AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG013352

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG013352 MtrunA17_Chr4g0001831 75.500 200 49 0 1 200 174 373 1.03e-107 313
MsaG013352 MtrunA17_Chr2g0286191 39.683 189 110 3 8 195 172 357 6.41e-38 134
MsaG013352 MtrunA17_Chr2g0295761 37.500 192 117 2 4 194 197 386 3.44e-35 127
MsaG013352 MtrunA17_Chr2g0286221 40.741 162 92 3 39 199 13 171 3.71e-35 122
MsaG013352 MtrunA17_Chr4g0067121 33.862 189 123 1 7 195 192 378 3.35e-34 125
MsaG013352 MtrunA17_Chr2g0296301 33.854 192 127 0 3 194 172 363 4.46e-34 124
MsaG013352 MtrunA17_Chr2g0296131 37.662 154 96 0 42 195 7 160 5.94e-33 116
MsaG013352 MtrunA17_Chr2g0296171 32.308 195 130 1 6 200 206 398 6.79e-31 116
MsaG013352 MtrunA17_Chr2g0296291 32.979 188 124 1 8 195 211 396 9.20e-31 116
MsaG013352 MtrunA17_Chr2g0295731 32.979 188 124 1 8 195 190 375 9.57e-30 113
MsaG013352 MtrunA17_Chr4g0067141 33.854 192 125 1 8 199 185 374 1.11e-29 112
MsaG013352 MtrunA17_Chr2g0296151 34.158 202 118 3 3 197 177 370 2.17e-29 112
MsaG013352 MtrunA17_Chr2g0295741 32.804 189 125 1 7 195 188 374 2.96e-29 111
MsaG013352 MtrunA17_Chr2g0296161 33.553 152 101 0 44 195 5 156 3.69e-28 103
MsaG013352 MtrunA17_Chr2g0296121 32.632 190 126 2 8 197 269 456 4.51e-27 106
MsaG013352 MtrunA17_Chr2g0296711 30.159 189 130 1 6 194 197 383 9.49e-27 105
MsaG013352 MtrunA17_Chr2g0296231 31.217 189 126 2 6 194 193 377 1.79e-26 104
MsaG013352 MtrunA17_Chr2g0296191 32.124 193 129 1 6 198 808 998 2.14e-26 105
MsaG013352 MtrunA17_Chr2g0296191 29.534 193 134 1 3 195 318 508 8.74e-21 89.7
MsaG013352 MtrunA17_Chr4g0067671 31.792 173 116 1 8 180 185 355 3.52e-26 103
MsaG013352 MtrunA17_Chr2g0296251 31.579 190 128 1 6 195 209 396 4.40e-26 103
MsaG013352 MtrunA17_Chr2g0296111 34.104 173 112 2 6 177 180 351 1.65e-25 101
MsaG013352 MtrunA17_Chr2g0296551 31.492 181 122 1 15 195 4 182 6.84e-25 96.3
MsaG013352 MtrunA17_Chr2g0296221 30.526 190 130 1 6 195 225 412 8.40e-25 100
MsaG013352 MtrunA17_Chr2g0296211 30.348 201 126 3 9 195 156 356 8.47e-25 99.8
MsaG013352 MtrunA17_Chr2g0296741 29.101 189 132 2 6 194 214 400 1.19e-22 94.4
MsaG013352 MtrunA17_Chr2g0296721 29.787 188 130 1 7 194 194 379 1.32e-22 94.0
MsaG013352 MtrunA17_Chr2g0295721 38.983 118 72 0 41 158 2 119 1.40e-22 88.2
MsaG013352 MtrunA17_Chr2g0315731 29.787 188 130 1 7 194 215 400 3.51e-22 92.8
MsaG013352 MtrunA17_Chr8g0377781 29.744 195 137 0 6 200 183 377 1.79e-21 90.5
MsaG013352 MtrunA17_Chr2g0296701 32.026 153 104 0 43 195 2 154 2.42e-21 86.7
MsaG013352 MtrunA17_Chr8g0377801 27.083 192 140 0 6 197 196 387 3.13e-20 87.4
MsaG013352 MtrunA17_Chr2g0296751 32.283 127 86 0 69 195 1 127 3.25e-19 80.9
MsaG013352 MtrunA17_Chr2g0296181 28.042 189 107 4 7 195 196 355 1.43e-15 73.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG013352 AT5G07900.1 40.625 192 113 1 6 196 210 401 3.04e-52 172
MsaG013352 AT1G21150.3 36.735 196 120 3 2 194 156 350 2.63e-36 130
MsaG013352 AT1G21150.1 36.735 196 120 3 2 194 192 386 5.79e-36 130
MsaG013352 AT1G21150.2 36.735 196 120 3 2 194 256 450 1.43e-35 130
MsaG013352 AT1G62010.1 31.532 222 109 5 2 181 164 384 3.54e-25 101
MsaG013352 AT1G61970.2 32.407 216 107 5 2 180 186 399 2.87e-23 96.3
MsaG013352 AT1G61970.7 32.407 216 107 5 2 180 186 399 2.87e-23 96.3
MsaG013352 AT1G61970.6 32.407 216 107 5 2 180 186 399 2.87e-23 96.3
MsaG013352 AT1G61970.3 32.407 216 107 5 2 180 186 399 2.87e-23 96.3
MsaG013352 AT1G61970.5 32.407 216 107 5 2 180 186 399 2.87e-23 96.3
MsaG013352 AT1G61970.4 32.407 216 107 5 2 180 186 399 2.87e-23 96.3
MsaG013352 AT1G61970.1 32.407 216 107 5 2 180 186 399 2.87e-23 96.3
MsaG013352 AT1G61980.3 31.163 215 111 3 2 180 186 399 3.59e-22 93.2
MsaG013352 AT1G61980.2 31.163 215 111 3 2 180 186 399 3.59e-22 93.2
MsaG013352 AT1G61980.1 31.163 215 111 3 2 180 186 399 3.59e-22 93.2
MsaG013352 AT1G62120.1 32.243 214 106 5 4 180 194 405 2.31e-20 88.2
MsaG013352 AT1G61990.2 27.193 228 125 4 3 191 180 405 2.65e-19 85.1
MsaG013352 AT1G61990.1 27.193 228 125 4 3 191 180 405 2.65e-19 85.1
MsaG013352 AT5G23930.1 28.244 262 115 5 8 198 190 449 1.42e-18 83.2
MsaG013352 AT1G62150.1 27.203 261 114 8 4 191 196 453 4.31e-16 76.3
MsaG013352 AT3G46950.1 35.862 145 85 4 3 142 183 324 5.36e-16 75.9
MsaG013352 AT3G46950.1 26.984 189 134 3 9 194 257 444 1.12e-11 63.2
MsaG013352 AT1G62085.1 28.718 195 133 4 7 196 264 457 2.44e-14 71.2
MsaG013352 AT1G62085.1 34.921 126 78 3 4 128 193 315 6.24e-12 63.9
MsaG013352 AT1G62085.2 28.718 195 133 4 7 196 264 457 2.44e-14 71.2
MsaG013352 AT1G62085.2 34.921 126 78 3 4 128 193 315 6.24e-12 63.9
MsaG013352 AT1G61960.1 31.452 124 82 1 78 198 332 455 4.53e-14 70.5
MsaG013352 AT1G61960.1 39.286 112 65 2 6 116 191 300 1.66e-13 68.6
MsaG013352 AT1G62110.1 32.414 145 90 4 3 142 189 330 4.36e-13 67.4
MsaG013352 AT1G62110.1 28.276 145 97 3 42 180 296 439 1.55e-11 62.8
MsaG013352 AT5G64950.1 25.907 193 138 2 8 195 184 376 7.97e-12 63.5

Find 38 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATAAGTACCTTTATTATTA+TGG 0.157841 3:-49946123 MsaT013352.1:CDS
GAAAGATTTACCATTGTTAT+TGG 0.167427 3:-49946060 MsaT013352.1:CDS
TATGAAAACAATGAACTTCT+TGG 0.276128 3:-49946285 MsaT013352.1:CDS
GAACGCTACATTGGGAAAAT+TGG 0.307287 3:+49946532 None:intergenic
ATGGTAAATCTTTCTGAAAT+GGG 0.308277 3:+49946069 None:intergenic
AATGGTAAATCTTTCTGAAA+TGG 0.311445 3:+49946068 None:intergenic
GTCGAGAGATATGTGTCTTT+TGG 0.315308 3:-49946354 MsaT013352.1:CDS
TTTCTCAGCCATAATAATAA+AGG 0.344392 3:+49946115 None:intergenic
CAAAGATGGACAAAGAGAAT+TGG 0.346933 3:-49946412 MsaT013352.1:CDS
TTGTTATTGGATGCATATAA+AGG 0.358352 3:-49946047 MsaT013352.1:CDS
ATCTTAATAACTGCACATCT+AGG 0.371337 3:+49946182 None:intergenic
GTTAATTCAGTCAAGGAAAT+GGG 0.373577 3:-49946482 MsaT013352.1:CDS
TCTGAAATCATCATACAATT+CGG 0.401154 3:+49946317 None:intergenic
TCAATGTTCCATTTCTCTAC+TGG 0.408911 3:-49946558 MsaT013352.1:CDS
TGTTAATTCAGTCAAGGAAA+TGG 0.429636 3:-49946483 MsaT013352.1:CDS
ATTGGATACCAGTAGAGAAA+TGG 0.437001 3:+49946550 None:intergenic
TGCTTGGCGAACGCTACATT+GGG 0.443987 3:+49946524 None:intergenic
TGCTATTCTGATCCGTAGCT+TGG 0.455085 3:-49946219 MsaT013352.1:CDS
AAAGATGGACAAAGAGAATT+GGG 0.462885 3:-49946411 MsaT013352.1:CDS
CTCAACAAATCTAGAATGCT+TGG 0.472071 3:+49946508 None:intergenic
ATGCTTGGCGAACGCTACAT+TGG 0.474402 3:+49946523 None:intergenic
AAGCTACGGATCAGAATAGC+AGG 0.501991 3:+49946221 None:intergenic
TCTTAATAACTGCACATCTA+GGG 0.530762 3:+49946183 None:intergenic
CTTACACCACAAGACATTGT+AGG 0.539834 3:-49946248 MsaT013352.1:CDS
TCATTCTGTTGCAAACATTG+AGG 0.540275 3:-49946603 MsaT013352.1:CDS
CAAGCATTCTAGATTTGTTG+AGG 0.550123 3:-49946507 MsaT013352.1:CDS
TAAGTATCTTCTCCAAGCTA+CGG 0.568984 3:+49946207 None:intergenic
ACTTCAAGTAATCGCAAAGA+TGG 0.569887 3:-49946426 MsaT013352.1:CDS
TGAGGCTGTTAATTCAGTCA+AGG 0.573328 3:-49946489 MsaT013352.1:CDS
TGGTAAATCTTTCTGAAATG+GGG 0.580242 3:+49946070 None:intergenic
TTAATTCAGTCAAGGAAATG+GGG 0.604956 3:-49946481 MsaT013352.1:CDS
AACTTCTTGGTGAACGATGT+GGG 0.606341 3:-49946272 MsaT013352.1:CDS
AAAACAAAATAAGACATCAA+AGG 0.606684 3:+49946452 None:intergenic
GAACTTCTTGGTGAACGATG+TGG 0.641423 3:-49946273 MsaT013352.1:CDS
GGGCATCCTACAATGTCTTG+TGG 0.642181 3:+49946242 None:intergenic
TTATATGCATCCAATAACAA+TGG 0.650321 3:+49946050 None:intergenic
AGTAGAGAAATGGAACATTG+AGG 0.673786 3:+49946560 None:intergenic
AGCTACGGATCAGAATAGCA+GGG 0.695511 3:+49946222 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 49946031 49946633 49946031 ID=MsaG013352
Chr3 mRNA 49946031 49946633 49946031 ID=MsaT013352.1;Parent=MsaG013352
Chr3 exon 49946031 49946633 49946031 ID=MsaT013352.1.exon1;Parent=MsaT013352.1
Chr3 CDS 49946031 49946633 49946031 ID=cds.MsaT013352.1;Parent=MsaT013352.1
Gene Sequence

>MsaT013352.1

ATGGTTAATCATTCTGTTGCAAACATTGAGGTTTTGAGAAAACTTGGTGTGCCTCAATGTTCCATTTCTCTACTGGTATCCAATTTTCCCAATGTAGCGTTCGCCAAGCATTCTAGATTTGTTGAGGCTGTTAATTCAGTCAAGGAAATGGGGTTTGATCCTTTGATGTCTTATTTTGTTTTGGCACTTCAAGTAATCGCAAAGATGGACAAAGAGAATTGGGAATCAAAAATCAAGATTTTTGAGAGGTGGGGTTGGTCGAGAGATATGTGTCTTTTGGCTTTCCAAAAACAGCCGAATTGTATGATGATTTCAGAAAAAAAGATTATGAAAACAATGAACTTCTTGGTGAACGATGTGGGTCTTACACCACAAGACATTGTAGGATGCCCTGCTATTCTGATCCGTAGCTTGGAGAAGATACTTATCCCTAGATGTGCAGTTATTAAGATTTTGAAGTCAAGGGGTTTGATAAAGAGTAGTTTGCGCATAAGTACCTTTATTATTATGGCTGAGAAAACATTTTTGGAGCGATATGTAACCCCATTTCAGAAAGATTTACCATTGTTATTGGATGCATATAAAGGTCAGAATTCAGATTGA
Protein sequence

>MsaT013352.1

MVNHSVANIEVLRKLGVPQCSISLLVSNFPNVAFAKHSRFVEAVNSVKEMGFDPLMSYFVLALQVIAKMDKENWESKIKIFERWGWSRDMCLLAFQKQPNCMMISEKKIMKTMNFLVNDVGLTPQDIVGCPAILIRSLEKILIPRCAVIKILKSRGLIKSSLRISTFIIMAEKTFLERYVTPFQKDLPLLLDAYKGQNSD*