AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG025348

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025348 MtrunA17_Chr5g0400621 89.905 317 23 4 21 331 20 333 5.88e-179 499
MsaG025348 MtrunA17_Chr5g0400641 73.418 158 40 1 155 312 1 156 8.87e-74 226
MsaG025348 MtrunA17_Chr2g0307131 42.938 354 131 13 22 325 18 350 6.29e-65 210
MsaG025348 MtrunA17_Chr4g0033291 45.741 317 127 11 33 322 22 320 6.65e-65 209
MsaG025348 MtrunA17_Chr4g0033391 44.373 311 132 9 33 322 22 312 3.36e-64 207
MsaG025348 MtrunA17_Chr6g0468491 45.538 325 122 15 37 325 3 308 1.54e-63 205
MsaG025348 MtrunA17_Chr4g0054581 42.135 356 131 12 37 325 26 373 2.00e-61 202
MsaG025348 MtrunA17_Chr4g0054621 44.013 309 130 9 44 325 44 336 4.34e-61 199
MsaG025348 MtrunA17_Chr4g0033281 43.730 311 140 9 33 322 21 317 2.26e-60 197
MsaG025348 MtrunA17_Chr2g0307141 50.870 230 89 5 103 325 142 354 1.82e-58 193
MsaG025348 MtrunA17_Chr2g0280161 49.261 203 95 3 132 334 159 353 1.51e-55 186
MsaG025348 MtrunA17_Chr4g0049331 51.042 192 88 3 135 324 118 305 2.67e-54 181
MsaG025348 MtrunA17_Chr5g0400661 49.774 221 83 6 124 324 120 332 4.77e-54 181
MsaG025348 MtrunA17_Chr2g0333621 45.798 238 109 7 97 324 82 309 1.47e-53 179
MsaG025348 MtrunA17_Chr4g0054571 45.956 272 115 8 78 322 59 325 3.01e-52 176
MsaG025348 MtrunA17_Chr7g0225901 52.500 200 78 8 113 308 56 242 1.35e-51 172
MsaG025348 MtrunA17_Chr4g0002801 45.339 236 110 6 97 324 104 328 1.49e-51 174
MsaG025348 MtrunA17_Chr6g0468461 40.994 322 129 11 22 308 18 313 1.78e-51 175
MsaG025348 MtrunA17_Chr2g0333641 40.789 304 144 12 43 333 33 313 1.06e-49 169
MsaG025348 MtrunA17_Chr8g0336681 42.060 233 125 3 97 322 102 331 1.53e-48 167
MsaG025348 MtrunA17_Chr4g0002781 43.651 252 120 7 86 324 105 347 4.17e-48 166
MsaG025348 MtrunA17_Chr4g0054561 39.502 281 154 7 52 324 51 323 5.07e-47 162
MsaG025348 MtrunA17_Chr4g0054551 37.722 281 159 7 52 324 51 323 3.84e-44 155
MsaG025348 MtrunA17_Chr5g0400671 37.011 281 144 7 69 322 45 319 4.24e-44 155
MsaG025348 MtrunA17_Chr2g0333611 43.094 181 93 3 145 322 38 211 3.27e-41 144
MsaG025348 MtrunA17_Chr7g0249811 44.086 186 93 1 137 322 150 324 1.33e-40 146
MsaG025348 MtrunA17_Chr2g0333541 44.898 196 104 3 135 327 75 269 2.48e-40 144
MsaG025348 MtrunA17_Chr4g0002831 45.087 173 81 5 155 326 45 204 5.18e-36 130
MsaG025348 MtrunA17_Chr7g0233441 48.993 149 62 3 175 322 57 192 1.12e-35 129
MsaG025348 MtrunA17_Chr4g0002851 49.324 148 55 2 175 322 65 192 2.41e-34 125
MsaG025348 MtrunA17_Chr1g0185621 29.282 181 121 2 112 286 436 615 1.65e-18 87.0
MsaG025348 MtrunA17_Chr7g0275821 31.548 168 102 4 152 318 252 407 1.67e-16 80.5
MsaG025348 MtrunA17_Chr1g0211081 32.512 203 118 9 47 233 201 400 8.59e-15 75.5
MsaG025348 MtrunA17_Chr8g0366751 33.108 148 90 2 152 290 462 609 1.76e-14 74.7
MsaG025348 MtrunA17_Chr8g0365711 27.368 190 111 4 125 303 225 398 2.92e-14 73.6
MsaG025348 MtrunA17_Chr5g0411341 31.073 177 94 4 152 310 493 659 3.40e-14 73.9
MsaG025348 MtrunA17_Chr8g0346151 31.858 113 75 1 152 262 279 391 3.47e-13 70.5
MsaG025348 MtrunA17_Chr8g0346161 25.701 214 147 5 113 321 256 462 1.27e-12 68.9
MsaG025348 MtrunA17_Chr0c01g0489461 24.490 196 126 5 153 327 197 391 4.46e-12 67.0
MsaG025348 MtrunA17_Chr7g0260841 50.000 56 28 0 152 207 355 410 7.14e-12 66.6
MsaG025348 MtrunA17_Chr7g0252041 28.161 174 107 4 153 312 287 456 2.66e-11 64.7
MsaG025348 MtrunA17_Chr8g0386921 23.585 212 134 3 141 326 395 604 3.16e-11 64.7
MsaG025348 MtrunA17_Chr2g0320291 31.655 139 88 3 154 291 135 267 3.23e-11 63.9
MsaG025348 MtrunA17_Chr7g0270871 44.156 77 42 1 129 204 188 264 7.65e-11 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025348 AT4G37850.2 43.701 254 127 7 85 326 76 325 9.15e-51 173
MsaG025348 AT4G37850.1 43.701 254 127 7 85 326 76 325 9.15e-51 173
MsaG025348 AT2G22750.2 42.623 244 120 7 90 321 62 297 2.24e-42 150
MsaG025348 AT2G22750.3 42.623 244 120 7 90 321 90 325 2.30e-42 151
MsaG025348 AT2G22760.1 42.714 199 92 4 140 322 99 291 2.49e-42 150
MsaG025348 AT2G22750.5 42.623 244 120 7 90 321 86 321 2.58e-42 150
MsaG025348 AT2G22750.4 42.623 244 119 8 90 321 90 324 7.26e-41 147
MsaG025348 AT2G22750.1 42.623 244 119 8 90 321 62 296 7.92e-41 146
MsaG025348 AT2G22770.1 35.463 313 157 8 44 322 14 315 6.78e-40 144
MsaG025348 AT2G22760.2 43.407 182 82 3 140 306 99 274 3.94e-39 141
MsaG025348 AT2G46510.1 35.398 113 49 2 152 262 395 485 8.99e-16 79.3
MsaG025348 AT3G61950.6 33.333 138 88 2 152 287 128 263 1.82e-15 76.6
MsaG025348 AT4G09820.1 32.558 129 65 1 153 281 364 470 1.90e-15 78.2
MsaG025348 AT3G61950.3 33.333 138 88 2 152 287 179 314 2.32e-15 77.0
MsaG025348 AT3G61950.2 33.333 138 88 2 152 287 128 263 4.12e-15 75.9
MsaG025348 AT3G61950.1 33.333 138 88 2 152 287 179 314 4.40e-15 76.3
MsaG025348 AT1G32640.1 32.692 156 103 2 152 307 452 605 4.79e-15 77.0
MsaG025348 AT5G46760.1 30.357 168 100 4 152 310 415 574 6.53e-15 76.6
MsaG025348 AT2G16910.1 32.903 155 84 4 153 287 315 469 8.05e-15 76.3
MsaG025348 AT4G17880.1 31.056 161 104 4 152 310 416 571 3.63e-14 74.3
MsaG025348 AT1G01260.1 27.545 167 97 2 137 303 418 560 4.80e-14 73.9
MsaG025348 AT1G01260.2 27.545 167 97 2 137 303 418 560 4.80e-14 73.9
MsaG025348 AT1G01260.3 27.545 167 97 2 137 303 418 560 4.80e-14 73.9
MsaG025348 AT1G63650.3 28.994 169 99 4 152 302 405 570 4.02e-13 71.2
MsaG025348 AT1G63650.1 28.994 169 99 4 152 302 405 570 4.02e-13 71.2
MsaG025348 AT1G63650.2 28.994 169 99 4 152 302 405 570 4.02e-13 71.2
MsaG025348 AT4G16430.1 42.683 82 44 1 152 230 320 401 1.63e-12 68.9
MsaG025348 AT5G41315.2 29.310 174 97 6 152 302 449 619 1.85e-12 68.9
MsaG025348 AT5G41315.3 29.310 174 97 6 152 302 446 616 1.93e-12 68.9
MsaG025348 AT5G41315.1 29.310 174 97 6 152 302 441 611 2.18e-12 68.9
MsaG025348 AT2G28160.1 27.273 165 104 4 135 291 114 270 3.54e-12 67.0
MsaG025348 AT1G12860.2 31.579 152 100 3 153 300 268 419 4.14e-12 67.4
MsaG025348 AT2G28160.2 27.273 165 104 4 135 291 114 270 4.35e-12 66.6
MsaG025348 AT3G24140.1 25.581 172 99 3 153 298 199 367 4.72e-12 67.4
MsaG025348 AT3G24140.2 25.581 172 99 3 153 298 199 367 4.84e-12 67.4
MsaG025348 AT4G30980.1 28.022 182 111 3 101 272 82 253 6.13e-12 66.2
MsaG025348 AT1G12860.1 31.579 152 100 3 153 300 268 419 6.56e-12 67.0
MsaG025348 AT4G30980.2 28.022 182 111 3 101 272 130 301 1.46e-11 65.5
MsaG025348 AT2G46810.4 27.128 188 116 4 153 330 123 299 4.78e-11 63.9

Find 68 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTATCCTTTAGAAAAGAATT+TGG 0.226485 5:+7036177 MsaT025348.1:CDS
CTAATACCCTCAAACGTTCT+TGG 0.234491 5:-7038771 None:intergenic
AATAACAGTGTCCTACCTTT+TGG 0.259096 5:+7039039 MsaT025348.1:CDS
GCTCTAGCTGCTCTTATTCC+TGG 0.270587 5:+7036460 MsaT025348.1:CDS
TCTTTCTCTCTGCTATGATA+TGG 0.318056 5:-7036408 None:intergenic
GTTCCAGCTATTGGAAGAAA+TGG 0.343234 5:+7036006 MsaT025348.1:intron
CACATCCTTGTCCAAAACTT+TGG 0.362806 5:-7038932 None:intergenic
GGACGTGGTGGGTTGTGTTT+CGG 0.364752 5:+7043266 MsaT025348.1:CDS
TTCTCGCCGGCGACTTTACA+TGG 0.370147 5:+7043244 MsaT025348.1:CDS
ACATGTAGAAGCCAAAGTTT+TGG 0.403189 5:+7038921 MsaT025348.1:CDS
GGTAATTGTGTTTGTGAGAA+TGG 0.404374 5:-7036289 None:intergenic
GAGGTCTGTGGCTCATAATC+AGG 0.412438 5:+7036384 MsaT025348.1:CDS
GAGAACGTCGGAGGAGGGTT+AGG 0.416223 5:-7043226 None:intergenic
CAACGTGAACAAAACTTGTA+TGG 0.426153 5:+7036055 MsaT025348.1:CDS
TGGACAAGGATGTGCTCATA+AGG 0.429386 5:+7038941 MsaT025348.1:CDS
ATTGGAAGAAATGGAAATAG+AGG 0.434159 5:+7036015 MsaT025348.1:CDS
TAGTCATGTTCAGTCTACTA+TGG 0.438686 5:+7038813 MsaT025348.1:CDS
ATGGACAAGGCTTCAGTCCT+AGG 0.441208 5:+7038721 MsaT025348.1:CDS
GTTGTGTTTCGGTTTCTTGA+CGG 0.451196 5:+7043277 MsaT025348.1:CDS
GGTTTGAGAGGAGGAGAAAG+AGG 0.456005 5:+7033009 MsaT025348.1:CDS
AAGATAACAAAGGTTGATGT+TGG 0.458857 5:-7036135 None:intergenic
TGATATAACCATCGTTGCTC+AGG 0.464649 5:+7039074 MsaT025348.1:CDS
GATCCACTGCCAAAAGCAAA+AGG 0.466058 5:+7038963 MsaT025348.1:CDS
CAATTACCTCGAAATAGAAA+AGG 0.474445 5:+7036304 MsaT025348.1:CDS
GGAGGAGAAAGAGGAACAAG+AGG 0.480040 5:+7033018 MsaT025348.1:CDS
GCCGGCGAGAACGTCGGAGG+AGG 0.486200 5:-7043232 None:intergenic
TAATAGTACAATTCCTTGGT+AGG 0.486521 5:+7035654 MsaT025348.1:intron
GTCGGAGGAGGGTTAGGAAA+TGG 0.492692 5:-7043220 None:intergenic
TCTTATTCCTGGCTTGAAGA+AGG 0.494711 5:+7036471 MsaT025348.1:CDS
GTGATTATGGGTTTGAGAGG+AGG 0.494759 5:+7033000 None:intergenic
ATTATGAGCCACAGACCTCT+TGG 0.506300 5:-7036380 None:intergenic
CGAGTGATTATGGGTTTGAG+AGG 0.513522 5:+7032997 None:intergenic
CCATATACCTTCTTCAAGCC+AGG 0.514414 5:-7036478 None:intergenic
CGTACTTGATTGCATCTCCT+AGG 0.518134 5:-7038738 None:intergenic
AAGAGCTCCAAGAACGTTTG+AGG 0.518931 5:+7038764 MsaT025348.1:CDS
AATAGTACAATTCCTTGGTA+GGG 0.525459 5:+7035655 MsaT025348.1:intron
GACTTTACATGGGACGTGGT+GGG 0.547942 5:+7043255 MsaT025348.1:CDS
AAAACTTTGGCTTCTACATG+TGG 0.548591 5:-7038919 None:intergenic
AATTACCTCGAAATAGAAAA+GGG 0.550335 5:+7036305 MsaT025348.1:CDS
GAGCAACGATGGTTATATCA+AGG 0.552186 5:-7039071 None:intergenic
CGACTTTACATGGGACGTGG+TGG 0.562110 5:+7043254 MsaT025348.1:CDS
CCCTCCTCCGACGTTCTCGC+CGG 0.563566 5:+7043231 MsaT025348.1:CDS
AGAGCTCCAAGAACGTTTGA+GGG 0.570082 5:+7038765 MsaT025348.1:CDS
CCGGCGAGAACGTCGGAGGA+GGG 0.574137 5:-7043231 None:intergenic
CGGCGACTTTACATGGGACG+TGG 0.574768 5:+7043251 MsaT025348.1:CDS
TCAAGGATAGAATCCCCAAA+AGG 0.575129 5:-7039054 None:intergenic
ATCCACTGCCAAAAGCAAAA+GGG 0.579077 5:+7038964 MsaT025348.1:CDS
ACAACATTGTACGAGAAGAA+AGG 0.579497 5:-7043187 None:intergenic
GATGAGTCAGAACTTAGTTG+TGG 0.581816 5:-7038850 None:intergenic
CACGTCCCATGTAAAGTCGC+CGG 0.582380 5:-7043250 None:intergenic
TTTATTTACCTGAGCAACGA+TGG 0.591261 5:-7039082 None:intergenic
ACTACAAAGTCACAAGGACA+AGG 0.603785 5:+7036355 MsaT025348.1:CDS
GGATAGAATCCCCAAAAGGT+AGG 0.609941 5:-7039050 None:intergenic
TGTTCAGTCTACTATGGTGA+CGG 0.619847 5:+7038819 MsaT025348.1:CDS
TCTCGCCGGCGACTTTACAT+GGG 0.621088 5:+7043245 MsaT025348.1:CDS
GGAGGGTTAGGAAATGGTCT+CGG 0.626341 5:-7043214 None:intergenic
TTACTTCGAGGTCCCTACCA+AGG 0.630163 5:-7035667 None:intergenic
AAACTTTGGCTTCTACATGT+GGG 0.634166 5:-7038918 None:intergenic
TTGGAAGAAATGGAAATAGA+GGG 0.635754 5:+7036016 MsaT025348.1:CDS
TAGCTTTCAGAAGATAACAA+AGG 0.638184 5:-7036145 None:intergenic
GTCGCCGGCGAGAACGTCGG+AGG 0.640985 5:-7043235 None:intergenic
CACAAGGACAAGGGACCAAG+AGG 0.647237 5:+7036365 MsaT025348.1:CDS
ACAAGGGACCAAGAGGTCTG+TGG 0.659567 5:+7036372 MsaT025348.1:CDS
GATGATTCTGAAGCTGCTAG+TGG 0.660614 5:+7038880 MsaT025348.1:CDS
AAAGTCGCCGGCGAGAACGT+CGG 0.674579 5:-7043238 None:intergenic
CTACAAAGTCACAAGGACAA+GGG 0.698526 5:+7036356 MsaT025348.1:CDS
GTTGAAACTACAAAGTCACA+AGG 0.718556 5:+7036349 MsaT025348.1:CDS
GGGTTAGGAAATGGTCTCGG+CGG 0.724025 5:-7043211 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 7033006 7043309 7033006 ID=MsaG025348
Chr5 mRNA 7033006 7043309 7033006 ID=MsaT025348.1;Parent=MsaG025348
Chr5 exon 7033006 7033039 7033006 ID=MsaT025348.1.exon1;Parent=MsaT025348.1
Chr5 CDS 7033006 7033039 7033006 ID=cds.MsaT025348.1;Parent=MsaT025348.1
Chr5 exon 7035660 7035685 7035660 ID=MsaT025348.1.exon2;Parent=MsaT025348.1
Chr5 CDS 7035660 7035685 7035660 ID=cds.MsaT025348.1;Parent=MsaT025348.1
Chr5 exon 7036013 7036492 7036013 ID=MsaT025348.1.exon3;Parent=MsaT025348.1
Chr5 CDS 7036013 7036492 7036013 ID=cds.MsaT025348.1;Parent=MsaT025348.1
Chr5 exon 7038721 7039095 7038721 ID=MsaT025348.1.exon4;Parent=MsaT025348.1
Chr5 CDS 7038721 7039095 7038721 ID=cds.MsaT025348.1;Parent=MsaT025348.1
Chr5 exon 7041108 7041156 7041108 ID=MsaT025348.1.exon5;Parent=MsaT025348.1
Chr5 CDS 7041108 7041156 7041108 ID=cds.MsaT025348.1;Parent=MsaT025348.1
Chr5 exon 7043158 7043309 7043158 ID=MsaT025348.1.exon6;Parent=MsaT025348.1
Chr5 CDS 7043158 7043309 7043158 ID=cds.MsaT025348.1;Parent=MsaT025348.1
Gene Sequence

>MsaT025348.1

ATGGGTTTGAGAGGAGGAGAAAGAGGAACAAGAGTACAATTCCTTGGTAGGGACCTCGAACTATTGGAAGAAATGGAAATAGAGGGTTGTGATTTGTTTCAACAACGTGAACAAAACTTGTATGGTGAAGAAGAGTTTCTTTCACATGACATAGAAAGTATTTTTCAACAAGAGGAAAATTTCCAACATCAACCTTTGTTATCTTCTGAAAGCTATTCTTCTTCTTATCCTTTAGAAAAGAATTTGGAAAGACCAAACAAAAAATTGAAAAAAAACACTACTTCTCAGATTCTGTCTTTTGACTGTACCTTAAATACAAAAAAGAACAAGGTTGTTCCATTCTCACAAACACAATTACCTCGAAATAGAAAAGGGTCATTGCAAAAACAAAACATTGTTGAAACTACAAAGTCACAAGGACAAGGGACCAAGAGGTCTGTGGCTCATAATCAGGACCATATCATAGCAGAGAGAAAGAGAAGAGAGAAACTCAGTCAGTGCTTAATTGCTCTAGCTGCTCTTATTCCTGGCTTGAAGAAGATGGACAAGGCTTCAGTCCTAGGAGATGCAATCAAGTACGTGAAAGAGCTCCAAGAACGTTTGAGGGTATTAGAAGAACAAAACAAAAATAATAGTCATGTTCAGTCTACTATGGTGACGGTTGATGAACCACAACTAAGTTCTGACTCATCAAACAATGATGATTCTGAAGCTGCTAGTGGTAATAATGAAACTCTCCCACATGTAGAAGCCAAAGTTTTGGACAAGGATGTGCTCATAAGGATCCACTGCCAAAAGCAAAAGGGACTTTTGCTCAAAATATTGGTCGAGATTCAAAAGCTTCATCTCTTTGTTGTTAATAACAGTGTCCTACCTTTTGGGGATTCTATCCTTGATATAACCATCGTTGCTCAGATGGGAACGGGGTACAACTTGACCAGAAATGATCTTGTGAAAAAGCTACGTGGGGTTGCTTCTATTTCGTCGTTCTCTCCTTTCTTCTCGTACAATGTTGTGCCGCCGAGACCATTTCCTAACCCTCCTCCGACGTTCTCGCCGGCGACTTTACATGGGACGTGGTGGGTTGTGTTTCGGTTTCTTGACGGTTTGATCTGA
Protein sequence

>MsaT025348.1

MGLRGGERGTRVQFLGRDLELLEEMEIEGCDLFQQREQNLYGEEEFLSHDIESIFQQEENFQHQPLLSSESYSSSYPLEKNLERPNKKLKKNTTSQILSFDCTLNTKKNKVVPFSQTQLPRNRKGSLQKQNIVETTKSQGQGTKRSVAHNQDHIIAERKRREKLSQCLIALAALIPGLKKMDKASVLGDAIKYVKELQERLRVLEEQNKNNSHVQSTMVTVDEPQLSSDSSNNDDSEAASGNNETLPHVEAKVLDKDVLIRIHCQKQKGLLLKILVEIQKLHLFVVNNSVLPFGDSILDITIVAQMGTGYNLTRNDLVKKLRGVASISSFSPFFSYNVVPPRPFPNPPPTFSPATLHGTWWVVFRFLDGLI*