AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG001419

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001419 MtrunA17_Chr1g0163001 87.315 473 8 3 5 426 54 525 0.0 778
MsaG001419 MtrunA17_Chr1g0199101 53.462 520 101 18 4 426 57 532 1.35e-151 440
MsaG001419 MtrunA17_Chr1g0162971 53.023 430 118 13 4 403 51 426 2.24e-123 365
MsaG001419 MtrunA17_Chr1g0210821 81.283 187 29 2 4 184 54 240 2.58e-112 341
MsaG001419 MtrunA17_Chr7g0263941 58.466 313 77 10 4 310 44 309 4.01e-111 332
MsaG001419 MtrunA17_Chr8g0342421 59.211 304 96 7 4 303 72 351 1.51e-109 332
MsaG001419 MtrunA17_Chr2g0330171 58.000 300 91 8 4 303 56 320 1.01e-107 326
MsaG001419 MtrunA17_Chr1g0185121 56.129 310 101 8 4 306 50 331 2.45e-105 319
MsaG001419 MtrunA17_Chr1g0191991 55.836 317 110 7 4 317 73 362 8.56e-104 318
MsaG001419 MtrunA17_Chr1g0181381 88.961 154 16 1 4 156 48 201 6.56e-103 315
MsaG001419 MtrunA17_Chr4g0040571 88.235 153 18 0 4 156 49 201 1.68e-102 313
MsaG001419 MtrunA17_Chr8g0373541 86.275 153 21 0 4 156 43 195 4.26e-102 313
MsaG001419 MtrunA17_Chr4g0029521 51.212 330 115 9 4 311 48 353 7.10e-101 309
MsaG001419 MtrunA17_Chr7g0268961 83.226 155 26 0 2 156 30 184 1.28e-99 306
MsaG001419 MtrunA17_Chr1g0151351 79.012 162 32 2 4 164 51 211 7.74e-95 292
MsaG001419 MtrunA17_Chr2g0326381 80.519 154 29 1 4 156 42 195 3.04e-93 287
MsaG001419 MtrunA17_Chr3g0141431 49.045 314 122 8 4 305 32 319 9.70e-90 278
MsaG001419 MtrunA17_Chr2g0324991 84.733 131 20 0 5 135 3 133 7.71e-84 253
MsaG001419 MtrunA17_Chr6g0479921 63.014 146 53 1 4 148 39 184 1.38e-67 222
MsaG001419 MtrunA17_Chr8g0375521 63.014 146 52 2 4 147 37 182 3.57e-66 217
MsaG001419 MtrunA17_Chr1g0200421 34.437 151 87 4 8 146 236 386 5.22e-23 101
MsaG001419 MtrunA17_Chr3g0123941 35.099 151 90 3 4 146 118 268 4.15e-22 96.7
MsaG001419 MtrunA17_Chr2g0320341 34.868 152 85 4 6 143 227 378 8.32e-22 96.7
MsaG001419 MtrunA17_Chr8g0352011 36.301 146 83 5 10 146 166 310 5.23e-20 90.5
MsaG001419 MtrunA17_Chr7g0258011 33.333 162 90 6 10 154 176 336 1.76e-19 89.4
MsaG001419 MtrunA17_Chr5g0422571 35.294 153 86 5 10 151 101 251 1.88e-19 88.2
MsaG001419 MtrunA17_Chr1g0198651 35.172 145 79 5 15 146 107 249 3.80e-19 87.4
MsaG001419 MtrunA17_Chr1g0173841 34.932 146 85 5 10 146 215 359 5.50e-19 88.2
MsaG001419 MtrunA17_Chr4g0053341 33.775 151 90 4 5 146 69 218 5.55e-19 85.5
MsaG001419 MtrunA17_Chr2g0328921 33.562 146 87 5 10 146 138 282 3.33e-18 85.1
MsaG001419 MtrunA17_Chr8g0382121 32.432 148 89 5 7 143 109 256 4.44e-18 84.7
MsaG001419 MtrunA17_Chr2g0321291 34.694 147 84 5 10 146 133 277 6.66e-18 84.0
MsaG001419 MtrunA17_Chr4g0026521 33.333 147 86 5 10 146 118 262 7.32e-17 80.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001419 AT2G02080.1 47.020 453 139 12 4 389 64 482 3.12e-119 357
MsaG001419 AT2G02080.4 47.020 453 139 12 4 389 64 482 3.12e-119 357
MsaG001419 AT2G02080.5 47.020 453 139 12 4 389 64 482 3.12e-119 357
MsaG001419 AT2G02080.3 47.020 453 139 12 4 389 64 482 3.12e-119 357
MsaG001419 AT1G14580.1 46.028 428 132 9 4 386 63 436 2.83e-110 333
MsaG001419 AT1G14580.2 46.028 428 132 9 4 386 63 436 2.83e-110 333
MsaG001419 AT1G14580.3 46.028 428 132 9 4 386 77 450 4.43e-110 333
MsaG001419 AT3G50700.1 46.929 407 180 6 4 396 44 428 1.66e-109 330
MsaG001419 AT2G02080.6 45.786 439 137 12 18 389 1 405 3.11e-109 329
MsaG001419 AT2G02080.2 45.786 439 137 12 18 389 1 405 3.11e-109 329
MsaG001419 AT2G02070.2 78.534 191 30 1 6 185 64 254 8.29e-108 331
MsaG001419 AT2G02070.1 78.534 191 30 1 6 185 64 254 8.29e-108 331
MsaG001419 AT5G66730.1 86.364 154 21 0 4 157 42 195 2.95e-101 310
MsaG001419 AT5G44160.2 54.633 313 117 6 4 301 8 310 1.61e-99 304
MsaG001419 AT1G03840.1 84.967 153 23 0 4 156 51 203 2.12e-99 306
MsaG001419 AT5G44160.1 54.633 313 117 6 4 301 47 349 3.14e-99 304
MsaG001419 AT1G03840.2 84.314 153 24 0 4 156 49 201 1.08e-98 304
MsaG001419 AT1G55110.3 86.364 154 20 1 4 156 73 226 1.29e-98 302
MsaG001419 AT1G55110.1 86.364 154 20 1 4 156 73 226 1.29e-98 302
MsaG001419 AT1G55110.2 86.364 154 20 1 4 156 73 226 1.29e-98 302
MsaG001419 AT3G45260.2 81.325 166 29 2 4 168 49 213 3.64e-98 301
MsaG001419 AT3G45260.1 81.325 166 29 2 4 168 49 213 3.64e-98 301
MsaG001419 AT5G03150.1 78.531 177 31 3 4 177 63 235 1.34e-97 301
MsaG001419 AT3G13810.5 87.013 154 19 1 4 156 75 228 2.01e-97 301
MsaG001419 AT3G13810.6 87.013 154 19 1 4 156 61 214 2.06e-97 300
MsaG001419 AT3G13810.4 87.013 154 19 1 4 156 80 233 2.25e-97 301
MsaG001419 AT3G13810.1 87.013 154 19 1 4 156 80 233 2.25e-97 301
MsaG001419 AT4G02670.1 85.065 154 22 1 4 156 63 216 1.23e-96 295
MsaG001419 AT4G02670.2 85.065 154 22 1 4 156 65 218 1.33e-96 295
MsaG001419 AT3G13810.3 86.928 153 19 1 5 156 68 220 1.34e-96 298
MsaG001419 AT3G13810.2 86.928 153 19 1 5 156 82 234 1.90e-96 298
MsaG001419 AT5G60470.2 78.049 164 35 1 4 166 54 217 4.05e-95 293
MsaG001419 AT5G60470.3 78.049 164 35 1 4 166 50 213 4.67e-95 293
MsaG001419 AT5G60470.1 76.506 166 38 1 1 165 42 207 8.21e-95 292
MsaG001419 AT1G25250.1 63.514 148 51 2 3 147 19 166 2.19e-68 221
MsaG001419 AT2G01940.1 64.189 148 51 2 4 149 54 201 9.86e-68 222
MsaG001419 AT1G25250.3 63.265 147 51 2 4 147 43 189 1.32e-67 220
MsaG001419 AT1G68130.1 56.647 173 65 3 4 166 51 223 1.91e-67 221
MsaG001419 AT2G01940.3 63.087 149 52 3 4 149 54 202 5.15e-64 213
MsaG001419 AT1G68130.2 54.745 137 52 3 40 166 1 137 8.65e-46 161
MsaG001419 AT2G01940.2 64.286 112 38 2 40 149 1 112 2.16e-45 161
MsaG001419 AT1G25250.2 62.162 111 39 2 40 147 1 111 4.98e-45 159
MsaG001419 AT1G34370.3 34.641 153 86 4 8 146 19 171 8.27e-22 95.1
MsaG001419 AT1G34370.2 33.333 153 88 3 8 146 229 381 1.63e-21 97.1
MsaG001419 AT1G34370.1 33.333 153 88 3 8 146 229 381 1.63e-21 97.1
MsaG001419 AT5G22890.1 31.792 173 101 5 8 166 202 371 9.60e-21 93.6
MsaG001419 AT3G20880.1 31.737 167 98 6 10 161 243 408 2.75e-19 89.7
MsaG001419 AT1G51220.1 32.877 146 88 5 10 146 165 309 9.76e-19 87.4
MsaG001419 AT3G57670.1 34.247 146 86 5 10 146 204 348 2.20e-18 86.7
MsaG001419 AT1G13290.1 34.899 149 83 6 15 151 93 239 6.14e-18 84.3
MsaG001419 AT1G34790.1 35.333 150 85 6 7 146 129 276 1.11e-17 83.6
MsaG001419 AT1G08290.1 34.161 161 87 8 3 146 154 312 7.89e-17 81.6

Find 81 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTTGTGTTGATTCCAATTT+AGG 0.091214 1:+19839034 None:intergenic
CTCCTTGTTGGGTGCTTATC+TGG 0.106073 1:+19839884 None:intergenic
CGAAGAAGTTGTGTTGTTAT+TGG 0.199081 1:+19839609 None:intergenic
TTTGTTGCCATTAGGGTCTT+TGG 0.213274 1:+19843321 None:intergenic
GGAAAGAAGCTTAGGTTAAA+AGG 0.236965 1:+19839577 None:intergenic
TCCATTGTTGATCTTCAAAA+AGG 0.237827 1:+19839004 None:intergenic
CACAAATAAACCTTTCTCTT+TGG 0.255380 1:+19843186 None:intergenic
GAACAACATGGATCCTAAAT+TGG 0.267054 1:-19839047 MsaT001419.1:CDS
AAATCTGTTTGTTGCCATTA+GGG 0.267384 1:+19843314 None:intergenic
CAAATCTGTTTGTTGCCATT+AGG 0.293552 1:+19843313 None:intergenic
GTATGTGAAGTATGTCAAAA+AGG 0.304885 1:-19843291 MsaT001419.1:CDS
GTGTTGTTACCATTGGTATT+TGG 0.331507 1:+19839556 None:intergenic
GCTTAATATGTTGTTGTTTG+TGG 0.341536 1:+19839861 None:intergenic
CTAGTTGGTAATTTGTGCTT+TGG 0.354162 1:-19839190 MsaT001419.1:CDS
TCCACAAACCACATGAGTTT+AGG 0.377863 1:-19839913 MsaT001419.1:CDS
TCCTTGTTGGGTGCTTATCT+GGG 0.390257 1:+19839885 None:intergenic
GTTGGTAATTTGTGCTTTGG+AGG 0.397322 1:-19839187 MsaT001419.1:CDS
TGTTGTTTGTGGCTCCTTGT+TGG 0.400951 1:+19839872 None:intergenic
AGTGCTATCACCTCTGCATC+TGG 0.401274 1:+19843348 None:intergenic
TGGTGAACACATGTTGGTTC+TGG 0.406411 1:+19843162 None:intergenic
ATGCAACTTCCTGATCTTCA+AGG 0.407756 1:-19839637 MsaT001419.1:CDS
ATTCTAAGACTTGTGGTACT+AGG 0.408246 1:-19843011 MsaT001419.1:CDS
GTTGTTTGTGGCTCCTTGTT+GGG 0.418545 1:+19839873 None:intergenic
TTGGTATTTCCTTGAAGATC+AGG 0.421140 1:+19839628 None:intergenic
GTGACAGTTTCATCACTCAT+AGG 0.424200 1:-19840011 MsaT001419.1:CDS
AGGATCAGATAAATTGACTT+TGG 0.426316 1:-19839167 MsaT001419.1:CDS
AATATGCTGTTCAATCTGAT+TGG 0.427517 1:-19843041 MsaT001419.1:CDS
ACCTAAACTCATGTGGTTTG+TGG 0.441992 1:+19839912 None:intergenic
TGGTATTTGGAAAGAAGCTT+AGG 0.442631 1:+19839569 None:intergenic
GTGTTCACCATGACCCTTCA+AGG 0.444680 1:-19843149 MsaT001419.1:CDS
CATGTTGTTCATTGCACTCA+TGG 0.444733 1:+19839060 None:intergenic
ATATATGATAACAATAATCT+TGG 0.452803 1:-19839271 MsaT001419.1:CDS
TTGATGAACTCTCTTGGTAA+TGG 0.453657 1:-19839304 MsaT001419.1:CDS
CATGACCCTTCAAGGGCTCT+TGG 0.457066 1:-19843141 MsaT001419.1:CDS
CCCTTCCAACATGAACCCTT+TGG 0.462526 1:-19839950 MsaT001419.1:CDS
AGGGCTCTTGGTGACCTCAC+TGG 0.481216 1:-19843129 MsaT001419.1:CDS
CATGGTTTGATGAACTCTCT+TGG 0.494225 1:-19839310 MsaT001419.1:CDS
GCCAAAGGGTTCATGTTGGA+AGG 0.499818 1:+19839949 None:intergenic
ACTATCTCCAAAGACCCTAA+TGG 0.500143 1:-19843328 MsaT001419.1:CDS
GAAGAGGACACAATTTGCCT+TGG 0.500777 1:-19843236 MsaT001419.1:CDS
ATGCATTGTGTTGTTACCAT+TGG 0.504019 1:+19839549 None:intergenic
TTGAGAATTGTCCTTGATGA+AGG 0.510385 1:+19839689 None:intergenic
TAACAAAGAGCCAAAGAGAA+AGG 0.517289 1:-19843196 MsaT001419.1:CDS
TCATCACAACAAAGTCTAGT+TGG 0.517423 1:-19839205 MsaT001419.1:CDS
TTCTAAGACTTGTGGTACTA+GGG 0.522062 1:-19843010 MsaT001419.1:CDS
AAACAACTTCATCTTCATCA+TGG 0.542991 1:-19839664 MsaT001419.1:CDS
ATGAGTAGTCATAGTGGTGG+AGG 0.544180 1:-19839112 MsaT001419.1:CDS
TGGTCAGTTTCACAATGTTG+AGG 0.562544 1:-19839251 MsaT001419.1:CDS
TAACAACACAACTTCTTCGT+CGG 0.566297 1:-19839605 MsaT001419.1:CDS
AGCTTCTTTCCAAATACCAA+TGG 0.568397 1:-19839565 MsaT001419.1:CDS
TTCCAACAAGACCTTCATCA+AGG 0.568775 1:-19839700 MsaT001419.1:intron
CATCATCCTCATCAACATGA+AGG 0.570900 1:-19839499 MsaT001419.1:CDS
CAAGAGCCCTTGAAGGGTCA+TGG 0.571189 1:+19843142 None:intergenic
CCAAAGGGTTCATGTTGGAA+GGG 0.582486 1:+19839950 None:intergenic
TGACAGTTTCATCACTCATA+GGG 0.582640 1:-19840010 MsaT001419.1:CDS
AAAATAGATGAGTTGCCAAA+GGG 0.582651 1:+19839935 None:intergenic
AGGTCACCAAGAGCCCTTGA+AGG 0.583044 1:+19843135 None:intergenic
GAAAATAGATGAGTTGCCAA+AGG 0.595195 1:+19839934 None:intergenic
TCAGTTTCACAATGTTGAGG+AGG 0.598972 1:-19839248 MsaT001419.1:CDS
AACATGAGTAGTCATAGTGG+TGG 0.599920 1:-19839115 MsaT001419.1:CDS
AGACTTTGTTGTGATGATGA+TGG 0.601984 1:+19839211 None:intergenic
AACAACAACATATTAAGCCT+AGG 0.605686 1:-19839856 MsaT001419.1:intron
AAAGCTCATTCTAAGACTTG+TGG 0.613886 1:-19843018 MsaT001419.1:CDS
AGTTGCCAAAGGGTTCATGT+TGG 0.620508 1:+19839945 None:intergenic
TGTTCACCATGACCCTTCAA+GGG 0.621698 1:-19843148 MsaT001419.1:CDS
CCTAAATTGGAATCAACACA+AGG 0.622024 1:-19839034 MsaT001419.1:CDS
GAAAACAGATCCAGATGCAG+AGG 0.622348 1:-19843358 MsaT001419.1:CDS
TCCCAGATAAGCACCCAACA+AGG 0.630821 1:-19839886 MsaT001419.1:CDS
AATTTGCAACTACATAGAAG+AGG 0.631288 1:-19843252 MsaT001419.1:CDS
CATGAGTGCAATGAACAACA+TGG 0.631457 1:-19839059 MsaT001419.1:CDS
ACTGTGGTACTCTCTTCTCA+AGG 0.636169 1:-19842975 MsaT001419.1:intron
ACGACTATCAACAACAGCAA+TGG 0.638790 1:-19839364 MsaT001419.1:CDS
GGTCACCAAGAGCCCTTGAA+GGG 0.641915 1:+19843136 None:intergenic
GAACAACATCAACATCTACA+TGG 0.645232 1:-19839328 MsaT001419.1:CDS
GGGATAGACCTAAACTCATG+TGG 0.647071 1:+19839905 None:intergenic
AGAAACATGAGTAGTCATAG+TGG 0.649943 1:-19839118 MsaT001419.1:CDS
AATGCAGTTGCCGACATGTG+TGG 0.670626 1:+19839421 None:intergenic
GTTGTCTTCGCCACACATGT+CGG 0.684664 1:-19839431 MsaT001419.1:CDS
GGGTCATGGTGAACACATGT+TGG 0.698022 1:+19843156 None:intergenic
AGTGCTTCTTAATTCCAGTG+AGG 0.713073 1:+19843115 None:intergenic
AGGGAGTATAGATGTGACTG+TGG 0.716730 1:-19842991 MsaT001419.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 19839018 19843382 19839018 ID=MsaG001419
Chr1 mRNA 19839018 19843382 19839018 ID=MsaT001419.1;Parent=MsaG001419
Chr1 exon 19839018 19839712 19839018 ID=MsaT001419.1.exon3;Parent=MsaT001419.1
Chr1 CDS 19839018 19839712 19839018 ID=cds.MsaT001419.1;Parent=MsaT001419.1
Chr1 exon 19839857 19840035 19839857 ID=MsaT001419.1.exon2;Parent=MsaT001419.1
Chr1 CDS 19839857 19840035 19839857 ID=cds.MsaT001419.1;Parent=MsaT001419.1
Chr1 exon 19842976 19843382 19842976 ID=MsaT001419.1.exon1;Parent=MsaT001419.1
Chr1 CDS 19842976 19843382 19842976 ID=cds.MsaT001419.1;Parent=MsaT001419.1
Gene Sequence

>MsaT001419.1

ATGAAAACAGATCCAGATGCAGAGGTGATAGCACTATCTCCAAAGACCCTAATGGCAACAAACAGATTTGTATGTGAAGTATGTCAAAAAGGGTTTCAAAGGGAGCAAAATTTGCAACTACATAGAAGAGGACACAATTTGCCTTGGAAGCTAAAGCAAAAGAGTAACAAAGAGCCAAAGAGAAAGGTTTATTTGTGTCCAGAACCAACATGTGTTCACCATGACCCTTCAAGGGCTCTTGGTGACCTCACTGGAATTAAGAAGCACTTTTCTAGAAAGCATGGTGAGAAAAAGTGGAAATGTGAAAAGTGTTCTAAGAAATATGCTGTTCAATCTGATTGGAAAGCTCATTCTAAGACTTGTGGTACTAGGGAGTATAGATGTGACTGTGGTACTCTCTTCTCAAGGCGTGACAGTTTCATCACTCATAGGGCATTTTGTGATGCACTAGCACATGAAAATGCAAGACACCCTTCCAACATGAACCCTTTGGCAACTCATCTATTTTCCACAAACCACATGAGTTTAGGTCTATCCCAGATAAGCACCCAACAAGGAGCCACAAACAACAACATATTAAGCCTAGACCTTCATCAAGGACAATTCTCAAACAAACAACTTCATCTTCATCATGGTCTCATGCAACTTCCTGATCTTCAAGGAAATACCAATAACAACACAACTTCTTCGTCGGTATCGCCTTTTAACCTAAGCTTCTTTCCAAATACCAATGGTAACAACACAATGCATGATCAATTCAACAACATAAGTGAATCTCATCATCCTCATCAACATGAAGGTTTTTCTTCACTCTTTGGTAATTCATCAATGCAACAAGAGAACATGTTGTCTTCGCCACACATGTCGGCAACTGCATTGCTTCAAAAAGCTGCTCAAATTGGTTCAACAACAACGACTATCAACAACAGCAATGGTGTAGAATCTGATGAACAACATCAACATCTACATGGTTTGATGAACTCTCTTGGTAATGGAAATACTTCAATATATGATAACAATAATCTTGGTCAGTTTCACAATGTTGAGGAGGAGAATAAAAAGATGCCATCATCATCACAACAAAGTCTAGTTGGTAATTTGTGCTTTGGAGGATCAGATAAATTGACTTTGGATTTTCTTGGTGTTGGAGGAATGGTGAGAAACATGAGTAGTCATAGTGGTGGAGGATTTTCACAAAGAGAGCAGCAACTACACTCCATGAGTGCAATGAACAACATGGATCCTAAATTGGAATCAACACAAGGAAATCAACCTTTTTGA
Protein sequence

>MsaT001419.1

MKTDPDAEVIALSPKTLMATNRFVCEVCQKGFQREQNLQLHRRGHNLPWKLKQKSNKEPKRKVYLCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYAVQSDWKAHSKTCGTREYRCDCGTLFSRRDSFITHRAFCDALAHENARHPSNMNPLATHLFSTNHMSLGLSQISTQQGATNNNILSLDLHQGQFSNKQLHLHHGLMQLPDLQGNTNNNTTSSSVSPFNLSFFPNTNGNNTMHDQFNNISESHHPHQHEGFSSLFGNSSMQQENMLSSPHMSATALLQKAAQIGSTTTTINNSNGVESDEQHQHLHGLMNSLGNGNTSIYDNNNLGQFHNVEEENKKMPSSSQQSLVGNLCFGGSDKLTLDFLGVGGMVRNMSSHSGGGFSQREQQLHSMSAMNNMDPKLESTQGNQPF*