AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG027817

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG027817 MtrunA17_Chr5g0432071 78.182 165 27 2 1 157 48 211 8.69e-88 255
MsaG027817 MtrunA17_Chr5g0432161 40.268 149 83 3 12 157 208 353 1.78e-27 107
MsaG027817 MtrunA17_Chr5g0432161 56.140 57 24 1 50 105 421 477 4.27e-15 71.6
MsaG027817 MtrunA17_Chr3g0106491 42.105 133 66 4 29 157 176 301 1.32e-23 95.9
MsaG027817 MtrunA17_Chr3g0106491 52.632 57 26 1 50 105 365 421 4.42e-13 65.9
MsaG027817 MtrunA17_Chr7g0243891 56.338 71 31 0 43 113 209 279 7.78e-22 90.9
MsaG027817 MtrunA17_Chr7g0243891 52.632 57 26 1 50 105 374 430 1.77e-13 67.0
MsaG027817 MtrunA17_Chr7g0263531 66.667 57 19 0 51 107 190 246 2.50e-21 89.0
MsaG027817 MtrunA17_Chr7g0263531 50.000 56 27 1 51 105 362 417 3.82e-11 60.1
MsaG027817 MtrunA17_Chr5g0431931 62.500 72 18 2 1 64 84 154 3.69e-21 84.0
MsaG027817 MtrunA17_Chr7g0249311 59.375 64 26 0 50 113 179 242 1.54e-19 84.3
MsaG027817 MtrunA17_Chr7g0249311 50.877 57 27 1 50 105 392 448 9.24e-13 64.7
MsaG027817 MtrunA17_Chr5g0418191 62.500 56 21 0 50 105 151 206 3.36e-19 83.2
MsaG027817 MtrunA17_Chr5g0418191 52.632 57 26 1 50 105 320 376 3.35e-14 68.9
MsaG027817 MtrunA17_Chr4g0004911 42.105 114 60 5 35 145 168 278 4.19e-19 82.8
MsaG027817 MtrunA17_Chr4g0004911 50.877 57 27 1 50 105 336 392 3.75e-12 63.2
MsaG027817 MtrunA17_Chr3g0101131 57.812 64 27 0 50 113 243 306 1.39e-17 78.6
MsaG027817 MtrunA17_Chr3g0101131 50.877 57 27 1 50 105 415 471 1.80e-11 61.2
MsaG027817 MtrunA17_Chr7g0218081 63.793 58 21 0 50 107 228 285 3.00e-17 77.8
MsaG027817 MtrunA17_Chr7g0218081 38.318 107 53 4 50 150 410 509 1.71e-12 63.9
MsaG027817 MtrunA17_Chr7g0249301 55.556 63 28 0 51 113 63 125 3.94e-17 77.0
MsaG027817 MtrunA17_Chr7g0249301 50.877 57 27 1 50 105 292 348 2.33e-12 63.5
MsaG027817 MtrunA17_Chr3g0079691 60.345 58 23 0 50 107 280 337 1.05e-16 76.3
MsaG027817 MtrunA17_Chr3g0079691 52.632 57 26 1 50 105 495 551 1.03e-11 62.0
MsaG027817 MtrunA17_Chr5g0445311 60.345 58 23 0 50 107 200 257 1.23e-16 75.9
MsaG027817 MtrunA17_Chr5g0445311 50.877 57 27 1 50 105 364 420 2.69e-11 60.5
MsaG027817 MtrunA17_Chr1g0188941 52.632 57 26 1 50 105 51 107 3.89e-16 70.1
MsaG027817 MtrunA17_Chr4g0042831 58.182 55 22 1 50 103 145 199 1.34e-15 72.8
MsaG027817 MtrunA17_Chr4g0042831 50.877 57 27 1 50 105 278 334 7.11e-14 67.8
MsaG027817 MtrunA17_Chr5g0432011 71.429 42 12 0 1 42 48 89 2.76e-13 62.0
MsaG027817 MtrunA17_Chr5g0447701 32.353 102 63 2 51 146 93 194 1.43e-12 63.9
MsaG027817 MtrunA17_Chr5g0447701 42.623 61 34 1 50 109 252 312 1.27e-11 61.2
MsaG027817 MtrunA17_Chr3g0136961 36.047 86 49 3 51 130 139 224 1.47e-12 63.5
MsaG027817 MtrunA17_Chr8g0335811 50.877 57 27 1 50 105 154 210 2.67e-12 62.4
MsaG027817 MtrunA17_Chr8g0383351 50.909 55 26 1 50 103 160 214 2.77e-12 62.4
MsaG027817 MtrunA17_Chr3g0129361 49.123 57 28 1 50 105 144 200 3.55e-12 62.0
MsaG027817 MtrunA17_Chr6g0468181 68.421 38 12 0 70 107 22 59 7.77e-12 58.9
MsaG027817 MtrunA17_Chr4g0051181 48.276 58 28 2 50 105 243 300 9.40e-12 62.0
MsaG027817 MtrunA17_Chr2g0294231 40.000 75 43 2 44 116 196 270 1.14e-11 61.6
MsaG027817 MtrunA17_Chr5g0443131 44.928 69 35 3 44 109 150 218 1.51e-11 60.8
MsaG027817 MtrunA17_Chr7g0224801 40.260 77 43 2 50 123 93 169 1.71e-11 59.3
MsaG027817 MtrunA17_Chr4g0060271 35.052 97 51 4 14 105 223 312 1.86e-11 61.2
MsaG027817 MtrunA17_Chr8g0386241 47.273 55 28 1 50 103 103 157 2.67e-11 58.9
MsaG027817 MtrunA17_Chr4g0074001 42.857 56 31 1 51 105 360 415 3.95e-11 60.1
MsaG027817 MtrunA17_Chr8g0383251 40.449 89 48 3 33 116 88 176 6.71e-11 57.8
MsaG027817 MtrunA17_Chr2g0333851 42.105 57 31 2 51 105 170 226 7.68e-11 58.9
MsaG027817 MtrunA17_Chr1g0194481 32.353 102 60 4 44 141 151 247 7.97e-11 58.9
MsaG027817 MtrunA17_Chr1g0150281 39.130 69 40 2 51 117 141 209 8.98e-11 58.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG027817 AT5G07100.2 47.619 105 41 4 50 152 24 116 4.31e-22 88.6
MsaG027817 AT5G07100.2 52.632 57 26 1 50 105 141 197 9.38e-14 66.2
MsaG027817 AT5G07100.4 47.619 105 41 4 50 152 24 116 4.31e-22 88.6
MsaG027817 AT5G07100.4 52.632 57 26 1 50 105 141 197 9.38e-14 66.2
MsaG027817 AT5G07100.5 47.619 105 41 4 50 152 24 116 4.31e-22 88.6
MsaG027817 AT5G07100.5 52.632 57 26 1 50 105 141 197 9.38e-14 66.2
MsaG027817 AT5G07100.3 47.619 105 41 4 50 152 24 116 4.31e-22 88.6
MsaG027817 AT5G07100.3 52.632 57 26 1 50 105 141 197 9.38e-14 66.2
MsaG027817 AT5G07100.1 47.619 105 41 4 50 152 117 209 1.14e-21 89.0
MsaG027817 AT5G07100.1 52.632 57 26 1 50 105 234 290 9.03e-14 67.4
MsaG027817 AT2G38470.1 62.069 58 22 0 50 107 184 241 2.90e-21 89.4
MsaG027817 AT2G38470.1 52.632 57 26 1 50 105 362 418 1.34e-12 64.7
MsaG027817 AT1G13960.2 62.500 56 21 0 50 105 76 131 5.48e-20 85.1
MsaG027817 AT1G13960.2 52.632 57 26 1 50 105 256 312 3.97e-14 68.9
MsaG027817 AT2G37260.3 52.239 67 32 0 51 117 86 152 3.35e-19 82.8
MsaG027817 AT2G37260.2 52.239 67 32 0 51 117 84 150 3.47e-19 82.8
MsaG027817 AT2G37260.1 52.239 67 32 0 51 117 166 232 3.72e-19 83.2
MsaG027817 AT4G26640.7 60.345 58 23 0 50 107 171 228 1.23e-18 82.0
MsaG027817 AT4G26640.7 44.186 86 45 2 50 134 341 424 1.35e-14 70.5
MsaG027817 AT4G26640.2 60.345 58 23 0 50 107 211 268 1.31e-18 82.0
MsaG027817 AT4G26640.2 44.186 86 45 2 50 134 381 464 1.31e-14 70.5
MsaG027817 AT4G26640.1 60.345 58 23 0 50 107 139 196 1.51e-18 81.6
MsaG027817 AT4G26640.1 44.186 86 45 2 50 134 309 392 1.46e-14 70.5
MsaG027817 AT4G26640.5 60.345 58 23 0 50 107 35 92 1.91e-18 80.9
MsaG027817 AT4G26640.5 44.186 86 45 2 50 134 205 288 1.40e-14 70.1
MsaG027817 AT4G26640.6 60.345 58 23 0 50 107 35 92 1.91e-18 80.9
MsaG027817 AT4G26640.6 44.186 86 45 2 50 134 205 288 1.40e-14 70.1
MsaG027817 AT4G26640.4 60.345 58 23 0 50 107 35 92 1.91e-18 80.9
MsaG027817 AT4G26640.4 44.186 86 45 2 50 134 205 288 1.40e-14 70.1
MsaG027817 AT4G26640.3 60.345 58 23 0 50 107 35 92 1.91e-18 80.9
MsaG027817 AT4G26640.3 44.186 86 45 2 50 134 205 288 1.40e-14 70.1
MsaG027817 AT5G56270.1 62.069 58 22 0 50 107 273 330 3.58e-18 80.9
MsaG027817 AT5G56270.1 54.386 57 25 1 50 105 487 543 8.30e-13 65.5
MsaG027817 AT4G26440.1 60.345 58 23 0 50 107 178 235 3.95e-18 80.5
MsaG027817 AT4G26440.1 50.877 57 27 1 50 105 372 428 2.89e-11 60.8
MsaG027817 AT1G13960.1 62.500 56 21 0 50 105 229 284 5.68e-18 80.1
MsaG027817 AT1G13960.1 52.632 57 26 1 50 105 409 465 3.77e-12 63.5
MsaG027817 AT3G01080.3 60.714 56 22 0 50 105 205 260 1.05e-17 78.6
MsaG027817 AT3G01080.2 60.714 56 22 0 50 105 205 260 3.40e-17 77.8
MsaG027817 AT3G01080.2 54.386 57 25 1 50 105 344 400 1.27e-15 73.2
MsaG027817 AT2G03340.1 60.714 56 22 0 50 105 250 305 3.78e-17 77.8
MsaG027817 AT2G03340.1 52.632 57 26 1 50 105 415 471 4.83e-12 63.2
MsaG027817 AT3G01080.1 60.714 56 22 0 50 105 167 222 4.14e-17 77.4
MsaG027817 AT3G01080.1 54.386 57 25 1 50 105 306 362 1.67e-15 72.8
MsaG027817 AT2G04880.2 50.000 58 29 0 50 107 111 168 3.18e-16 75.1
MsaG027817 AT2G04880.1 50.000 58 29 0 50 107 111 168 3.73e-16 74.7
MsaG027817 AT2G30250.1 40.351 114 48 4 48 141 164 277 2.91e-15 72.0
MsaG027817 AT2G30250.1 46.154 65 33 2 51 114 329 392 1.73e-12 64.3
MsaG027817 AT4G12020.10 47.059 68 34 1 38 105 458 523 9.73e-15 70.9
MsaG027817 AT4G12020.3 47.059 68 34 1 38 105 458 523 1.02e-14 70.9
MsaG027817 AT4G12020.4 47.059 68 34 1 38 105 458 523 1.03e-14 70.9
MsaG027817 AT4G12020.6 47.059 68 34 1 38 105 458 523 1.05e-14 70.9
MsaG027817 AT4G12020.8 47.059 68 34 1 38 105 458 523 1.05e-14 70.9
MsaG027817 AT4G12020.2 47.059 68 34 1 38 105 458 523 1.11e-14 70.9
MsaG027817 AT4G12020.7 47.059 68 34 1 38 105 458 523 1.13e-14 70.9
MsaG027817 AT4G12020.1 47.059 68 34 1 38 105 458 523 1.17e-14 70.9
MsaG027817 AT4G12020.9 47.059 68 34 1 38 105 458 523 1.17e-14 70.9
MsaG027817 AT4G12020.5 47.059 68 34 1 38 105 391 456 1.27e-14 70.9
MsaG027817 AT4G12020.11 47.059 68 34 1 38 105 458 523 1.43e-14 70.5
MsaG027817 AT5G13080.1 47.368 57 29 1 50 105 67 123 1.35e-13 64.7
MsaG027817 AT1G55600.1 50.847 59 28 1 48 105 305 363 5.97e-13 65.9
MsaG027817 AT1G64000.1 36.585 82 43 2 33 105 89 170 8.77e-13 63.5
MsaG027817 AT2G44745.1 50.877 57 27 1 50 105 145 201 2.67e-12 62.4
MsaG027817 AT5G41570.1 45.614 57 30 1 50 105 98 154 4.14e-12 61.2
MsaG027817 AT2G21900.1 35.052 97 53 2 10 105 78 165 9.21e-12 60.8
MsaG027817 AT1G29860.1 40.000 80 45 3 44 121 129 207 1.98e-11 60.8
MsaG027817 AT2G46130.1 47.368 57 29 1 50 105 30 86 2.00e-11 57.8
MsaG027817 AT4G39410.1 49.091 55 27 1 50 103 223 277 3.42e-11 60.5
MsaG027817 AT2G25000.3 37.879 66 39 2 51 114 126 191 3.91e-11 59.7
MsaG027817 AT2G25000.2 37.879 66 39 2 51 114 104 169 3.94e-11 59.3
MsaG027817 AT2G25000.4 37.879 66 39 2 51 114 104 169 3.94e-11 59.3
MsaG027817 AT5G49520.1 47.458 59 30 1 48 105 219 277 5.57e-11 60.1
MsaG027817 AT2G25000.1 37.879 66 39 2 51 114 147 212 6.27e-11 59.3

Find 18 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACCATGATGATGGGTATAAT+TGG 0.246954 5:+52907328 MsaT027817.1:CDS
TTCGTTCAAAATTTGATTCT+CGG 0.288568 5:+52907193 MsaT027817.1:CDS
ATCATTTGGAAGTGAACAAT+TGG 0.346812 5:+52907596 MsaT027817.1:CDS
ATTGATACTGAAGACTTTGC+AGG 0.359791 5:-52907633 None:intergenic
GACTTGCAAGATCAATCATT+TGG 0.392633 5:+52907582 MsaT027817.1:CDS
AAAATTTGTCTTTAAGAAGA+AGG 0.406219 5:+52907301 MsaT027817.1:CDS
AAGAGAAAGTAGCAAAAGGA+AGG 0.448078 5:+52907361 MsaT027817.1:CDS
AAGGTTGAGATAACTATAGA+TGG 0.449611 5:+52907438 MsaT027817.1:CDS
AGAAGGATAAACCATGATGA+TGG 0.457113 5:+52907318 MsaT027817.1:CDS
TATGAAGAGAAAGTAGCAAA+AGG 0.459364 5:+52907357 MsaT027817.1:CDS
TCCAATTATACCCATCATCA+TGG 0.461024 5:-52907329 None:intergenic
CGAAATTGAAACTCTGAGAA+TGG 0.484934 5:+52907218 MsaT027817.1:CDS
AGCTAACGTCTTCAATGAAG+AGG 0.537329 5:+52907505 MsaT027817.1:CDS
GAAGGATAAACCATGATGAT+GGG 0.572923 5:+52907319 MsaT027817.1:CDS
AGAGAAAGTAGCAAAAGGAA+GGG 0.578563 5:+52907362 MsaT027817.1:CDS
TCAATGAGAGCAGTCTCTGA+AGG 0.608021 5:-52907561 None:intergenic
GAAGCTATTATAAATGTACA+TGG 0.617639 5:+52907394 MsaT027817.1:CDS
ATTATTGAGACACTATACAA+AGG 0.688284 5:+52907465 MsaT027817.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 52907186 52907659 52907186 ID=MsaG027817
Chr5 mRNA 52907186 52907659 52907186 ID=MsaT027817.1;Parent=MsaG027817
Chr5 exon 52907186 52907659 52907186 ID=MsaT027817.1.exon1;Parent=MsaT027817.1
Chr5 CDS 52907186 52907659 52907186 ID=cds.MsaT027817.1;Parent=MsaT027817.1
Gene Sequence

>MsaT027817.1

ATGATTCTTCGTTCAAAATTTGATTCTCGGAACGAAATTGAAACTCTGAGAATGGAAGCTGATGATATAGCTATAGAAGTTGATGCTGCAGATAGCAACAGAAATGAATTCCAACAAAATTTGTCTTTAAGAAGAAGGATAAACCATGATGATGGGTATAATTGGAAAAAGTATGAAGAGAAAGTAGCAAAAGGAAGGGAAAATCAAAGAAGCTATTATAAATGTACATGGCCTAATTGTTTTGTGAAGAAAAAGGTTGAGATAACTATAGATGGAGAAATTATTGAGACACTATACAAAGGTACACATAATTATTGTAAGCTAACGTCTTCAATGAAGAGGATCTCATCATATGAGTATCTTTATTCACTTTTACCTTCAGAGACTGCTCTCATTGACTTGCAAGATCAATCATTTGGAAGTGAACAATTGGATTCTGATGAAGAACCTGCAAAGTCTTCAGTATCAATATGA
Protein sequence

>MsaT027817.1

MILRSKFDSRNEIETLRMEADDIAIEVDAADSNRNEFQQNLSLRRRINHDDGYNWKKYEEKVAKGRENQRSYYKCTWPNCFVKKKVEITIDGEIIETLYKGTHNYCKLTSSMKRISSYEYLYSLLPSETALIDLQDQSFGSEQLDSDEEPAKSSVSI*