AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG025349

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025349 MtrunA17_Chr5g0400621 66.892 296 77 3 5 280 19 313 3.59e-117 339
MsaG025349 MtrunA17_Chr5g0400641 83.333 150 25 0 127 276 1 150 1.11e-80 240
MsaG025349 MtrunA17_Chr2g0307131 40.566 318 138 11 5 275 17 330 2.39e-51 172
MsaG025349 MtrunA17_Chr6g0468491 41.581 291 128 9 22 275 3 288 3.84e-49 165
MsaG025349 MtrunA17_Chr7g0225901 38.996 259 130 5 19 276 9 240 4.05e-45 152
MsaG025349 MtrunA17_Chr2g0307141 53.503 157 73 0 119 275 178 334 4.25e-44 153
MsaG025349 MtrunA17_Chr5g0400661 45.361 194 91 3 95 274 120 312 6.23e-43 149
MsaG025349 MtrunA17_Chr2g0280161 42.857 210 113 4 72 280 131 334 1.01e-42 149
MsaG025349 MtrunA17_Chr4g0033391 40.550 291 139 12 11 280 23 300 1.80e-42 148
MsaG025349 MtrunA17_Chr4g0054581 49.215 191 80 5 92 274 171 352 8.18e-41 145
MsaG025349 MtrunA17_Chr4g0049331 47.799 159 81 2 123 280 134 291 3.99e-40 141
MsaG025349 MtrunA17_Chr6g0468461 37.061 313 138 10 5 276 17 311 6.48e-40 142
MsaG025349 MtrunA17_Chr4g0033281 38.721 297 143 12 5 275 17 300 2.45e-39 140
MsaG025349 MtrunA17_Chr4g0033291 35.959 292 159 6 11 280 23 308 8.41e-39 138
MsaG025349 MtrunA17_Chr4g0054621 38.487 304 132 11 19 280 31 321 1.39e-38 138
MsaG025349 MtrunA17_Chr4g0054571 42.460 252 105 8 62 275 59 308 3.28e-37 134
MsaG025349 MtrunA17_Chr4g0054551 43.312 157 79 3 123 275 154 304 2.63e-32 121
MsaG025349 MtrunA17_Chr8g0336681 43.478 161 82 2 123 275 155 314 3.42e-31 119
MsaG025349 MtrunA17_Chr5g0400671 34.914 232 133 7 51 275 82 302 6.78e-31 117
MsaG025349 MtrunA17_Chr4g0054561 41.615 161 76 4 123 275 154 304 7.96e-31 117
MsaG025349 MtrunA17_Chr4g0002801 36.019 211 124 4 76 280 109 314 2.01e-30 116
MsaG025349 MtrunA17_Chr2g0333641 37.321 209 119 4 82 282 89 293 3.04e-30 115
MsaG025349 MtrunA17_Chr2g0333621 37.662 231 120 6 56 275 73 290 7.24e-30 114
MsaG025349 MtrunA17_Chr4g0002781 37.143 210 117 4 76 275 124 328 1.67e-29 114
MsaG025349 MtrunA17_Chr7g0249811 41.830 153 80 1 123 275 164 307 3.00e-29 113
MsaG025349 MtrunA17_Chr2g0333611 39.506 162 86 4 119 275 40 194 1.02e-26 103
MsaG025349 MtrunA17_Chr2g0333541 33.333 258 153 5 21 275 6 247 2.01e-25 102
MsaG025349 MtrunA17_Chr7g0233441 38.806 134 72 2 147 280 57 180 9.77e-20 84.7
MsaG025349 MtrunA17_Chr4g0002851 41.791 134 60 3 147 280 65 180 3.98e-18 80.5
MsaG025349 MtrunA17_Chr4g0002831 32.759 174 100 5 113 280 26 188 3.33e-16 75.5
MsaG025349 MtrunA17_Chr8g0366751 31.638 177 106 5 103 265 439 614 2.75e-13 69.7
MsaG025349 MtrunA17_Chr1g0185621 26.761 142 96 2 124 257 475 616 9.20e-13 68.2
MsaG025349 MtrunA17_Chr5g0411341 27.381 168 111 3 124 280 493 660 6.14e-12 65.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025349 AT4G37850.2 48.276 174 78 4 111 275 134 304 5.62e-42 147
MsaG025349 AT4G37850.1 48.276 174 78 4 111 275 134 304 5.62e-42 147
MsaG025349 AT2G22760.2 40.909 176 97 4 107 278 104 276 3.36e-33 123
MsaG025349 AT2G22760.1 41.618 173 94 4 107 275 104 273 2.70e-32 120
MsaG025349 AT2G22750.1 45.977 174 83 3 112 275 109 281 1.96e-31 119
MsaG025349 AT2G22750.2 45.977 174 83 3 112 275 109 281 2.09e-31 119
MsaG025349 AT2G22750.4 45.977 174 83 3 112 275 137 309 2.77e-31 119
MsaG025349 AT2G22750.3 45.977 174 83 3 112 275 137 309 2.88e-31 119
MsaG025349 AT2G22750.5 45.977 174 83 3 112 275 133 305 3.29e-31 119
MsaG025349 AT2G22770.1 38.095 168 89 2 123 275 131 298 8.94e-28 109
MsaG025349 AT4G17880.1 31.973 147 90 3 124 265 416 557 8.51e-14 71.6
MsaG025349 AT5G46760.1 31.333 150 91 4 124 265 415 560 6.78e-13 68.9
MsaG025349 AT1G32640.1 32.184 174 104 6 95 257 423 593 8.19e-13 68.9
MsaG025349 AT2G46510.1 37.975 79 48 1 102 179 372 450 7.94e-12 65.9
MsaG025349 AT1G01260.1 24.719 178 109 4 96 273 408 560 3.52e-11 63.9
MsaG025349 AT1G01260.2 24.719 178 109 4 96 273 408 560 3.52e-11 63.9
MsaG025349 AT1G01260.3 24.719 178 109 4 96 273 408 560 3.52e-11 63.9

Find 39 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGTCCTTTGGAAACAAATT+TGG 0.137791 5:+7052512 MsaT025349.1:CDS
CCACGTGGATGCCAAAATTT+TGG 0.169781 5:+7053675 MsaT025349.1:CDS
CTAATACTCTCAAACGTTCT+TGG 0.224167 5:-7053531 None:intergenic
AAAGACAAATGGACAAAGTA+TGG 0.245921 5:+7043913 None:intergenic
ACTCTAGCTGCTCTTATTCC+TGG 0.272370 5:+7052759 MsaT025349.1:CDS
TACAAGTCATGGAGTGATTA+TGG 0.283092 5:+7053616 MsaT025349.1:CDS
ATAGCAGCGTCCTAGCTATT+GGG 0.352128 5:+7053794 MsaT025349.1:CDS
AATAGCAGCGTCCTAGCTAT+TGG 0.355262 5:+7053793 MsaT025349.1:CDS
AAGTTATTCTTCTTGTCCTT+TGG 0.370526 5:+7052500 MsaT025349.1:CDS
ATGGAGTGATTATGGTTCTA+AGG 0.381575 5:+7053624 MsaT025349.1:CDS
TTGTATTGTAGGCCCTTGTC+TGG 0.388081 5:+7054992 MsaT025349.1:intron
CAATGCGAACAAAACTTGTA+TGG 0.442147 5:+7052393 MsaT025349.1:CDS
ATTTGAAGAAAATGAAATAG+AGG 0.453578 5:+7052353 MsaT025349.1:CDS
CGCAGCTAAGTTACAAGTCA+TGG 0.456135 5:+7053605 MsaT025349.1:CDS
CTTTCCAAATTTGTTTCCAA+AGG 0.463702 5:-7052516 None:intergenic
TCTTTCTCTCCGCCATGATA+CGG 0.492627 5:-7052707 None:intergenic
TCTTATTCCTGGCTTGAAGA+AGG 0.494711 5:+7052770 MsaT025349.1:CDS
CAAGAAGAATAACTTTCAAA+AGG 0.505322 5:-7052492 None:intergenic
ACGGACAAGACTTCAGTCAT+AGG 0.509641 5:+7053481 MsaT025349.1:CDS
CAACTACCTCAAAATCAAGA+AGG 0.526009 5:+7052600 MsaT025349.1:CDS
CAACATACCTTCTTCAAGCC+AGG 0.529759 5:-7052777 None:intergenic
TGACATAACAATCATTGCTC+GGG 0.533848 5:+7053828 MsaT025349.1:CDS
TTGACATAACAATCATTGCT+CGG 0.539889 5:+7053827 MsaT025349.1:CDS
GGTAGTTGTGTTTGTGACAA+TGG 0.540621 5:-7052585 None:intergenic
GGATAGAATCCCCAATAGCT+AGG 0.566848 5:-7053804 None:intergenic
TGATCATCAAGACCGTATCA+TGG 0.571054 5:+7052695 MsaT025349.1:CDS
TTTGAAGAAAATGAAATAGA+GGG 0.571396 5:+7052354 MsaT025349.1:CDS
TAACTTTCAAAAGGTAACAA+TGG 0.572810 5:-7052483 None:intergenic
CAGAAAGACAAGGGACTAAG+AGG 0.576978 5:+7052661 MsaT025349.1:CDS
GAGCAATGATTGTTATGTCA+AGG 0.583989 5:-7053825 None:intergenic
TAGCAGCGTCCTAGCTATTG+GGG 0.595786 5:+7053795 MsaT025349.1:CDS
AACTACCTCAAAATCAAGAA+GGG 0.608663 5:+7052601 MsaT025349.1:CDS
AAGACAAATGGACAAAGTAT+GGG 0.617111 5:+7043914 None:intergenic
TGCTATTAACAACAGAGAGA+TGG 0.624062 5:-7053777 None:intergenic
TGGAACAACTTCATGCAAAG+TGG 0.630460 5:-7052565 None:intergenic
ACTAGGTCAAGTACCAGACA+AGG 0.655871 5:-7055005 None:intergenic
TAATGAAGATCTCCTCCACG+TGG 0.724761 5:+7053660 MsaT025349.1:CDS
CTAGGTCAAGTACCAGACAA+GGG 0.737203 5:-7055004 None:intergenic
TCATCAAGACCGTATCATGG+CGG 0.756942 5:+7052698 MsaT025349.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 7043921 7055026 7043921 ID=MsaG025349
Chr5 mRNA 7043921 7055026 7043921 ID=MsaT025349.1;Parent=MsaG025349
Chr5 exon 7043921 7043935 7043921 ID=MsaT025349.1.exon1;Parent=MsaT025349.1
Chr5 CDS 7043921 7043935 7043921 ID=cds.MsaT025349.1;Parent=MsaT025349.1
Chr5 exon 7052351 7052791 7052351 ID=MsaT025349.1.exon2;Parent=MsaT025349.1
Chr5 CDS 7052351 7052791 7052351 ID=cds.MsaT025349.1;Parent=MsaT025349.1
Chr5 exon 7053481 7053849 7053481 ID=MsaT025349.1.exon3;Parent=MsaT025349.1
Chr5 CDS 7053481 7053849 7053481 ID=cds.MsaT025349.1;Parent=MsaT025349.1
Chr5 exon 7055003 7055026 7055003 ID=MsaT025349.1.exon4;Parent=MsaT025349.1
Chr5 CDS 7055003 7055026 7055003 ID=cds.MsaT025349.1;Parent=MsaT025349.1
Gene Sequence

>MsaT025349.1

ATGGACAAAGTATGGCTATTTGAAGAAAATGAAATAGAGGGTTGTAATTTGTTTCAACAATGCGAACAAAACTTGTATGGTGAAGAAGAGTTTCTTTCACATGACATAGCAAGTATTTTTCAACAAGAGGAAAATTTGCAACATCAACCATTGTTACCTTTTGAAAGTTATTCTTCTTGTCCTTTGGAAACAAATTTGGAAAGAGACAAGAAGAAGTTGAAAACGAACACCACTTTGCATGAAGTTGTTCCATTGTCACAAACACAACTACCTCAAAATCAAGAAGGGTCATTGCAAAAGCAAAACGTTGTTGAAACTAAAAATACAGAAAGACAAGGGACTAAGAGGTCTGTTGCTTATGATCATCAAGACCGTATCATGGCGGAGAGAAAGAGAAGAGAAAAACTCAGTCAGTGCTTGATTACTCTAGCTGCTCTTATTCCTGGCTTGAAGAAGACGGACAAGACTTCAGTCATAGGAGATGCTATCAAGCATGTGAAAGAGCTCCAAGAACGTTTGAGAGTATTAGAAGAACAGAACAAGAATAGTCTTATTGAATCTGTAGTGACGCTTAACAAATCGCAGCTAAGTTACAAGTCATGGAGTGATTATGGTTCTAAGGCTGCTAGTTCTATTAATGAAGATCTCCTCCACGTGGATGCCAAAATTTTGGACAAAAACGTGCTCATAAGGATCCAGTGCCAAAAGCAAAAGAGTTTTTTGCTTAATAAATTGGTTGAGATTCAAAAGCTCCATCTCTCTGTTGTTAATAGCAGCGTCCTAGCTATTGGGGATTCTATCCTTGACATAACAATCATTGCTCGGGCCCTTGTCTGGTACTTGACCTAG
Protein sequence

>MsaT025349.1

MDKVWLFEENEIEGCNLFQQCEQNLYGEEEFLSHDIASIFQQEENLQHQPLLPFESYSSCPLETNLERDKKKLKTNTTLHEVVPLSQTQLPQNQEGSLQKQNVVETKNTERQGTKRSVAYDHQDRIMAERKRREKLSQCLITLAALIPGLKKTDKTSVIGDAIKHVKELQERLRVLEEQNKNSLIESVVTLNKSQLSYKSWSDYGSKAASSINEDLLHVDAKILDKNVLIRIQCQKQKSFLLNKLVEIQKLHLSVVNSSVLAIGDSILDITIIARALVWYLT*