AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG020551

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG020551 MtrunA17_Chr4g0027991 87.205 297 33 5 1 296 1 293 2.27e-164 458
MsaG020551 MtrunA17_Chr2g0320311 44.828 319 97 13 17 296 19 297 3.14e-66 209
MsaG020551 MtrunA17_Chr1g0197281 37.968 374 120 13 8 296 9 355 2.73e-59 193
MsaG020551 MtrunA17_Chr1g0180311 36.842 323 145 13 5 296 3 297 1.84e-50 168
MsaG020551 MtrunA17_Chr1g0182161 38.922 167 41 5 116 270 39 156 1.90e-25 99.8
MsaG020551 MtrunA17_Chr7g0263121 38.272 162 46 4 116 270 44 158 7.38e-25 98.2
MsaG020551 MtrunA17_Chr7g0222831 35.057 174 43 3 67 240 12 115 2.11e-23 94.7
MsaG020551 MtrunA17_Chr1g0212561 33.333 189 58 5 55 241 4 126 1.05e-21 90.5
MsaG020551 MtrunA17_Chr1g0182181 30.631 222 73 5 58 270 2 151 3.35e-21 88.2
MsaG020551 MtrunA17_Chr7g0263131 37.500 160 47 5 116 268 34 147 4.08e-21 87.8
MsaG020551 MtrunA17_Chr1g0188911 39.623 159 79 6 115 264 43 193 3.45e-20 86.3
MsaG020551 MtrunA17_Chr4g0012791 37.427 171 71 6 115 265 226 380 7.02e-19 86.7
MsaG020551 MtrunA17_Chr4g0061301 36.709 158 80 5 116 268 348 490 1.66e-18 85.5
MsaG020551 MtrunA17_Chr1g0188901 36.875 160 58 6 115 264 59 185 1.05e-15 73.9
MsaG020551 MtrunA17_Chr2g0327901 32.484 157 47 4 116 272 34 131 1.09e-15 72.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG020551 AT2G28200.1 41.720 314 111 10 17 296 11 286 6.74e-58 187
MsaG020551 AT5G03510.1 39.482 309 125 12 19 296 15 292 8.25e-52 172
MsaG020551 AT5G04390.1 32.361 377 140 9 14 296 7 362 6.06e-46 159
MsaG020551 AT3G10470.1 32.615 325 102 10 61 296 102 398 1.53e-39 143
MsaG020551 AT2G37430.1 33.484 221 72 6 57 269 7 160 1.71e-26 102
MsaG020551 AT3G53600.1 29.956 227 78 8 54 269 1 157 3.54e-20 86.3
MsaG020551 AT2G28710.1 28.947 228 71 6 54 270 1 148 8.31e-18 79.3
MsaG020551 AT3G60580.1 33.636 220 91 8 60 275 120 288 5.47e-17 79.7
MsaG020551 AT1G02040.1 28.511 235 127 8 44 272 93 292 3.65e-16 77.8
MsaG020551 AT5G67450.1 27.830 212 94 4 22 233 34 186 2.20e-15 74.7
MsaG020551 AT3G19580.1 31.250 176 67 6 60 233 64 187 5.80e-15 73.9
MsaG020551 AT3G19580.2 31.250 176 67 6 60 233 64 187 5.80e-15 73.9

Find 87 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGAAACAAAGTTTCAGTTTC+CGG 0.212657 4:-54264193 MsaT020551.1:CDS
AACCATGATGATTCCCCATT+TGG 0.275629 4:+54264430 None:intergenic
GCCCATGGTTTCTTTCCAAA+TGG 0.317101 4:-54264445 MsaT020551.1:CDS
GGTTTGAAAGCAGCTATTAA+TGG 0.332072 4:-54264411 MsaT020551.1:CDS
GATGGCTGCTGCTCCGGCTT+TGG 0.337938 4:-54264151 MsaT020551.1:CDS
GGCTGCTGCTCCGGCTTTGG+TGG 0.355185 4:-54264148 MsaT020551.1:CDS
CGCCGCGGCTGTCGCGGCCC+CGG 0.362249 4:-54264286 MsaT020551.1:CDS
CCCATGGTTTCTTTCCAAAT+GGG 0.368865 4:-54264444 MsaT020551.1:CDS
TTTGGTGGGTTGCCATTATT+AGG 0.369907 4:-54264133 None:intergenic
GAAACTGAAACTTTGTTTCC+CGG 0.371224 4:+54264196 None:intergenic
TGATGAAGAAGAAGAAGATT+TGG 0.373446 4:-54264823 MsaT020551.1:CDS
ATCCCACCATTGCCTAATAA+TGG 0.373982 4:+54264121 None:intergenic
ATTCATGAGTGTTCCATTTG+TGG 0.380454 4:-54264375 MsaT020551.1:CDS
AAAGGGTAGTCATGGAAATA+AGG 0.380799 4:-54264724 MsaT020551.1:CDS
GTTTGAAAGCAGCTATTAAT+GGG 0.383602 4:-54264410 MsaT020551.1:CDS
ACAATTGGATCTTAACCTTC+CGG 0.387432 4:-54264235 MsaT020551.1:CDS
GCTAGTATTCTCATGAATCT+TGG 0.394026 4:+54264701 None:intergenic
TTCAAGCTTTGGGTGGTCAC+AGG 0.400243 4:-54264620 MsaT020551.1:CDS
TGAGATGGAAGAGTTTGTTA+TGG 0.402618 4:-54265006 None:intergenic
CGGCACCGGAGGAGGATATC+CGG 0.403948 4:-54264215 MsaT020551.1:CDS
CTTGGCCTAACTCCTTCATC+CGG 0.411052 4:+54264267 None:intergenic
TGTGAACTCTGAACCACAAA+TGG 0.422342 4:+54264362 None:intergenic
GCTGTCGCGGCCCCGGATGA+AGG 0.431837 4:-54264279 MsaT020551.1:CDS
TCCTTGTGGTGTTGTTGCTA+TGG 0.433985 4:-54264901 MsaT020551.1:CDS
GGCAAACGCCGCGGCTGTCG+CGG 0.436027 4:-54264292 MsaT020551.1:CDS
TCCAATTGTAAAATATTCCT+TGG 0.441862 4:+54264249 None:intergenic
TGATGAGAATAAAAGGGAAA+AGG 0.444034 4:-54264742 MsaT020551.1:CDS
AATGGTGATGGCTGCTGCTC+CGG 0.446387 4:-54264157 MsaT020551.1:CDS
CGGATATCCTCCTCCGGTGC+CGG 0.447534 4:+54264216 None:intergenic
CGGCCCCGGATGAAGGAGTT+AGG 0.454771 4:-54264272 MsaT020551.1:CDS
CCACCCAAAGCTTGAAAAGA+TGG 0.454904 4:+54264627 None:intergenic
GATGAGAATAAAAGGGAAAA+GGG 0.455980 4:-54264741 MsaT020551.1:CDS
GTGTCCACCCAATGCTTGTC+CGG 0.464924 4:+54264338 None:intergenic
ATCCGGGGCCGCGACAGCCG+CGG 0.468884 4:+54264284 None:intergenic
TTCCAAATGGGGAATCATCA+TGG 0.470180 4:-54264432 MsaT020551.1:CDS
GTTTGTTATGGAGGAAAAGA+TGG 0.472339 4:-54264994 MsaT020551.1:CDS
AATGGAACACTCATGAATCT+TGG 0.473930 4:+54264380 None:intergenic
TGTTTGATTCTTCTTGCTCA+AGG 0.476491 4:-54264795 MsaT020551.1:CDS
TTGGCCTAACTCCTTCATCC+GGG 0.483136 4:+54264268 None:intergenic
GATGGAAGAGTTTGTTATGG+AGG 0.484063 4:-54265003 MsaT020551.1:CDS
GGATCTTAACCTTCCGGCAC+CGG 0.484472 4:-54264229 MsaT020551.1:CDS
TTCACATCCGGACAAGCATT+GGG 0.492037 4:-54264345 MsaT020551.1:CDS
TAACCTTCCGGCACCGGAGG+AGG 0.492624 4:-54264223 MsaT020551.1:CDS
TGTGGTTCAGAGTTCACATC+CGG 0.498637 4:-54264357 MsaT020551.1:CDS
GCTGCTGCTCCGGCTTTGGT+GGG 0.498866 4:-54264147 MsaT020551.1:CDS
AAAAGGGAAAAGGGTAGTCA+TGG 0.501331 4:-54264732 MsaT020551.1:CDS
TGTTATGGAGGAAAAGATGG+TGG 0.501335 4:-54264991 MsaT020551.1:CDS
GTGGACACATGAGGAGGCAT+AGG 0.504351 4:-54264323 MsaT020551.1:CDS
TGTGGCCGAGGCTGCTGCGG+CGG 0.507817 4:+54264546 None:intergenic
GTTCACATCCGGACAAGCAT+TGG 0.508676 4:-54264346 MsaT020551.1:CDS
GACTGTGGCCGAGGCTGCTG+CGG 0.509325 4:+54264543 None:intergenic
CATCACCGCCGCAGCAGCCT+CGG 0.515227 4:-54264551 MsaT020551.1:CDS
GTTTCCCGGATATCCTCCTC+CGG 0.518540 4:+54264210 None:intergenic
TAATGGCAACCCACCAAAGC+CGG 0.522225 4:+54264138 None:intergenic
GAGAATACTAGCACAAAACT+TGG 0.524565 4:-54264690 MsaT020551.1:CDS
CCATGGTTTCTTTCCAAATG+GGG 0.530266 4:-54264443 MsaT020551.1:CDS
GGCACCGGAGGAGGATATCC+GGG 0.532359 4:-54264214 MsaT020551.1:CDS
TCAAGCTTTGGGTGGTCACA+GGG 0.535579 4:-54264619 MsaT020551.1:CDS
CCAAAGGAAAACGTACTAAG+AGG 0.536600 4:-54264938 MsaT020551.1:CDS
GTTATGGAGGAAAAGATGGT+GGG 0.543511 4:-54264990 MsaT020551.1:CDS
TGAGAAACCTCGTGGGCCCA+TGG 0.552592 4:-54264460 MsaT020551.1:CDS
TGGACACATGAGGAGGCATA+GGG 0.553507 4:-54264322 MsaT020551.1:CDS
CCCCATTTGGAAAGAAACCA+TGG 0.566223 4:+54264443 None:intergenic
GAGGAGGCATAGGGCATCAG+TGG 0.587332 4:-54264313 MsaT020551.1:CDS
TGATTCGCAATCAGTTAACC+TGG 0.588441 4:-54264511 MsaT020551.1:CDS
ACTCATCACTATTCGCAACC+AGG 0.588455 4:+54264493 None:intergenic
TGTGATGAAGACTGTGGCCG+AGG 0.593635 4:+54264534 None:intergenic
TATCCTCCTCCGGTGCCGGA+AGG 0.594929 4:+54264220 None:intergenic
AAAGCCTAAAATCATGGCGG+AGG 0.599306 4:-54264586 MsaT020551.1:CDS
TTGATTCTTCTTGCTCAAGG+TGG 0.600477 4:-54264792 MsaT020551.1:CDS
AGCAGCTATTAATGGGAACA+AGG 0.601134 4:-54264403 MsaT020551.1:CDS
TCTTAACCTTCCGGCACCGG+AGG 0.607477 4:-54264226 MsaT020551.1:CDS
TGGCCTAACTCCTTCATCCG+GGG 0.608914 4:+54264269 None:intergenic
CGGATGAAGGAGTTAGGCCA+AGG 0.613650 4:-54264266 MsaT020551.1:CDS
CCCATTTGGAAAGAAACCAT+GGG 0.614973 4:+54264444 None:intergenic
GATGCAACTTACATAGCCAA+AGG 0.631447 4:-54264954 MsaT020551.1:CDS
AAGCATTGGGTGGACACATG+AGG 0.635825 4:-54264332 MsaT020551.1:CDS
CATTGGGTGGACACATGAGG+AGG 0.644735 4:-54264329 MsaT020551.1:CDS
GCCATAGCAACAACACCACA+AGG 0.645146 4:+54264900 None:intergenic
ACATCCGGACAAGCATTGGG+TGG 0.645911 4:-54264342 MsaT020551.1:CDS
GGCATCAGTGGCAAACGCCG+CGG 0.646242 4:-54264301 MsaT020551.1:CDS
GAAGAAGCTGAGAAACCTCG+TGG 0.659484 4:-54264468 MsaT020551.1:CDS
AAAGAAACCATGGGCCCACG+AGG 0.682791 4:+54264453 None:intergenic
GGTGGAAATCATAAGCAACA+TGG 0.700755 4:-54264774 MsaT020551.1:CDS
AAGAAGCTGAGAAACCTCGT+GGG 0.704144 4:-54264467 MsaT020551.1:CDS
GGAAATCATAAGCAACATGG+TGG 0.725682 4:-54264771 MsaT020551.1:CDS
GAATCATGTGATGAAGACTG+TGG 0.801031 4:+54264528 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 54264134 54265024 54264134 ID=MsaG020551
Chr4 mRNA 54264134 54265024 54264134 ID=MsaT020551.1;Parent=MsaG020551
Chr4 exon 54264134 54265024 54264134 ID=MsaT020551.1.exon1;Parent=MsaT020551.1
Chr4 CDS 54264134 54265024 54264134 ID=cds.MsaT020551.1;Parent=MsaT020551.1
Gene Sequence

>MsaT020551.1

ATGGAAGAGTTTGTTATGGAGGAAAAGATGGTGGGTTATGCTAAGAAAGATGCAACTTACATAGCCAAAGGAAAACGTACTAAGAGGTTAAGATTTTTGTCTCCTTGTGGTGTTGTTGCTATGGCATCTAGTTGTTCAAGTGATGACAGCAACATTGATCTTGAAGAAGATGAAGATGATGATGAAGAAGAAGAAGATTTGGCTAAGTGTTTGATTCTTCTTGCTCAAGGTGGAAATCATAAGCAACATGGTGGTTTTGTTGATGAGAATAAAAGGGAAAAGGGTAGTCATGGAAATAAGGCCAAGATTCATGAGAATACTAGCACAAAACTTGGTTTGTATATTTATGAATGCAAAACATGTAACAGAACTTTTCCATCTTTTCAAGCTTTGGGTGGTCACAGGGCAAGTCACAAAAAGCCTAAAATCATGGCGGAGGAGAAGAAAACATCATCACCGCCGCAGCAGCCTCGGCCACAGTCTTCATCACATGATTCGCAATCAGTTAACCTGGTTGCGAATAGTGATGAGTTTGAAGAAGCTGAGAAACCTCGTGGGCCCATGGTTTCTTTCCAAATGGGGAATCATCATGGTTTGAAAGCAGCTATTAATGGGAACAAGGCCAAGATTCATGAGTGTTCCATTTGTGGTTCAGAGTTCACATCCGGACAAGCATTGGGTGGACACATGAGGAGGCATAGGGCATCAGTGGCAAACGCCGCGGCTGTCGCGGCCCCGGATGAAGGAGTTAGGCCAAGGAATATTTTACAATTGGATCTTAACCTTCCGGCACCGGAGGAGGATATCCGGGAAACAAAGTTTCAGTTTCCGGCTACACAAAAATCAATGGTGATGGCTGCTGCTCCGGCTTTGGTGGGTTGCCATTATTAG
Protein sequence

>MsaT020551.1

MEEFVMEEKMVGYAKKDATYIAKGKRTKRLRFLSPCGVVAMASSCSSDDSNIDLEEDEDDDEEEEDLAKCLILLAQGGNHKQHGGFVDENKREKGSHGNKAKIHENTSTKLGLYIYECKTCNRTFPSFQALGGHRASHKKPKIMAEEKKTSSPPQQPRPQSSSHDSQSVNLVANSDEFEEAEKPRGPMVSFQMGNHHGLKAAINGNKAKIHECSICGSEFTSGQALGGHMRRHRASVANAAAVAAPDEGVRPRNILQLDLNLPAPEEDIRETKFQFPATQKSMVMAAAPALVGCHY*