AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG009614

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009614 MtrunA17_Chr2g0315361 92.834 307 19 3 1 305 1 306 0.0 538
MsaG009614 MtrunA17_Chr2g0315371 76.206 311 57 4 1 305 1 300 1.11e-162 454
MsaG009614 MtrunA17_Chr2g0315381 74.426 305 72 5 1 305 1 299 8.20e-149 420
MsaG009614 MtrunA17_Chr7g0244981 37.109 256 128 5 12 267 10 232 1.00e-47 161
MsaG009614 MtrunA17_Chr7g0244971 38.559 236 116 5 12 245 11 219 1.52e-47 161
MsaG009614 MtrunA17_Chr8g0350621 38.589 241 108 9 10 245 3 208 2.25e-41 144
MsaG009614 MtrunA17_Chr8g0334541 38.627 233 94 6 19 245 8 197 6.65e-41 143
MsaG009614 MtrunA17_Chr3g0128671 39.286 168 88 4 54 214 32 192 1.34e-28 111
MsaG009614 MtrunA17_Chr5g0428351 40.678 118 67 2 132 249 167 281 9.08e-24 99.0
MsaG009614 MtrunA17_Chr2g0315401 41.732 127 67 3 178 304 20 139 2.97e-21 87.8
MsaG009614 MtrunA17_Chr7g0275531 45.361 97 44 2 132 219 92 188 4.15e-20 89.0
MsaG009614 MtrunA17_Chr8g0387981 28.708 209 116 6 10 208 6 191 1.69e-19 87.4
MsaG009614 MtrunA17_Chr3g0126391 29.954 217 101 8 14 208 5 192 2.88e-18 84.0
MsaG009614 MtrunA17_Chr8g0347251 43.158 95 45 2 125 211 105 198 8.32e-18 82.8
MsaG009614 MtrunA17_Chr2g0315341 39.837 123 66 4 185 304 1 118 1.37e-17 77.4
MsaG009614 MtrunA17_Chr8g0350631 51.282 78 33 2 170 245 5 79 1.83e-17 77.8
MsaG009614 MtrunA17_Chr7g0224801 50.649 77 34 2 147 223 91 163 3.84e-16 74.7
MsaG009614 MtrunA17_Chr2g0315351 43.103 116 51 6 8 121 6 108 4.09e-15 70.5
MsaG009614 MtrunA17_Chr7g0248721 40.000 105 51 5 105 206 99 194 6.60e-15 72.4
MsaG009614 MtrunA17_Chr2g0315391 42.241 116 52 6 8 121 6 108 1.12e-14 69.3
MsaG009614 MtrunA17_Chr7g0270191 39.773 88 50 1 120 207 116 200 1.22e-14 72.8
MsaG009614 MtrunA17_Chr8g0383351 44.048 84 38 3 147 229 158 233 1.53e-14 71.6
MsaG009614 MtrunA17_Chr1g0194481 40.909 88 49 1 120 207 129 213 2.79e-14 72.4
MsaG009614 MtrunA17_Chr3g0129361 49.180 61 28 1 147 207 142 199 3.64e-14 70.5
MsaG009614 MtrunA17_Chr8g0335811 40.000 90 48 2 120 206 122 208 3.98e-14 70.5
MsaG009614 MtrunA17_Chr5g0431811 35.537 121 63 3 107 222 631 741 1.89e-13 70.9
MsaG009614 MtrunA17_Chr4g0068541 50.847 59 26 1 148 206 207 262 2.47e-13 70.1
MsaG009614 MtrunA17_Chr5g0443131 52.542 59 25 1 148 206 156 211 2.80e-13 69.3
MsaG009614 MtrunA17_Chr5g0418781 39.326 89 48 2 148 233 123 208 2.87e-13 68.9
MsaG009614 MtrunA17_Chr7g0263531 48.387 62 29 1 145 206 357 415 6.03e-13 68.9
MsaG009614 MtrunA17_Chr2g0294231 47.887 71 34 1 148 218 202 269 6.27e-13 68.6
MsaG009614 MtrunA17_Chr5g0418191 50.000 60 27 1 147 206 318 374 8.70e-13 68.6
MsaG009614 MtrunA17_Chr4g0051881 50.847 59 26 1 148 206 177 232 1.12e-12 67.8
MsaG009614 MtrunA17_Chr8g0386241 32.394 142 81 5 73 206 23 157 1.23e-12 65.5
MsaG009614 MtrunA17_Chr7g0218081 48.333 60 28 1 147 206 408 464 1.32e-12 68.2
MsaG009614 MtrunA17_Chr7g0218081 45.902 61 29 2 146 206 225 281 3.70e-11 63.5
MsaG009614 MtrunA17_Chr4g0042831 48.333 60 28 1 147 206 276 332 2.07e-12 67.0
MsaG009614 MtrunA17_Chr1g0147881 34.286 105 62 4 104 206 218 317 3.17e-12 66.2
MsaG009614 MtrunA17_Chr4g0071521 37.349 83 50 1 124 206 220 300 5.02e-12 65.5
MsaG009614 MtrunA17_Chr8g0348311 37.634 93 51 2 121 213 132 217 7.75e-12 65.1
MsaG009614 MtrunA17_Chr3g0101131 46.667 60 29 1 147 206 413 469 9.32e-12 65.5
MsaG009614 MtrunA17_Chr5g0445311 46.667 60 29 1 147 206 362 418 1.00e-11 65.5
MsaG009614 MtrunA17_Chr1g0150801 43.939 66 34 1 142 207 95 157 2.93e-11 60.8
MsaG009614 MtrunA17_Chr7g0238921 51.667 60 26 1 147 206 122 178 3.31e-11 63.2
MsaG009614 MtrunA17_Chr5g0432161 48.333 60 28 1 147 206 419 475 3.55e-11 63.9
MsaG009614 MtrunA17_Chr3g0079691 31.884 138 80 4 147 277 493 623 5.85e-11 63.2
MsaG009614 MtrunA17_Chr1g0184691 38.667 75 44 1 132 206 276 348 6.10e-11 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009614 AT3G56400.1 32.020 203 113 4 7 208 1 179 8.50e-25 101
MsaG009614 AT5G22570.1 37.107 159 79 4 64 222 42 179 1.23e-24 100
MsaG009614 AT5G01900.1 32.487 197 101 4 13 209 6 170 2.45e-23 97.1
MsaG009614 AT1G66560.1 60.294 68 26 1 149 215 103 170 3.02e-22 93.6
MsaG009614 AT1G66600.1 42.857 112 48 3 148 243 102 213 1.09e-21 92.0
MsaG009614 AT1G66550.2 55.882 68 29 1 149 215 103 170 1.53e-20 89.0
MsaG009614 AT1G66550.1 55.882 68 29 1 149 215 108 175 1.99e-20 89.0
MsaG009614 AT4G11070.1 26.923 208 131 3 10 208 5 200 4.01e-20 89.0
MsaG009614 AT2G46400.1 30.612 196 99 6 13 208 5 163 2.60e-19 86.7
MsaG009614 AT1G80590.1 41.379 87 51 0 128 214 64 150 3.74e-19 85.1
MsaG009614 AT2G40750.1 31.068 206 130 6 13 210 12 213 1.11e-18 85.5
MsaG009614 AT4G11070.2 29.648 199 105 4 10 208 5 168 3.06e-18 83.2
MsaG009614 AT4G23810.1 28.856 201 111 5 89 260 91 288 9.60e-18 82.4
MsaG009614 AT5G24110.1 33.987 153 73 3 63 208 41 172 6.37e-17 80.1
MsaG009614 AT2G40740.1 52.381 63 30 0 149 211 173 235 1.30e-16 79.0
MsaG009614 AT2G40740.3 52.381 63 30 0 149 211 182 244 1.81e-16 78.6
MsaG009614 AT2G46130.1 53.030 66 26 2 142 206 23 84 8.51e-15 69.7
MsaG009614 AT4G39410.1 42.553 94 48 3 125 215 196 286 2.32e-14 72.8
MsaG009614 AT4G18170.1 41.379 87 48 1 120 206 143 226 3.16e-14 72.4
MsaG009614 AT5G49520.1 53.333 60 25 1 148 207 220 276 3.32e-14 72.8
MsaG009614 AT2G44745.1 43.902 82 40 2 128 206 121 199 6.88e-14 70.1
MsaG009614 AT1G64000.1 51.667 60 26 1 147 206 112 168 7.27e-14 69.3
MsaG009614 AT5G41570.1 38.636 88 48 2 122 206 68 152 1.41e-13 68.2
MsaG009614 AT2G37260.1 50.847 59 26 1 148 206 348 403 1.59e-13 70.9
MsaG009614 AT2G37260.2 50.847 59 26 1 148 206 266 321 1.90e-13 70.5
MsaG009614 AT2G37260.3 50.847 59 26 1 148 206 268 323 1.96e-13 70.5
MsaG009614 AT1G29860.1 41.000 100 54 2 109 206 94 190 2.95e-13 69.3
MsaG009614 AT2G47260.1 39.773 88 50 1 120 207 145 229 3.04e-13 69.7
MsaG009614 AT1G69310.4 49.153 59 27 1 148 206 146 201 4.49e-13 68.6
MsaG009614 AT1G69310.2 49.153 59 27 1 148 206 146 201 4.49e-13 68.6
MsaG009614 AT1G69310.1 49.153 59 27 1 148 206 146 201 4.49e-13 68.6
MsaG009614 AT1G13960.1 50.000 60 27 1 147 206 407 463 6.06e-13 69.3
MsaG009614 AT2G03340.1 50.000 60 27 1 147 206 413 469 1.27e-12 68.6
MsaG009614 AT1G13960.2 50.000 60 27 1 147 206 254 310 1.34e-12 67.8
MsaG009614 AT5G46350.1 47.692 65 31 1 142 206 176 237 1.76e-12 67.4
MsaG009614 AT5G13080.1 49.180 61 28 1 147 207 65 122 2.31e-12 63.9
MsaG009614 AT2G04880.2 45.902 61 29 2 146 206 108 164 4.52e-12 66.6
MsaG009614 AT2G04880.2 46.667 60 29 1 147 206 281 337 2.67e-11 64.3
MsaG009614 AT2G23320.1 34.188 117 71 2 94 206 181 295 5.13e-12 65.9
MsaG009614 AT2G04880.1 45.902 61 29 2 146 206 108 164 5.28e-12 66.6
MsaG009614 AT2G04880.1 46.667 60 29 1 147 206 305 361 3.57e-11 63.9
MsaG009614 AT4G26640.7 40.000 100 49 4 147 240 339 433 5.69e-12 66.6
MsaG009614 AT4G26640.2 40.000 100 49 4 147 240 379 473 6.68e-12 66.2
MsaG009614 AT4G26640.1 40.000 100 49 4 147 240 307 401 7.05e-12 66.2
MsaG009614 AT4G26640.5 40.000 100 49 4 147 240 203 297 7.58e-12 65.9
MsaG009614 AT4G26640.6 40.000 100 49 4 147 240 203 297 7.58e-12 65.9
MsaG009614 AT4G26640.4 40.000 100 49 4 147 240 203 297 7.58e-12 65.9
MsaG009614 AT4G26640.3 40.000 100 49 4 147 240 203 297 7.58e-12 65.9
MsaG009614 AT3G01970.1 47.541 61 29 1 147 207 63 120 1.58e-11 61.6
MsaG009614 AT5G26170.1 40.278 72 35 2 146 217 110 173 1.79e-11 62.4
MsaG009614 AT4G26440.1 50.000 58 25 2 149 206 178 231 4.04e-11 63.9
MsaG009614 AT2G30590.1 36.145 83 51 1 124 206 288 368 4.77e-11 63.5
MsaG009614 AT3G01080.2 46.154 65 32 1 142 206 337 398 5.99e-11 63.2
MsaG009614 AT3G01080.1 46.154 65 32 1 142 206 299 360 8.15e-11 62.8
MsaG009614 AT3G62340.1 48.333 60 28 1 148 207 117 173 8.89e-11 62.0

Find 49 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTTGGCTTCCAACAAATTA+TGG 0.175004 2:+62418371 MsaT009614.1:CDS
TTACCATTCAGACTTAAATT+TGG 0.184409 2:+62420701 MsaT009614.1:CDS
AGATATATACCTGAAATATT+TGG 0.232157 2:-62420418 None:intergenic
TAAGATGAAGGAGGAGGATT+TGG 0.258950 2:+62418673 MsaT009614.1:CDS
TCACAAATGCCAAATATTTC+AGG 0.281113 2:+62420409 MsaT009614.1:CDS
TCAAATATTAGAGAAGTTAA+AGG 0.289246 2:+62418476 MsaT009614.1:CDS
AAACATCAAAATCGCATAAC+TGG 0.325641 2:-62420911 None:intergenic
AATCCTCCTCCTTCATCTTA+TGG 0.329589 2:-62418670 None:intergenic
ATAACCATCATCAATCAATT+TGG 0.330019 2:-62420358 None:intergenic
TCCAACAAATTATGGCAAAA+AGG 0.332872 2:+62418379 MsaT009614.1:CDS
AGAGTCATCAGAGGAGAAAA+TGG 0.351024 2:-62420727 None:intergenic
TTGTACCGGACTACATATTA+TGG 0.352265 2:+62420657 MsaT009614.1:CDS
GATTCTCCGGTGAGAACAAT+TGG 0.405307 2:-62420887 None:intergenic
TATAGGAACCGCCACATCAT+TGG 0.416491 2:-62418615 None:intergenic
ATATAATGGAGAATATGCTT+TGG 0.459020 2:+62418354 None:intergenic
CAAATATTAGAGAAGTTAAA+GGG 0.464900 2:+62418477 MsaT009614.1:CDS
ATTCCAAATTTAAGTCTGAA+TGG 0.467467 2:-62420704 None:intergenic
GCCTCCAAATTGATTGATGA+TGG 0.475537 2:+62420354 MsaT009614.1:CDS
AACTAATTGCCATAAGATGA+AGG 0.480574 2:+62418661 MsaT009614.1:CDS
CCACTTCTTGCATCTACAAA+CGG 0.482853 2:+62420822 MsaT009614.1:CDS
AAGATGAAGGAGGAGGATTT+GGG 0.487137 2:+62418674 MsaT009614.1:CDS
ATGTATGCAGGAGCTACTAT+AGG 0.489699 2:+62420565 MsaT009614.1:intron
TCATGATGTATCTCTTCCTT+AGG 0.501188 2:-62420849 None:intergenic
TCGCATAACTGGAGATTCTC+CGG 0.520000 2:-62420900 None:intergenic
AAAAGAACCCTTCGTTGTAC+CGG 0.521119 2:+62420643 MsaT009614.1:CDS
ATCTACAAACGGAGATCCTA+AGG 0.526669 2:+62420833 MsaT009614.1:CDS
TAGGTCAAGTGCACCAACTT+GGG 0.530587 2:+62420323 MsaT009614.1:intron
TTAGGTCAAGTGCACCAACT+TGG 0.536533 2:+62420322 MsaT009614.1:intron
ACCATCATCAATCAATTTGG+AGG 0.542680 2:-62420355 None:intergenic
GATGACCATAATATGTAGTC+CGG 0.554702 2:-62420662 None:intergenic
GGTTATACATGGAGAAAGTA+CGG 0.556459 2:+62420375 MsaT009614.1:CDS
ATGTAGTCCGGTACAACGAA+GGG 0.569798 2:-62420650 None:intergenic
TGATTGATGATGGTTATACA+TGG 0.570958 2:+62420364 MsaT009614.1:CDS
TTGCCATAAGATGAAGGAGG+AGG 0.573073 2:+62418667 MsaT009614.1:CDS
TGCACCAACTTGGGAAAAGA+CGG 0.575025 2:+62420332 MsaT009614.1:CDS
TCAAAACCAATTGTTCTCAC+CGG 0.575943 2:+62420881 MsaT009614.1:CDS
ATGAAGGAGGAGGATTTGGG+TGG 0.585719 2:+62418677 MsaT009614.1:CDS
AATGGTGGTGACTGTTCAAA+CGG 0.590635 2:-62420798 None:intergenic
CCGTTTGTAGATGCAAGAAG+TGG 0.617465 2:-62420822 None:intergenic
TAATATAAAAGAGTCATCAG+AGG 0.629685 2:-62420736 None:intergenic
TGCTGAAGATCTTGTGCGTG+AGG 0.635228 2:+62418541 MsaT009614.1:CDS
GCTTATGAGAGGACGTGACA+TGG 0.640238 2:+62418415 MsaT009614.1:CDS
TATGTAGTCCGGTACAACGA+AGG 0.640543 2:-62420651 None:intergenic
TGGTAAAGACTCCAATGATG+TGG 0.645157 2:+62418604 MsaT009614.1:CDS
ATGGAAGATGAGCTTATGAG+AGG 0.648590 2:+62418404 MsaT009614.1:CDS
GTAGATGCAAGAAGTGGCAA+TGG 0.654729 2:-62420816 None:intergenic
GATGCAAGAAGTGGCAATGG+TGG 0.680588 2:-62420813 None:intergenic
TAAAGACTCCAATGATGTGG+CGG 0.681692 2:+62418607 MsaT009614.1:CDS
TAATTGCCATAAGATGAAGG+AGG 0.755735 2:+62418664 MsaT009614.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 62418359 62420986 62418359 ID=MsaG009614
Chr2 mRNA 62418359 62420986 62418359 ID=MsaT009614.1;Parent=MsaG009614
Chr2 exon 62418359 62418759 62418359 ID=MsaT009614.1.exon1;Parent=MsaT009614.1
Chr2 CDS 62418359 62418759 62418359 ID=cds.MsaT009614.1;Parent=MsaT009614.1
Chr2 exon 62420326 62420430 62420326 ID=MsaT009614.1.exon2;Parent=MsaT009614.1
Chr2 CDS 62420326 62420430 62420326 ID=cds.MsaT009614.1;Parent=MsaT009614.1
Chr2 exon 62420575 62420986 62420575 ID=MsaT009614.1.exon3;Parent=MsaT009614.1
Chr2 CDS 62420575 62420986 62420575 ID=cds.MsaT009614.1;Parent=MsaT009614.1
Gene Sequence

>MsaT009614.1

ATGGAGAATATGCTTTGGCTTCCAACAAATTATGGCAAAAAGGCAATGGAAGATGAGCTTATGAGAGGACGTGACATGGCAAATCAATTACTTGAAGTACTAACTTTTGATGATAAGTCAAATATTAGAGAAGTTAAAGGGTCAAACACAAATTCATCAAAAGTGTTACTCTTAAATATTGTTGCTGAAGATCTTGTGCGTGAGGTGCTCAAATCATTGACAAACACACTTTTGCTGTTGAACAATGGTAAAGACTCCAATGATGTGGCGGTTCCTATAACTGTTAAAGATTTTTCTTTTTCAACTAATTGCCATAAGATGAAGGAGGAGGATTTGGGTGGAGCTTGCAAGAAACTCAAAACTCTCAACACCAAAAACTCGAAAGTGTCGAACAAGAGAAAGTCAAGTGCACCAACTTGGGAAAAGACGGCCTCCAAATTGATTGATGATGGTTATACATGGAGAAAGTACGGTCAAAAAATGATCACAAATGCCAAATATTTCAGGAGCTACTATAGGTGCACTCACATGAATGATCAACAATGTGAAGCAATCAAACATGTTCAAAGAATACAAAAGAACCCTTCGTTGTACCGGACTACATATTATGGTCATCACACTTGCAAAAGCTCTTACCATTCAGACTTAAATTTGGAATCCATTTTCTCCTCTGATGACTCTTTTATATTACTTAGTTTCGATAACAACATTTCAAGTAATCAAGAATATCCGTTTGAACAGTCACCACCATTGCCACTTCTTGCATCTACAAACGGAGATCCTAAGGAAGAGATACATCATGATCATTTTCCTCAAAACCAATTGTTCTCACCGGAGAATCTCCAGTTATGCGATTTTGATGTTTATTTTGATTATTTGAGACATGTCACTGAGTCATCATCGAGTGAATCTTTTTAA
Protein sequence

>MsaT009614.1

MENMLWLPTNYGKKAMEDELMRGRDMANQLLEVLTFDDKSNIREVKGSNTNSSKVLLLNIVAEDLVREVLKSLTNTLLLLNNGKDSNDVAVPITVKDFSFSTNCHKMKEEDLGGACKKLKTLNTKNSKVSNKRKSSAPTWEKTASKLIDDGYTWRKYGQKMITNAKYFRSYYRCTHMNDQQCEAIKHVQRIQKNPSLYRTTYYGHHTCKSSYHSDLNLESIFSSDDSFILLSFDNNISSNQEYPFEQSPPLPLLASTNGDPKEEIHHDHFPQNQLFSPENLQLCDFDVYFDYLRHVTESSSSESF*