AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG027826

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG027826 MtrunA17_Chr5g0427051 96.654 269 7 2 1 268 1 268 0.0 534
MsaG027826 MtrunA17_Chr3g0133181 58.681 288 77 7 1 264 1 270 3.46e-92 273
MsaG027826 MtrunA17_Chr5g0412501 51.598 219 75 7 58 268 77 272 4.25e-55 178
MsaG027826 MtrunA17_Chr4g0076821 41.767 249 92 6 58 267 112 346 2.84e-50 169
MsaG027826 MtrunA17_Chr1g0188441 40.845 213 93 5 56 267 6 186 1.52e-46 154
MsaG027826 MtrunA17_Chr2g0315941 40.359 223 96 8 59 267 68 267 4.00e-44 150
MsaG027826 MtrunA17_Chr7g0217231 40.090 222 99 6 56 267 85 282 2.88e-43 150
MsaG027826 MtrunA17_Chr5g0404271 39.367 221 108 6 54 267 94 295 4.04e-43 148
MsaG027826 MtrunA17_Chr8g0367691 41.204 216 105 7 58 267 68 267 1.42e-41 144
MsaG027826 MtrunA17_Chr6g0453231 42.180 211 103 5 59 267 91 284 2.01e-39 140
MsaG027826 MtrunA17_Chr8g0357741 54.667 75 33 1 193 267 23 96 3.65e-20 82.8
MsaG027826 MtrunA17_Chr7g0243651 90.244 41 4 0 57 97 1 41 9.72e-20 80.9
MsaG027826 MtrunA17_Chr3g0092371 56.164 73 25 2 57 129 18 83 1.73e-19 80.5
MsaG027826 MtrunA17_Chr6g0479901 53.333 60 27 1 205 263 101 160 1.43e-16 75.5
MsaG027826 MtrunA17_Chr4g0060731 60.000 55 19 1 55 109 21 72 3.57e-15 68.9
MsaG027826 MtrunA17_Chr2g0278381 100.000 29 0 0 69 97 19 47 8.51e-13 63.2
MsaG027826 MtrunA17_Chr6g0453221 56.604 53 19 1 55 107 17 65 2.28e-12 61.6
MsaG027826 MtrunA17_Chr8g0361671 52.727 55 24 1 56 108 61 115 1.18e-11 64.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG027826 AT4G24660.1 47.727 264 89 7 7 268 4 220 4.33e-64 200
MsaG027826 AT4G24660.2 47.328 262 85 8 7 264 4 216 5.82e-61 192
MsaG027826 AT2G02540.2 38.491 265 125 7 18 267 43 284 5.22e-57 185
MsaG027826 AT2G02540.1 38.491 265 125 7 18 267 43 284 5.22e-57 185
MsaG027826 AT1G14440.1 40.187 214 104 4 57 267 88 280 9.91e-51 169
MsaG027826 AT1G14440.2 40.187 214 104 4 57 267 88 280 9.91e-51 169
MsaG027826 AT5G65410.1 42.793 222 91 3 50 268 66 254 5.57e-49 163
MsaG027826 AT2G18350.1 41.315 213 91 4 57 267 80 260 2.39e-47 159
MsaG027826 AT1G75240.1 40.693 231 119 2 56 268 73 303 8.38e-46 156
MsaG027826 AT3G50890.1 40.566 212 95 3 58 266 59 242 1.48e-42 146
MsaG027826 AT1G69600.1 39.720 214 96 5 57 264 29 215 1.26e-36 130
MsaG027826 AT5G15210.1 35.616 219 96 5 54 261 51 235 3.08e-35 127
MsaG027826 AT5G39760.1 36.967 211 127 3 59 267 56 262 2.39e-34 127
MsaG027826 AT3G28920.1 36.279 215 117 4 57 264 50 251 5.33e-34 125
MsaG027826 AT5G60480.1 38.462 208 88 8 56 261 34 203 7.01e-30 112
MsaG027826 AT1G74660.1 66.176 68 21 1 55 122 35 100 2.03e-23 92.0
MsaG027826 AT1G74660.2 68.852 61 19 0 55 115 35 95 2.25e-23 91.7
MsaG027826 AT3G28917.1 63.768 69 22 2 56 123 30 96 1.54e-22 89.7
MsaG027826 AT1G18835.1 62.069 58 19 1 57 114 24 78 5.59e-18 77.0
MsaG027826 AT5G42780.1 36.232 69 44 0 196 264 170 238 6.83e-11 61.2

Find 81 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGCACTGGTGTTTGTGTTTC+TGG 0.083748 5:-53038196 None:intergenic
AGAGAAATGTTCTTAAAGTT+TGG 0.256503 5:+53038896 MsaT027826.1:CDS
GCTCTCCCTGCTGCTGCTTC+CGG 0.319955 5:+53038649 MsaT027826.1:CDS
GGTGGTGGTGGTAGCGGTGG+TGG 0.325308 5:+53038733 MsaT027826.1:CDS
CCTGCTGCTGCTTCCGGTGG+TGG 0.355404 5:+53038655 MsaT027826.1:CDS
GTGGAGGTGGTGGCTGTGAC+CGG 0.391995 5:-53038504 None:intergenic
TCTCCTTGAGGTGGAAGTTC+CGG 0.393909 5:-53038453 None:intergenic
GGTGGAGGTGGTGGTGGTGG+TGG 0.402507 5:+53038721 MsaT027826.1:CDS
TGGTATTGCGGCGGTGGAGG+TGG 0.407593 5:-53038517 None:intergenic
CCACCACCGGAAGCAGCAGC+AGG 0.427582 5:-53038655 None:intergenic
TGATGGTATTGCGGCGGTGG+AGG 0.428238 5:-53038520 None:intergenic
AAGAATCACGCCGTTAGCTT+CGG 0.428386 5:+53038340 MsaT027826.1:CDS
TTTATCGCTGCCGGTGAAGA+AGG 0.429195 5:+53038391 MsaT027826.1:CDS
TGGTGATGGTATTGCGGCGG+TGG 0.436665 5:-53038523 None:intergenic
GGTGGTGGTAGCGGTGGTGG+TGG 0.439608 5:+53038736 MsaT027826.1:CDS
AGTAGCGGTGGAGGTGGTGG+TGG 0.442408 5:+53038715 MsaT027826.1:CDS
TATTGCGGCGGTGGAGGTGG+TGG 0.444382 5:-53038514 None:intergenic
AGCAGTAGCGGTGGAGGTGG+TGG 0.444551 5:+53038712 MsaT027826.1:CDS
TTCGGTGGCCATGCTGTTGA+CGG 0.447816 5:+53038358 MsaT027826.1:CDS
AGCGGTGGAGGTGGTGGTGG+TGG 0.451872 5:+53038718 MsaT027826.1:CDS
CACAATAACAAGAACACTCT+TGG 0.453033 5:+53038922 MsaT027826.1:CDS
GGAGGAGCACGGTGGTAGTA+AGG 0.453304 5:-53038562 None:intergenic
CGTGATTCTTCTGACATTCT+CGG 0.457636 5:-53038327 None:intergenic
GGAACAGAAAGAGAAGTTGC+TGG 0.466315 5:+53038792 MsaT027826.1:CDS
AAACTCACCGTTGGAGTTGA+CGG 0.483943 5:+53038259 MsaT027826.1:CDS
GTAGCGGTGGTGGTGGATCA+AGG 0.485672 5:+53038743 MsaT027826.1:CDS
CCACCTCCACCGCTACTGCT+AGG 0.486199 5:-53038709 None:intergenic
AAACGGTTAGTTCATGTAAC+CGG 0.491216 5:+53038485 MsaT027826.1:CDS
AACGGTCTGTGATGTGCCAC+CGG 0.497928 5:-53038625 None:intergenic
ATGATGGTGGTGAAGGTAAC+CGG 0.500422 5:-53038593 None:intergenic
AGAGGAACAAGAAGAGGAGA+TGG 0.506205 5:+53038168 MsaT027826.1:CDS
TTCAAGTGTTCCTTCTTCAC+CGG 0.506613 5:-53038401 None:intergenic
CGTGCTCCTCCTTCCACAGC+CGG 0.511664 5:+53038574 MsaT027826.1:CDS
TTCTCTGCTCATTCCACCAC+CGG 0.513977 5:-53038668 None:intergenic
CACCTCCACCGCTACTGCTA+GGG 0.520409 5:-53038708 None:intergenic
AACCCTAGCAGTAGCGGTGG+AGG 0.520715 5:+53038706 MsaT027826.1:CDS
CTCCCTGCTGCTGCTTCCGG+TGG 0.523308 5:+53038652 MsaT027826.1:CDS
GCAGCAGCAGGGAGAGCCAA+CGG 0.524507 5:-53038643 None:intergenic
GCGCCGCTTGTAACTGTCAC+CGG 0.526555 5:+53038434 MsaT027826.1:CDS
CCTAGCAGTAGCGGTGGAGG+TGG 0.532726 5:+53038709 MsaT027826.1:CDS
AATCACGCCGTTAGCTTCGG+TGG 0.536570 5:+53038343 MsaT027826.1:CDS
GAGTCATAACTCGTTGGCAC+TGG 0.537593 5:-53038211 None:intergenic
CCACCATCATCTTGCAACTC+CGG 0.539922 5:+53038606 MsaT027826.1:CDS
CAAGGAGATCGATGGTGAAA+CGG 0.546446 5:+53038468 MsaT027826.1:CDS
GTGGTGAAGGTAACCGGCTG+TGG 0.551358 5:-53038587 None:intergenic
TTGCAAGATGATGGTGGTGA+AGG 0.558218 5:-53038600 None:intergenic
TGTTGCGAGTTTATCGCTGC+CGG 0.567002 5:+53038382 MsaT027826.1:CDS
CCACCGGAGTTGCAAGATGA+TGG 0.569041 5:-53038609 None:intergenic
CACCATCGATCTCCTTGAGG+TGG 0.573595 5:-53038462 None:intergenic
TGAAGGTAACCGGCTGTGGA+AGG 0.577589 5:-53038583 None:intergenic
TCACGTTCAAAACTCACCGT+TGG 0.581295 5:+53038250 MsaT027826.1:CDS
AGAATTGATTGCTGTGGTGA+TGG 0.582941 5:-53038537 None:intergenic
AATGGAATTTGATGAACAAG+AGG 0.584250 5:+53038150 None:intergenic
ATCTCAAACCCTAGCAGTAG+CGG 0.586840 5:+53038700 MsaT027826.1:CDS
TTTCCTTCCGTCAACTCCAA+CGG 0.588914 5:-53038266 None:intergenic
TGAACAAGAGGAACAAGAAG+AGG 0.593455 5:+53038162 MsaT027826.1:CDS
TCACCGGAACTTCCACCTCA+AGG 0.596745 5:+53038450 MsaT027826.1:CDS
CACCACCGGAAGCAGCAGCA+GGG 0.602778 5:-53038654 None:intergenic
GTTGGAGTTGACGGAAGGAA+AGG 0.610107 5:+53038268 MsaT027826.1:CDS
CCAACGAGTTATGACTCACT+TGG 0.611073 5:+53038217 MsaT027826.1:CDS
CGCAACAACCGTCAACAGCA+TGG 0.612162 5:-53038366 None:intergenic
AGGTAACCGGCTGTGGAAGG+AGG 0.612370 5:-53038580 None:intergenic
GGTGGCACATCACAGACCGT+TGG 0.612785 5:+53038627 MsaT027826.1:CDS
TTTCACCATCGATCTCCTTG+AGG 0.622549 5:-53038465 None:intergenic
ATTCAGAACAAAATTCACTC+AGG 0.624697 5:+53038771 MsaT027826.1:CDS
TTGCTGTGGTGATGGTATTG+CGG 0.630881 5:-53038529 None:intergenic
TCAAACCCTAGCAGTAGCGG+TGG 0.634884 5:+53038703 MsaT027826.1:CDS
GGAAGGAAAGGTAACGGCAA+CGG 0.639375 5:+53038280 MsaT027826.1:CDS
TTCCACCTCAAGGAGATCGA+TGG 0.639913 5:+53038460 MsaT027826.1:CDS
TCACCGTTGGAGTTGACGGA+AGG 0.640977 5:+53038263 MsaT027826.1:CDS
CCATCATCTTGCAACTCCGG+TGG 0.641524 5:+53038609 MsaT027826.1:CDS
CCAAGTGAGTCATAACTCGT+TGG 0.644449 5:-53038217 None:intergenic
GTTGACGGAAGGAAAGGTAA+CGG 0.669388 5:+53038274 MsaT027826.1:CDS
CGGCTGTGGAAGGAGGAGCA+CGG 0.673027 5:-53038573 None:intergenic
AGCATGGCCACCGAAGCTAA+CGG 0.680090 5:-53038350 None:intergenic
CTGTGGTGATGGTATTGCGG+CGG 0.691893 5:-53038526 None:intergenic
CCGGAGTTGCAAGATGATGG+TGG 0.694873 5:-53038606 None:intergenic
AGGAAAGGTAACGGCAACGG+CGG 0.697533 5:+53038283 MsaT027826.1:CDS
AAGGCGAGAATTGATTGCTG+TGG 0.722344 5:-53038543 None:intergenic
GTTCCGGTGACAGTTACAAG+CGG 0.723013 5:-53038437 None:intergenic
CTGTGGAAGGAGGAGCACGG+TGG 0.754237 5:-53038570 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 53038151 53038957 53038151 ID=MsaG027826
Chr5 mRNA 53038151 53038957 53038151 ID=MsaT027826.1;Parent=MsaG027826
Chr5 exon 53038151 53038957 53038151 ID=MsaT027826.1.exon1;Parent=MsaT027826.1
Chr5 CDS 53038151 53038957 53038151 ID=cds.MsaT027826.1;Parent=MsaT027826.1
Gene Sequence

>MsaT027826.1

ATGGAATTTGATGAACAAGAGGAACAAGAAGAGGAGATGGAGATTCCAGAAACACAAACACCAGTGCCAACGAGTTATGACTCACTTGGTAACTCAGCTTCACGTTCAAAACTCACCGTTGGAGTTGACGGAAGGAAAGGTAACGGCAACGGCGGTTTTGCTTCGACGGTGAGGTACCGAGAATGTCAGAAGAATCACGCCGTTAGCTTCGGTGGCCATGCTGTTGACGGTTGTTGCGAGTTTATCGCTGCCGGTGAAGAAGGAACACTTGAAGCTGTTATTTGCGCCGCTTGTAACTGTCACCGGAACTTCCACCTCAAGGAGATCGATGGTGAAACGGTTAGTTCATGTAACCGGTCACAGCCACCACCTCCACCGCCGCAATACCATCACCACAGCAATCAATTCTCGCCTTACTACCACCGTGCTCCTCCTTCCACAGCCGGTTACCTTCACCACCATCATCTTGCAACTCCGGTGGCACATCACAGACCGTTGGCTCTCCCTGCTGCTGCTTCCGGTGGTGGAATGAGCAGAGAAGATGATGATATCTCAAACCCTAGCAGTAGCGGTGGAGGTGGTGGTGGTGGTGGTAGCGGTGGTGGTGGATCAAGGAAGAGATTCAGAACAAAATTCACTCAGGAACAGAAAGAGAAGTTGCTGGCTTTTGCTGAAGAACATGGTTGGAGAATTCAAAAACAAGATGAAGCTGCTATAGAACAGTTTTGTGCTGAGAATTGTATCAAGAGAAATGTTCTTAAAGTTTGGATGCACAATAACAAGAACACTCTTGGTAAGAAACCCTAA
Protein sequence

>MsaT027826.1

MEFDEQEEQEEEMEIPETQTPVPTSYDSLGNSASRSKLTVGVDGRKGNGNGGFASTVRYRECQKNHAVSFGGHAVDGCCEFIAAGEEGTLEAVICAACNCHRNFHLKEIDGETVSSCNRSQPPPPPPQYHHHSNQFSPYYHRAPPSTAGYLHHHHLATPVAHHRPLALPAAASGGGMSREDDDISNPSSSGGGGGGGGSGGGGSRKRFRTKFTQEQKEKLLAFAEEHGWRIQKQDEAAIEQFCAENCIKRNVLKVWMHNNKNTLGKKP*