AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG043781

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG043781 MtrunA17_Chr8g0366551 93.498 323 11 3 1 314 1 322 0.0 577
MsaG043781 MtrunA17_Chr3g0132471 49.442 269 111 6 56 308 56 315 1.01e-81 250
MsaG043781 MtrunA17_Chr7g0273081 44.521 292 135 7 37 311 31 312 1.27e-72 226
MsaG043781 MtrunA17_Chr1g0191571 53.052 213 85 2 109 311 129 336 2.26e-72 226
MsaG043781 MtrunA17_Chr5g0426851 50.679 221 102 3 95 310 79 297 7.69e-68 214
MsaG043781 MtrunA17_Chr0c01g0489461 43.346 263 124 6 70 311 140 398 6.28e-58 191
MsaG043781 MtrunA17_Chr8g0345871 49.500 200 92 2 106 305 171 361 2.27e-52 176
MsaG043781 MtrunA17_Chr2g0287761 36.782 174 107 2 116 288 1 172 3.23e-35 126
MsaG043781 MtrunA17_Chr1g0158941 33.962 212 114 3 105 290 70 281 8.32e-29 112
MsaG043781 MtrunA17_Chr5g0411341 26.457 223 147 5 64 286 454 659 3.35e-13 70.1
MsaG043781 MtrunA17_Chr1g0211081 28.934 197 109 7 96 274 305 488 2.14e-12 67.4
MsaG043781 MtrunA17_Chr3g0126361 82.353 34 6 0 114 147 99 132 2.58e-12 63.5
MsaG043781 MtrunA17_Chr8g0366751 29.319 191 126 4 96 286 447 628 8.44e-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
MsaG043781 AT1G72210.1 56.872 211 82 3 105 311 114 319 4.29e-71 223
MsaG043781 AT1G22490.1 53.922 204 90 2 105 308 104 303 4.83e-69 217
MsaG043781 AT5G46690.1 47.500 320 128 8 11 308 1 302 4.63e-64 205
MsaG043781 AT1G72210.2 56.593 182 70 3 105 282 114 290 3.89e-59 192
MsaG043781 AT1G22490.2 42.909 275 133 7 18 282 17 277 8.84e-58 189
MsaG043781 AT3G24140.2 45.540 213 103 2 83 282 162 374 1.61e-53 180
MsaG043781 AT3G24140.1 45.540 213 103 2 83 282 162 374 1.97e-53 180
MsaG043781 AT5G46690.2 43.878 294 125 8 11 282 1 276 3.19e-51 171
MsaG043781 AT4G01460.1 43.902 205 112 2 106 309 105 307 1.08e-47 162
MsaG043781 AT4G01460.2 43.902 205 112 2 106 309 105 307 1.08e-47 162
MsaG043781 AT5G65320.1 41.429 210 102 4 110 308 96 295 3.68e-43 150
MsaG043781 AT2G46810.2 43.655 197 99 4 107 302 112 297 2.57e-39 140
MsaG043781 AT3G61950.2 43.564 202 93 5 106 302 117 302 5.08e-39 140
MsaG043781 AT5G65320.2 42.077 183 86 3 110 282 96 268 5.81e-39 139
MsaG043781 AT2G46810.3 43.655 197 99 4 107 302 172 357 7.19e-39 140
MsaG043781 AT2G46810.1 43.216 199 99 4 107 303 184 370 1.07e-38 140
MsaG043781 AT3G61950.1 43.564 202 93 5 106 302 168 353 1.59e-38 140
MsaG043781 AT3G61950.6 45.238 168 72 4 106 269 117 268 2.14e-36 132
MsaG043781 AT3G61950.3 45.238 168 72 4 106 269 168 319 7.49e-36 132
MsaG043781 AT2G46810.4 44.944 178 84 4 107 282 112 277 4.90e-34 127
MsaG043781 AT3G06120.1 34.659 176 103 2 116 282 1 173 2.20e-30 114
MsaG043781 AT5G53210.2 62.338 77 28 1 107 183 94 169 3.21e-25 103
MsaG043781 AT5G53210.1 66.667 69 22 1 107 175 94 161 3.79e-25 103
MsaG043781 AT3G61950.4 67.442 43 14 0 105 147 167 209 1.71e-12 66.2
MsaG043781 AT3G61950.5 67.442 43 14 0 105 147 167 209 1.71e-12 66.2

Find 52 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTCAATTCTTCCAAGTAAA+TGG 0.199817 8:-51049971 None:intergenic
TACAAATGAGTCTAGTTTCT+TGG 0.228449 8:+51047940 MsaT043781.1:CDS
ACTCATTTGTAGTATGAATA+TGG 0.284036 8:-51047928 None:intergenic
TGAATATGGTTACTACTAAA+TGG 0.300073 8:-51047914 None:intergenic
TTGTCCTAGTGAGAATTCTA+AGG 0.334781 8:-51049236 None:intergenic
ACCCTTTGAACATAGGATTC+AGG 0.351099 8:-51048229 None:intergenic
ATGTGTATTTGTTAGGTGTT+TGG 0.351401 8:-51049155 None:intergenic
GTCTTGGATGTGTATTTGTT+AGG 0.355555 8:-51049162 None:intergenic
TTGTGATAATACAATGGCTT+TGG 0.360011 8:+51047826 MsaT043781.1:CDS
AGCTATGGCAGCTTTGGTCT+TGG 0.365189 8:-51049178 None:intergenic
TCTTTGTTCTTACAAACTCT+TGG 0.388402 8:-51048112 None:intergenic
TGTGTATTTGTTAGGTGTTT+GGG 0.389980 8:-51049154 None:intergenic
AAGTAGAAAGAGACAATCTA+TGG 0.398325 8:+51048030 MsaT043781.1:CDS
TAGCTCCTTCACAAACTCTA+TGG 0.424567 8:-51048998 None:intergenic
ACAGCAGTTCACCATTTACT+TGG 0.428976 8:+51049960 MsaT043781.1:CDS
GATATCAGCTATGGCAGCTT+TGG 0.431877 8:-51049184 None:intergenic
ACTAATTTAGTTAGTTGTCC+TGG 0.441622 8:-51049261 None:intergenic
TGTCACTACCATACAACCTT+TGG 0.451551 8:+51049326 MsaT043781.1:CDS
TTCTTCCTTTGCACCACTTG+AGG 0.453078 8:-51048076 None:intergenic
AAAACAAACCCTTTGAACAT+AGG 0.458862 8:-51048236 None:intergenic
AGGACAACTAACTAAATTAG+TGG 0.470600 8:+51049263 MsaT043781.1:CDS
GTAGAATACCAAAGGTTGTA+TGG 0.472728 8:-51049334 None:intergenic
GCCTGAATCCTATGTTCAAA+GGG 0.476318 8:+51048228 MsaT043781.1:CDS
AAGTGGTGCAAAGGAAGAAA+AGG 0.487447 8:+51048080 MsaT043781.1:CDS
TTGTGTATCCTCAATATACA+TGG 0.490488 8:+51049130 MsaT043781.1:CDS
CCATTTACTTGGAAGAATTG+AGG 0.491479 8:+51049971 MsaT043781.1:CDS
ATGTATATGAAGGTTGAAGA+AGG 0.503265 8:+51049906 MsaT043781.1:intron
GTTTGGGACCATGTATATTG+AGG 0.512489 8:-51049138 None:intergenic
GGTGACCAAGCCTCAATAGT+AGG 0.516200 8:+51048970 MsaT043781.1:CDS
CATTGATATGTAGGATGCTA+AGG 0.516296 8:-51049305 None:intergenic
TTCCAACTTGGTTCAGTAGA+CGG 0.525532 8:+51049930 MsaT043781.1:CDS
TGCCTGAATCCTATGTTCAA+AGG 0.527020 8:+51048227 MsaT043781.1:CDS
CAACTAACTAAATTAGTGGC+TGG 0.528440 8:+51049267 MsaT043781.1:CDS
GTTGAAGAAGGATTCCAACT+TGG 0.528504 8:+51049918 MsaT043781.1:CDS
CACCACCTACTATTGAGGCT+TGG 0.549608 8:-51048975 None:intergenic
TGGTAGTGACATTGATATGT+AGG 0.552077 8:-51049314 None:intergenic
TTCCGTCTACTGAACCAAGT+TGG 0.552934 8:-51049932 None:intergenic
AACAATGAATAATCCTCAAG+TGG 0.569610 8:+51048063 MsaT043781.1:CDS
TGTAACCTCGATATCAGCTA+TGG 0.576417 8:-51049193 None:intergenic
CAAACCTTAGAATTCTCACT+AGG 0.582899 8:+51049232 MsaT043781.1:CDS
ATAATCCTCAAGTGGTGCAA+AGG 0.583756 8:+51048071 MsaT043781.1:CDS
ACAACATCATCATGAGGCAG+AGG 0.602496 8:+51047991 MsaT043781.1:CDS
TATGGCACCACCTACTATTG+AGG 0.605310 8:-51048980 None:intergenic
AGATTCTTGTGATAATACAA+TGG 0.607001 8:+51047820 MsaT043781.1:CDS
ATTCTACTCTATCAGTGCCA+AGG 0.611555 8:+51049350 MsaT043781.1:CDS
ATTCTCACTAGGACAAGACC+AGG 0.613739 8:+51049243 MsaT043781.1:CDS
CTGATAGAGTAGAATACCAA+AGG 0.629072 8:-51049342 None:intergenic
AGCACAAAACAATGAAGACA+TGG 0.633394 8:+51049077 MsaT043781.1:CDS
AGCTGCCATAGCTGATATCG+AGG 0.641430 8:+51049188 MsaT043781.1:CDS
GACCAAGCCTCAATAGTAGG+TGG 0.661400 8:+51048973 MsaT043781.1:CDS
TGGTGCCATAGAGTTTGTGA+AGG 0.669387 8:+51048993 MsaT043781.1:CDS
TGAGCAACAACATCATCATG+AGG 0.682900 8:+51047985 MsaT043781.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 51047809 51050019 51047809 ID=MsaG043781
Chr8 mRNA 51047809 51050019 51047809 ID=MsaT043781.1;Parent=MsaG043781
Chr8 exon 51047809 51048249 51047809 ID=MsaT043781.1.exon1;Parent=MsaT043781.1
Chr8 CDS 51047809 51048249 51047809 ID=cds.MsaT043781.1;Parent=MsaT043781.1
Chr8 exon 51048970 51049371 51048970 ID=MsaT043781.1.exon2;Parent=MsaT043781.1
Chr8 CDS 51048970 51049371 51048970 ID=cds.MsaT043781.1;Parent=MsaT043781.1
Chr8 exon 51049918 51050019 51049918 ID=MsaT043781.1.exon3;Parent=MsaT043781.1
Chr8 CDS 51049918 51050019 51049918 ID=cds.MsaT043781.1;Parent=MsaT043781.1
Gene Sequence

>MsaT043781.1

ATGAAGATTGAAGATTCTTGTGATAATACAATGGCTTTGGAAACTCTTTCATCATCATGCAATGAGTTTTCAAACTTCATTATCTATGACACAATTTCTGCAACTCCATTTAGTAGTAACCATATTCATACTACAAATGAGTCTAGTTTCTTGGAAAATACAATGAACTATGATCATGAGCAACAACATCATCATGAGGCAGAGGCTGCAATATTTGATCAAAGTAGAAAGAGACAATCTATGGAACAAGAAGAAACAATGAATAATCCTCAAGTGGTGCAAAGGAAGAAAAGGAGAAGAAAACCAAGAGTTTGTAAGAACAAAGAAGAAGCTGAGACACAAAGAATCACACATATTACTGTTGAAAGAAACCGTAGAAAACAAATGAATGAACATCTTGCTGTACTTCGTTCACTCATGCCTGAATCCTATGTTCAAAGGGGTGACCAAGCCTCAATAGTAGGTGGTGCCATAGAGTTTGTGAAGGAGCTAGAGCATCTCTTACAATCACTTGAAGCTAGAAAGTTACAACTTGTACAACAAGAAGTAGCACAAAACAATGAAGACATGGCAATTTCAAAACCACCTTTTGCACAATTTTTTGTGTATCCTCAATATACATGGTCCCAAACACCTAACAAATACACATCCAAGACCAAAGCTGCCATAGCTGATATCGAGGTTACATTGATCGAGACTCATGCAAACCTTAGAATTCTCACTAGGACAAGACCAGGACAACTAACTAAATTAGTGGCTGGTTTTCAAACACTCTTCCTTAGCATCCTACATATCAATGTCACTACCATACAACCTTTGGTATTCTACTCTATCAGTGCCAAGGTTGAAGAAGGATTCCAACTTGGTTCAGTAGACGGAATTGCAACAGCAGTTCACCATTTACTTGGAAGAATTGAGGAAGAAGCTTCACTAATTTCTTGTTAA
Protein sequence

>MsaT043781.1

MKIEDSCDNTMALETLSSSCNEFSNFIIYDTISATPFSSNHIHTTNESSFLENTMNYDHEQQHHHEAEAAIFDQSRKRQSMEQEETMNNPQVVQRKKRRRKPRVCKNKEEAETQRITHITVERNRRKQMNEHLAVLRSLMPESYVQRGDQASIVGGAIEFVKELEHLLQSLEARKLQLVQQEVAQNNEDMAISKPPFAQFFVYPQYTWSQTPNKYTSKTKAAIADIEVTLIETHANLRILTRTRPGQLTKLVAGFQTLFLSILHINVTTIQPLVFYSISAKVEEGFQLGSVDGIATAVHHLLGRIEEEASLISC*