSNTDTSVENDNDGISKLFSDCKNLWNFSYVSNTATSSGETDSNVSNSTSYEALTQTQTHTPDTPSIRIVSATDGTGNKNIQCPLNEFDETISQSSSDQYIHPRKAIQSSTIHNSSPVEGGFRLITDKPPKCKKPRCDKGPCSTNINFQQPNSSSMCCSSSIEEADPEAIAQMKEMMYRAAAFRPVNFGMDDIDVIEKKPKRKNVKISNDPQTVAARHRRERISERIRVLQKIVPGGSKMDTASMLDEAANYLKFLRSQVKALESLGNKVNAMDCNPTSIAFSFNPSFPIPSNHNPHSQG*