AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG012533


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG012533 MtrunA17_Chr3g0081131 90.541 296 28 0 1 296 1 296 0.0 535
MsaG012533 MtrunA17_Chr3g0081141 70.455 308 76 5 1 296 1 305 1.37e-141 401
MsaG012533 MtrunA17_Chr3g0081121 75.248 303 68 2 1 296 1 303 2.02e-140 398
MsaG012533 MtrunA17_Chr3g0079671 65.203 296 88 7 14 296 14 307 3.80e-115 334
MsaG012533 MtrunA17_Chr7g0222661 54.754 305 112 8 1 296 1 288 4.79e-89 267
MsaG012533 MtrunA17_Chr7g0224221 49.275 345 107 10 1 286 1 336 8.39e-89 268
MsaG012533 MtrunA17_Chr5g0396031 49.807 259 66 11 59 258 8 261 1.39e-59 194
MsaG012533 MtrunA17_Chr5g0396031 51.724 145 60 5 158 296 247 387 1.76e-24 101
MsaG012533 MtrunA17_Chr7g0222671 46.305 203 70 6 1 196 1 171 6.43e-47 155
MsaG012533 MtrunA17_Chr7g0224071 52.414 145 60 6 158 296 19 160 6.46e-30 111
MsaG012533 MtrunA17_Chr7g0224061 49.669 151 66 7 153 296 14 161 9.37e-27 103
MsaG012533 MtrunA17_Chr1g0149811 39.823 113 53 4 90 188 86 197 8.15e-16 75.5
MsaG012533 MtrunA17_Chr1g0207691 40.625 96 50 2 97 192 63 151 4.38e-14 69.7
MsaG012533 MtrunA17_Chr4g0001081 43.373 83 37 2 95 177 64 136 7.40e-13 66.6
MsaG012533 MtrunA17_Chr7g0255491 48.148 54 28 0 85 138 54 107 1.71e-11 63.5
MsaG012533 MtrunA17_Chr3g0137111 37.234 94 46 2 92 172 66 159 2.59e-11 62.4
MsaG012533 MtrunA17_Chr2g0333741 43.158 95 34 5 95 177 78 164 8.51e-11 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG012533 AT5G10970.1 46.835 79 38 4 96 172 100 176 4.45e-13 68.6
MsaG012533 AT5G25160.1 44.828 87 43 4 89 171 49 134 4.75e-13 67.8
MsaG012533 AT5G01860.1 68.421 38 12 0 97 134 64 101 2.02e-12 65.9
MsaG012533 AT1G80730.1 36.283 113 56 2 92 189 60 171 6.33e-12 64.3
MsaG012533 AT5G27880.1 52.632 57 24 1 100 156 80 133 6.44e-12 65.1

Find 64 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGTCAATGAAGAGAAGAATT+TGG 0.201357 3:-26458803 MsaT012533.1:CDS
AAACTGTGTGGGGTAATCTT+AGG 0.228026 3:+26458538 None:intergenic
GATGATGGTACTTCAGGTTT+AGG 0.254421 3:-26458658 MsaT012533.1:CDS
AAGATTACCCCACACAGTTT+TGG 0.280652 3:-26458535 MsaT012533.1:CDS
ATTGGTGCAATGCTAAAATT+AGG 0.304816 3:-26458367 MsaT012533.1:CDS
GGTGGTACAAATAATAAAAT+TGG 0.315699 3:-26458385 MsaT012533.1:CDS
ATGATGGTACTTCAGGTTTA+GGG 0.325587 3:-26458657 MsaT012533.1:CDS
GTTCCGCCTTATGAGCATTC+TGG 0.332366 3:+26458713 None:intergenic
AGGGGTGGTAACAGCGGGTT+TGG 0.340009 3:-26458448 MsaT012533.1:CDS
TAGATCATGAATACCATCTT+TGG 0.348347 3:+26458270 None:intergenic
AGGTATGATGATGGTACTTC+AGG 0.352893 3:-26458664 MsaT012533.1:CDS
TGACAGCTTCATGAAATCAA+TGG 0.390614 3:+26458939 None:intergenic
GTAATCTTAGGGCTAAAATA+AGG 0.401113 3:+26458550 None:intergenic
CATGAAATCAATGGGTTTGT+CGG 0.411642 3:+26458948 None:intergenic
TTGCTTCATTGAGAAATATG+AGG 0.417907 3:-26458468 MsaT012533.1:CDS
GACGATGAACCAATTTGAAT+GGG 0.422269 3:+26458865 None:intergenic
ATGAAATCAATGGGTTTGTC+GGG 0.431271 3:+26458949 None:intergenic
GGAAGAGATGCTAGAGGATT+CGG 0.431590 3:+26459059 None:intergenic
GACAGCTTCATGAAATCAAT+GGG 0.441680 3:+26458940 None:intergenic
ATTCTCTACTTCACAAGCAT+TGG 0.443427 3:-26458743 MsaT012533.1:CDS
TTTCCTAATGAAAACAATCA+AGG 0.447341 3:-26458838 MsaT012533.1:CDS
TTCTCTACTTCACAAGCATT+GGG 0.462768 3:-26458742 MsaT012533.1:CDS
AACTGTGTGGGGTAATCTTA+GGG 0.464573 3:+26458539 None:intergenic
AGAGAATTGTCTCTTACAAA+AGG 0.466075 3:+26458759 None:intergenic
AGACGATGAACCAATTTGAA+TGG 0.482754 3:+26458864 None:intergenic
TGCTCTTGCAGCTTCGACAC+AGG 0.488669 3:+26458901 None:intergenic
CCTTATGATTATAGGTCACT+CGG 0.502472 3:-26458604 MsaT012533.1:CDS
AGGACACCAGAATGCTCATA+AGG 0.524922 3:-26458719 MsaT012533.1:CDS
CCGAGTGACCTATAATCATA+AGG 0.525380 3:+26458604 None:intergenic
GCTCCTACTTCTACCAAAGA+TGG 0.531766 3:-26458283 MsaT012533.1:CDS
TCGGTGGTGCAAGTACTTCA+AGG 0.532445 3:-26458414 MsaT012533.1:CDS
TGCTTCATTGAGAAATATGA+GGG 0.532522 3:-26458467 MsaT012533.1:CDS
TTCACCTCGATCTCGTGAAG+TGG 0.539729 3:+26459038 None:intergenic
TTTCTCAATGAAGCAAGAGA+AGG 0.547522 3:+26458475 None:intergenic
CTTATGATTATAGGTCACTC+GGG 0.553137 3:-26458603 MsaT012533.1:CDS
TTCTCAATGAAGCAAGAGAA+GGG 0.558954 3:+26458476 None:intergenic
GACGGTACCCAAAACTGTGT+GGG 0.561677 3:+26458527 None:intergenic
GCAAGTACTTCAAGGATTGA+AGG 0.568493 3:-26458406 MsaT012533.1:CDS
ATATGAGGGGTGGTAACAGC+GGG 0.569644 3:-26458453 MsaT012533.1:CDS
GCTAGAGGATTCGGATGCCA+TGG 0.585359 3:+26459068 None:intergenic
GGGTTTGGAAACCTAGGTAT+CGG 0.586346 3:-26458433 MsaT012533.1:CDS
CGGAAACAAAGGTATGATGA+TGG 0.598601 3:-26458673 MsaT012533.1:CDS
TAGAAAAGCAACGGAAACAA+AGG 0.606956 3:-26458684 MsaT012533.1:CDS
TACTTGCACCACCGATACCT+AGG 0.614177 3:+26458422 None:intergenic
ATACCATCTTTGGTAGAAGT+AGG 0.614243 3:+26458280 None:intergenic
TGACGGTACCCAAAACTGTG+TGG 0.621693 3:+26458526 None:intergenic
TGGTATTCATGATCTATCAA+AGG 0.623851 3:-26458263 MsaT012533.1:CDS
ATCTTAGGGCTAAAATAAGG+TGG 0.624011 3:+26458553 None:intergenic
TCTTCCACTTCACGAGATCG+AGG 0.626572 3:-26459042 MsaT012533.1:CDS
TCAGATGATTCAGAATCAGA+AGG 0.636973 3:+26458223 None:intergenic
TGAAGTGGAAGAGATGCTAG+AGG 0.646395 3:+26459053 None:intergenic
CTTGCAACAAAGCACTATGA+CGG 0.651264 3:+26458509 None:intergenic
TCATTGAGAAATATGAGGGG+TGG 0.653640 3:-26458463 MsaT012533.1:CDS
TTTGGAAACCTAGGTATCGG+TGG 0.657683 3:-26458430 MsaT012533.1:CDS
AACGTGCTATAGAAAAGCAA+CGG 0.662928 3:-26458693 MsaT012533.1:CDS
TCTACTTCACAAGCATTGGG+AGG 0.664622 3:-26458739 MsaT012533.1:CDS
ACGGTACCCAAAACTGTGTG+GGG 0.666056 3:+26458528 None:intergenic
AATATGAGGGGTGGTAACAG+CGG 0.669747 3:-26458454 MsaT012533.1:CDS
AACAGCGGGTTTGGAAACCT+AGG 0.670930 3:-26458439 MsaT012533.1:CDS
TTATGATTATAGGTCACTCG+GGG 0.677025 3:-26458602 MsaT012533.1:CDS
ACGATGAACCAATTTGAATG+GGG 0.690761 3:+26458866 None:intergenic
ACACCAGAATGCTCATAAGG+CGG 0.692751 3:-26458716 MsaT012533.1:CDS
AGTACTTCAAGGATTGAAGG+TGG 0.714441 3:-26458403 MsaT012533.1:CDS
GCTTCATTGAGAAATATGAG+GGG 0.751842 3:-26458466 MsaT012533.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 26458198 26459088 26458198 ID=MsaG012533
Chr3 mRNA 26458198 26459088 26458198 ID=MsaT012533.1;Parent=MsaG012533
Chr3 exon 26458198 26459088 26458198 ID=MsaT012533.1.exon1;Parent=MsaT012533.1
Chr3 CDS 26458198 26459088 26458198 ID=cds.MsaT012533.1;Parent=MsaT012533.1
Gene Sequence

>MsaT012533.1

ATGGCATCCGAATCCTCTAGCATCTCTTCCACTTCACGAGATCGAGGTGAATGTTCCTACTCAAAAAAAGTGGTGAACATGAAGGAGATTGAACACATTCAATCCTCAAACTCAAAACCCGACAAACCCATTGATTTCATGAAGCTGTCAAAAGAAGATTCAGTTCCTGTGTCGAAGCTGCAAGAGCACAATTTTTTCGGCCCCATTCAAATTGGTTCATCGTCTTGTTTTCCTAATGAAAACAATCAAGGAAAAGATGAGAACGTCAATGAAGAGAAGAATTTGGATTCAAGATCTTTTTCATGCTCCTTTTGTAAGAGACAATTCTCTACTTCACAAGCATTGGGAGGACACCAGAATGCTCATAAGGCGGAACGTGCTATAGAAAAGCAACGGAAACAAAGGTATGATGATGGTACTTCAGGTTTAGGGCAATCTTACTTTAATCCTACTCTTTTTCGACCTTATGATTATAGGTCACTCGGGGTTAGAACCGAGTCAATGATTCAAAAACCACCTTATTTTAGCCCTAAGATTACCCCACACAGTTTTGGGTACCGTCATAGTGCTTTGTTGCAAGAGATCTTAAACCCTTCTCTTGCTTCATTGAGAAATATGAGGGGTGGTAACAGCGGGTTTGGAAACCTAGGTATCGGTGGTGCAAGTACTTCAAGGATTGAAGGTGGTACAAATAATAAAATTGGTGCAATGCTAAAATTAGGAGATTCTTCTACAAATATTGCTACAAGTTCAAACTCAAACATAGAAAAACAAATTATTGTGGCTCCTACTTCTACCAAAGATGGTATTCATGATCTATCAAAGGCTAACATTGAAGAAGAACCTTCTGATTCTGAATCATCTGAGCTTGATTTATCACTCAAGCTTTAA

Protein sequence

>MsaT012533.1

MASESSSISSTSRDRGECSYSKKVVNMKEIEHIQSSNSKPDKPIDFMKLSKEDSVPVSKLQEHNFFGPIQIGSSSCFPNENNQGKDENVNEEKNLDSRSFSCSFCKRQFSTSQALGGHQNAHKAERAIEKQRKQRYDDGTSGLGQSYFNPTLFRPYDYRSLGVRTESMIQKPPYFSPKITPHSFGYRHSALLQEILNPSLASLRNMRGGNSGFGNLGIGGASTSRIEGGTNNKIGAMLKLGDSSTNIATSSNSNIEKQIIVAPTSTKDGIHDLSKANIEEEPSDSESSELDLSLKL*