AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG007827


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG007827 MtrunA17_Chr2g0296251 70.915 306 85 2 1 304 1 304 1.25e-146 419
MsaG007827 MtrunA17_Chr2g0296291 69.000 300 89 2 1 297 1 299 2.03e-144 414
MsaG007827 MtrunA17_Chr2g0296711 60.674 267 68 2 30 294 53 284 1.02e-103 310
MsaG007827 MtrunA17_Chr2g0296231 58.065 279 72 4 21 294 42 280 2.23e-98 296
MsaG007827 MtrunA17_Chr2g0296181 58.273 278 78 3 22 297 43 284 6.09e-98 295
MsaG007827 MtrunA17_Chr2g0296221 55.749 287 84 4 21 299 66 317 7.26e-98 296
MsaG007827 MtrunA17_Chr2g0296191 55.749 287 84 4 21 299 649 900 2.21e-92 296
MsaG007827 MtrunA17_Chr2g0296191 52.364 275 93 2 25 299 177 413 5.23e-82 268
MsaG007827 MtrunA17_Chr2g0296171 54.545 286 83 4 21 294 43 293 7.81e-92 280
MsaG007827 MtrunA17_Chr2g0315731 54.412 272 87 2 25 294 65 301 1.20e-87 269
MsaG007827 MtrunA17_Chr2g0296721 54.074 270 86 3 27 294 47 280 8.25e-86 264
MsaG007827 MtrunA17_Chr2g0296301 48.161 299 109 6 1 291 1 261 2.13e-84 260
MsaG007827 MtrunA17_Chr2g0296741 50.741 270 96 4 27 294 67 301 7.80e-79 246
MsaG007827 MtrunA17_Chr2g0296151 42.086 278 121 3 19 294 29 268 6.86e-71 225
MsaG007827 MtrunA17_Chr2g0296561 71.429 154 34 2 1 146 1 152 5.56e-70 214
MsaG007827 MtrunA17_Chr2g0296121 41.667 288 126 4 19 304 115 362 3.16e-68 220
MsaG007827 MtrunA17_Chr4g0067121 41.328 271 120 3 25 294 46 278 6.40e-68 218
MsaG007827 MtrunA17_Chr2g0296111 43.011 279 117 4 20 294 29 269 8.27e-67 214
MsaG007827 MtrunA17_Chr2g0295731 40.942 276 121 5 22 294 39 275 4.92e-65 209
MsaG007827 MtrunA17_Chr2g0295741 40.625 288 131 3 9 294 25 274 3.88e-64 207
MsaG007827 MtrunA17_Chr4g0067671 39.716 282 130 3 24 305 38 279 4.90e-59 193
MsaG007827 MtrunA17_Chr2g0295761 40.809 272 122 5 24 294 54 287 2.60e-55 185
MsaG007827 MtrunA17_Chr4g0067141 39.163 263 122 2 32 294 46 270 2.79e-52 176
MsaG007827 MtrunA17_Chr2g0286191 37.729 273 119 6 29 294 30 258 3.45e-49 168
MsaG007827 MtrunA17_Chr2g0296551 79.268 82 17 0 213 294 1 82 1.16e-39 138
MsaG007827 MtrunA17_Chr2g0295711 41.618 173 64 3 21 191 37 174 7.22e-36 129
MsaG007827 MtrunA17_Chr4g0001831 30.877 285 154 7 32 312 39 284 1.19e-33 127
MsaG007827 MtrunA17_Chr2g0295751 40.000 175 68 2 19 191 36 175 1.92e-31 123
MsaG007827 MtrunA17_Chr2g0296211 60.714 84 31 1 226 309 188 269 4.00e-24 101
MsaG007827 MtrunA17_Chr2g0296701 75.472 53 13 0 242 294 2 54 9.75e-20 85.1
MsaG007827 MtrunA17_Chr2g0296701 84.211 38 6 0 293 330 139 176 1.71e-13 67.8
MsaG007827 MtrunA17_Chr8g0377781 26.953 256 145 5 61 314 74 289 1.28e-16 80.1
MsaG007827 MtrunA17_Chr8g0377801 25.581 258 150 5 59 314 85 302 6.79e-16 77.8
MsaG007827 MtrunA17_Chr2g0295721 58.929 56 23 0 239 294 1 56 3.99e-15 70.9
MsaG007827 MtrunA17_Chr2g0296161 49.180 61 31 0 239 299 1 61 3.90e-13 66.6
MsaG007827 MtrunA17_Chr2g0296131 54.386 57 26 0 238 294 4 60 2.39e-12 64.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG007827 AT5G07900.1 26.821 302 170 6 23 311 51 314 7.52e-34 129
MsaG007827 AT1G21150.1 30.153 262 146 2 32 291 57 283 2.83e-30 119
MsaG007827 AT1G21150.3 29.811 265 149 2 29 291 18 247 5.63e-30 117
MsaG007827 AT1G21150.2 30.153 262 146 2 32 291 121 347 6.61e-30 119
MsaG007827 AT3G46950.1 28.402 338 182 11 6 329 26 317 4.25e-26 108
MsaG007827 AT1G62120.1 27.820 266 155 3 30 294 55 284 7.93e-24 101
MsaG007827 AT1G61960.1 28.302 265 150 4 32 294 53 279 2.19e-23 100
MsaG007827 AT1G62110.1 25.965 285 163 5 32 311 53 294 1.09e-22 98.6
MsaG007827 AT1G61990.2 27.055 292 163 4 8 294 25 271 2.10e-22 97.4
MsaG007827 AT1G61990.1 27.055 292 163 4 8 294 25 271 2.10e-22 97.4
MsaG007827 AT1G62150.1 26.136 264 158 3 32 294 59 286 2.19e-22 97.8
MsaG007827 AT1G62085.1 27.273 264 155 4 32 294 56 283 2.62e-22 97.4
MsaG007827 AT1G62085.2 27.273 264 155 4 32 294 56 283 2.62e-22 97.4
MsaG007827 AT1G61980.3 27.820 266 149 5 32 294 53 278 5.29e-22 96.3
MsaG007827 AT1G61980.2 27.820 266 149 5 32 294 53 278 5.29e-22 96.3
MsaG007827 AT1G61980.1 27.820 266 149 5 32 294 53 278 5.29e-22 96.3
MsaG007827 AT1G61970.2 27.817 284 157 9 32 311 53 292 2.29e-20 91.7
MsaG007827 AT1G61970.7 27.817 284 157 9 32 311 53 292 2.29e-20 91.7
MsaG007827 AT1G61970.6 27.817 284 157 9 32 311 53 292 2.29e-20 91.7
MsaG007827 AT1G61970.3 27.817 284 157 9 32 311 53 292 2.29e-20 91.7
MsaG007827 AT1G61970.5 27.817 284 157 9 32 311 53 292 2.29e-20 91.7
MsaG007827 AT1G61970.4 27.817 284 157 9 32 311 53 292 2.29e-20 91.7
MsaG007827 AT1G61970.1 27.817 284 157 9 32 311 53 292 2.29e-20 91.7
MsaG007827 AT5G23930.1 26.791 321 163 9 32 326 56 330 1.12e-16 80.9
MsaG007827 AT5G64950.1 21.695 295 189 4 24 314 32 288 8.71e-13 68.9
MsaG007827 AT1G62010.1 25.000 256 146 4 64 318 71 281 2.86e-11 64.7

Find 57 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CACTCAAGGCCATCTATATT+TGG 0.148576 2:+23337188 MsaT007827.1:CDS
ATCAGTTTGATGACTGATTT+TGG 0.150667 2:+23337134 MsaT007827.1:CDS
GATCCGTCATTGACTACTTT+TGG 0.212291 2:+23337260 MsaT007827.1:CDS
TGGAGGAAGTAAAGAGTTTA+GGG 0.240494 2:+23337234 MsaT007827.1:CDS
GACATTGTCCGCATGGTTAA+AGG 0.256602 2:+23336849 MsaT007827.1:CDS
TTTATCTGTCGTAATGCTTT+TGG 0.259818 2:+23336519 MsaT007827.1:CDS
TTGGAGGAAGTAAAGAGTTT+AGG 0.267899 2:+23337233 MsaT007827.1:CDS
GAAGCTTTGCGTGCGGATTC+AGG 0.269165 2:-23336639 None:intergenic
AAACCGTTATTCGAGTATTT+AGG 0.278181 2:+23337369 MsaT007827.1:CDS
AACTGATTTGATTAAATCAT+TGG 0.289242 2:+23337214 MsaT007827.1:CDS
ATTTGATGTCTTTAAGAAAT+GGG 0.334222 2:+23337334 MsaT007827.1:CDS
GAAGAAGTTGATAACTGATT+CGG 0.343473 2:-23336694 None:intergenic
TCCTACCTCGTCGACAAATT+CGG 0.356172 2:+23336609 MsaT007827.1:CDS
AATTTGATGTCTTTAAGAAA+TGG 0.359065 2:+23337333 MsaT007827.1:CDS
AAGCTAATGTGTAAAATTCC+AGG 0.363279 2:-23336981 None:intergenic
GTCAGATTCAGAAGCACCTT+TGG 0.364937 2:-23336829 None:intergenic
AGATCAAAATCTTATACATT+TGG 0.374741 2:-23337738 None:intergenic
AAGAAGTTGATAACTGATTC+GGG 0.391290 2:-23336693 None:intergenic
ATCAGAAGAAGAAGCACCTT+TGG 0.395286 2:-23336934 None:intergenic
TCAGTTGAACCAAATATAGA+TGG 0.441181 2:-23337197 None:intergenic
TCAAAATCTTATACATTTGG+TGG 0.453156 2:-23337735 None:intergenic
ACATACGCAATATCATCAAA+AGG 0.472800 2:+23336742 MsaT007827.1:CDS
CAAATACAACGGAGAACAAT+GGG 0.473276 2:+23337705 MsaT007827.1:CDS
AATATCATCAAAAGGGTACC+AGG 0.494005 2:+23336750 MsaT007827.1:CDS
TACTCGAATAACGGTTTCAT+CGG 0.500961 2:-23337363 None:intergenic
TTTGATGTCTTTAAGAAATG+GGG 0.510130 2:+23337335 MsaT007827.1:CDS
AGCTTAATTGCAAGAACTGA+GGG 0.512098 2:-23336875 None:intergenic
ATACCTAAATACTCGAATAA+CGG 0.521907 2:-23337372 None:intergenic
AGCTAATGTGTAAAATTCCA+GGG 0.541017 2:-23336980 None:intergenic
TTATCTGTTGAAGCTATATG+AGG 0.544556 2:+23337667 MsaT007827.1:CDS
GTGAAGTGGTAGTAGTGGTA+AGG 0.547397 2:-23336572 None:intergenic
CATACGCAATATCATCAAAA+GGG 0.549145 2:+23336743 MsaT007827.1:CDS
AACTGATATTAGCCACCGTA+AGG 0.557576 2:-23337118 None:intergenic
TCGCTAATTTGCTTCACTCA+AGG 0.562969 2:+23337174 MsaT007827.1:CDS
TTTCAGCTTTAAGGAGGAGT+CGG 0.563069 2:+23337643 MsaT007827.1:intron
TGATTTGATTAAATCATTGG+AGG 0.568194 2:+23337217 MsaT007827.1:CDS
CTCTTTGGAAGCTTTGCGTG+CGG 0.569628 2:-23336646 None:intergenic
GCAAATACAACGGAGAACAA+TGG 0.572984 2:+23337704 MsaT007827.1:CDS
TGAATCTGACATTGTCCGCA+TGG 0.573592 2:+23336842 MsaT007827.1:CDS
GCTGCTTTGAAAGCCAAGAA+AGG 0.575078 2:+23337284 MsaT007827.1:CDS
TAATCGTCAGCGCCTTACGG+TGG 0.584026 2:+23337106 MsaT007827.1:CDS
GTATTGCAGGAAAGAATCCC+TGG 0.593025 2:-23336768 None:intergenic
CGAGGTAGGACACAGCGAAA+GGG 0.593390 2:-23336596 None:intergenic
TCCGAATTTGTCGACGAGGT+AGG 0.594044 2:-23336610 None:intergenic
AAGCTTAATTGCAAGAACTG+AGG 0.598624 2:-23336876 None:intergenic
ACGAGGTAGGACACAGCGAA+AGG 0.604629 2:-23336597 None:intergenic
ATGTCTTTAAGAAATGGGGT+TGG 0.618819 2:+23337339 MsaT007827.1:CDS
AGGGTGTGAAGTGGTAGTAG+TGG 0.620465 2:-23336577 None:intergenic
GCCCCAAAAGTAGTCAATGA+CGG 0.622060 2:-23337263 None:intergenic
TCATTGTTAACTGCAAACCC+TGG 0.624716 2:+23336963 MsaT007827.1:CDS
CACAGCGAAAGGGTGTGAAG+TGG 0.647943 2:-23336586 None:intergenic
ATGTCGAATTAAGCAAACAA+TGG 0.648992 2:-23337066 None:intergenic
AATGAAACTTGCAAATACAA+CGG 0.655557 2:+23337694 MsaT007827.1:CDS
AAGGTTCTTTAAAACTGACA+AGG 0.658226 2:+23337040 MsaT007827.1:CDS
ATATCATCAAAAGGGTACCA+GGG 0.689286 2:+23336751 MsaT007827.1:CDS
AGTATCCGAATTTGTCGACG+AGG 0.717242 2:-23336614 None:intergenic
GAGGGTTACCTTTAACCATG+CGG 0.736609 2:-23336857 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 23336507 23337757 23336507 ID=MsaG007827
Chr2 mRNA 23336507 23337757 23336507 ID=MsaT007827.1;Parent=MsaG007827
Chr2 exon 23336507 23337390 23336507 ID=MsaT007827.1.exon1;Parent=MsaT007827.1
Chr2 CDS 23336507 23337390 23336507 ID=cds.MsaT007827.1;Parent=MsaT007827.1
Chr2 exon 23337649 23337757 23337649 ID=MsaT007827.1.exon2;Parent=MsaT007827.1
Chr2 CDS 23337649 23337757 23337649 ID=cds.MsaT007827.1;Parent=MsaT007827.1
Gene Sequence

>MsaT007827.1

ATGTTGAAAGCATTTATCTGTCGTAATGCTTTTGGCATATCAAATTACTCACAAACACTCAGATTCCTTACCACTACTACCACTTCACACCCTTTCGCTGTGTCCTACCTCGTCGACAAATTCGGATACTCACCTGAATCCGCACGCAAAGCTTCCAAAGAGCTTTATTTCAAAACCTCACAAAAACCCGAATCAGTTATCAACTTCTTCAAAAATCATGGTTTCAATGACTCAGACATACGCAATATCATCAAAAGGGTACCAGGGATTCTTTCCTGCAATACCCACAAAACGATTCTCCCAAAGTTTCAATTTTTACTCTCCAAAGGTGCTTCTGAATCTGACATTGTCCGCATGGTTAAAGGTAACCCTCAGTTCTTGCAATTAAGCTTGAAGACTCATGAAATTAAGTTTCAATATTTTCTATCCAAAGGTGCTTCTTCTTCTGATATTGTTTCATTGTTAACTGCAAACCCTGGAATTTTACACATTAGCTTGGAGAAACGAATAATCCCTCTTTTTGAATTGTTAAGAAGGTTCTTTAAAACTGACAAGGATACCATTGTTTGCTTAATTCGACATTCAACTACATTTACTTTTAATCGTCAGCGCCTTACGGTGGCTAATATCAGTTTGATGACTGATTTTGGAGTTTCTGATTCTGTCATCGCTAATTTGCTTCACTCAAGGCCATCTATATTTGGTTCAACTGATTTGATTAAATCATTGGAGGAAGTAAAGAGTTTAGGGTTTGATCCGTCATTGACTACTTTTGGGGCTGCTTTGAAAGCCAAGAAAGGTATTAGTAAAAAACTTTGGGATGAGAAATTTGATGTCTTTAAGAAATGGGGTTGGTCCGATGAAACCGTTATTCGAGTATTTAGCTTTAAGGAGGAGTCGGATTATCTGTTGAAGCTATATGAGGAAAAAATGAAACTTGCAAATACAACGGAGAACAATGGGATGTCATCCACCAAATGTATAAGATTTTGA

Protein sequence

>MsaT007827.1

MLKAFICRNAFGISNYSQTLRFLTTTTTSHPFAVSYLVDKFGYSPESARKASKELYFKTSQKPESVINFFKNHGFNDSDIRNIIKRVPGILSCNTHKTILPKFQFLLSKGASESDIVRMVKGNPQFLQLSLKTHEIKFQYFLSKGASSSDIVSLLTANPGILHISLEKRIIPLFELLRRFFKTDKDTIVCLIRHSTTFTFNRQRLTVANISLMTDFGVSDSVIANLLHSRPSIFGSTDLIKSLEEVKSLGFDPSLTTFGAALKAKKGISKKLWDEKFDVFKKWGWSDETVIRVFSFKEESDYLLKLYEEKMKLANTTENNGMSSTKCIRF*