AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG017992


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG017992 MtrunA17_Chr4g0001831 95.526 380 10 1 1 380 1 373 0.0 737
MsaG017992 MtrunA17_Chr2g0286191 37.158 366 218 5 14 378 6 360 1.41e-68 220
MsaG017992 MtrunA17_Chr4g0067121 34.835 333 209 5 45 375 52 378 1.01e-58 195
MsaG017992 MtrunA17_Chr4g0067671 32.641 337 213 5 27 360 30 355 1.83e-57 191
MsaG017992 MtrunA17_Chr2g0296301 29.851 335 226 3 43 374 35 363 2.02e-53 181
MsaG017992 MtrunA17_Chr2g0296121 33.148 359 226 7 22 375 105 454 3.98e-53 182
MsaG017992 MtrunA17_Chr4g0067141 32.877 365 225 6 22 379 23 374 6.72e-53 179
MsaG017992 MtrunA17_Chr2g0295761 33.526 346 210 6 36 374 54 386 3.88e-52 178
MsaG017992 MtrunA17_Chr2g0295731 30.939 362 240 6 17 375 21 375 6.53e-50 172
MsaG017992 MtrunA17_Chr2g0296151 30.811 370 245 6 11 375 5 368 6.77e-49 169
MsaG017992 MtrunA17_Chr2g0296111 32.861 353 217 9 13 356 9 350 6.76e-48 167
MsaG017992 MtrunA17_Chr2g0295741 30.423 355 235 6 24 375 29 374 7.29e-47 164
MsaG017992 MtrunA17_Chr2g0296191 32.011 378 243 8 1 375 142 508 8.42e-47 171
MsaG017992 MtrunA17_Chr2g0296191 31.564 358 235 6 24 374 640 994 6.12e-45 166
MsaG017992 MtrunA17_Chr2g0296291 29.067 375 223 5 39 375 27 396 5.09e-46 162
MsaG017992 MtrunA17_Chr2g0296711 29.970 337 228 6 46 378 55 387 7.38e-45 160
MsaG017992 MtrunA17_Chr2g0296171 29.288 379 252 8 15 380 23 398 5.64e-44 157
MsaG017992 MtrunA17_Chr2g0296221 30.028 363 242 7 22 375 53 412 1.00e-43 157
MsaG017992 MtrunA17_Chr2g0296231 30.422 332 223 5 46 374 51 377 2.93e-43 155
MsaG017992 MtrunA17_Chr2g0296251 28.947 380 225 8 35 375 23 396 3.22e-43 154
MsaG017992 MtrunA17_Chr2g0296721 30.435 368 243 8 15 374 17 379 3.57e-42 152
MsaG017992 MtrunA17_Chr2g0296741 29.620 368 247 8 15 374 37 400 5.18e-42 152
MsaG017992 MtrunA17_Chr2g0315731 30.707 368 243 8 15 374 37 400 6.30e-42 152
MsaG017992 MtrunA17_Chr2g0296181 28.412 359 220 8 22 375 29 355 1.38e-35 134
MsaG017992 MtrunA17_Chr8g0377801 24.927 341 236 3 36 375 64 385 6.36e-31 121
MsaG017992 MtrunA17_Chr2g0286221 37.888 161 98 2 219 379 13 171 1.01e-29 113
MsaG017992 MtrunA17_Chr8g0377781 27.485 342 238 5 44 380 41 377 2.36e-29 117
MsaG017992 MtrunA17_Chr2g0296131 31.169 154 106 0 222 375 7 160 2.27e-22 93.2
MsaG017992 MtrunA17_Chr2g0296161 29.605 152 107 0 224 375 5 156 4.61e-21 89.4
MsaG017992 MtrunA17_Chr2g0295711 37.143 175 103 5 27 198 30 200 6.42e-21 90.1
MsaG017992 MtrunA17_Chr2g0296551 30.220 182 123 3 195 375 4 182 4.90e-20 87.4
MsaG017992 MtrunA17_Chr2g0296211 28.767 219 135 6 177 375 139 356 4.90e-20 90.5
MsaG017992 MtrunA17_Chr2g0295721 34.746 118 77 0 221 338 2 119 2.57e-16 74.7
MsaG017992 MtrunA17_Chr2g0296561 37.209 129 75 2 18 145 15 138 6.22e-15 71.6
MsaG017992 MtrunA17_Chr2g0296701 29.221 154 107 2 223 375 2 154 2.40e-14 70.9
MsaG017992 MtrunA17_Chr2g0296751 28.346 127 91 0 249 375 1 127 2.85e-13 67.4
MsaG017992 MtrunA17_Chr2g0295751 32.624 141 92 2 32 169 35 175 2.13e-12 68.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG017992 AT5G07900.1 41.176 340 197 3 37 374 61 399 2.67e-88 273
MsaG017992 AT1G21150.1 33.693 371 239 4 10 374 17 386 2.69e-61 202
MsaG017992 AT1G21150.2 33.693 371 239 4 10 374 81 450 1.20e-60 202
MsaG017992 AT1G21150.3 34.000 350 222 4 33 374 2 350 2.45e-59 196
MsaG017992 AT1G62120.1 30.179 391 226 7 14 360 18 405 3.77e-43 155
MsaG017992 AT1G61980.3 29.412 357 210 5 41 360 48 399 9.57e-40 146
MsaG017992 AT1G61980.2 29.412 357 210 5 41 360 48 399 9.57e-40 146
MsaG017992 AT1G61980.1 29.412 357 210 5 41 360 48 399 9.57e-40 146
MsaG017992 AT1G61970.2 28.650 363 207 7 41 361 48 400 1.02e-39 146
MsaG017992 AT1G61970.7 28.650 363 207 7 41 361 48 400 1.02e-39 146
MsaG017992 AT1G61970.6 28.650 363 207 7 41 361 48 400 1.02e-39 146
MsaG017992 AT1G61970.3 28.650 363 207 7 41 361 48 400 1.02e-39 146
MsaG017992 AT1G61970.5 28.650 363 207 7 41 361 48 400 1.02e-39 146
MsaG017992 AT1G61970.4 28.650 363 207 7 41 361 48 400 1.02e-39 146
MsaG017992 AT1G61970.1 28.650 363 207 7 41 361 48 400 1.02e-39 146
MsaG017992 AT1G61990.2 28.052 385 226 6 27 371 32 405 1.30e-39 145
MsaG017992 AT1G61990.1 28.052 385 226 6 27 371 32 405 1.30e-39 145
MsaG017992 AT3G46950.1 32.226 301 188 6 14 309 18 307 9.06e-38 141
MsaG017992 AT5G23930.1 29.120 443 222 10 7 370 12 441 5.53e-36 137
MsaG017992 AT1G62010.1 29.282 362 192 9 42 361 45 384 6.18e-36 135
MsaG017992 AT1G62150.1 31.900 279 175 5 35 307 48 317 1.32e-33 130
MsaG017992 AT1G62085.1 32.248 307 185 8 14 307 18 314 1.78e-32 127
MsaG017992 AT1G62085.2 32.248 307 185 8 14 307 18 314 1.78e-32 127
MsaG017992 AT1G61960.1 33.577 274 173 6 27 296 32 300 1.47e-31 124
MsaG017992 AT1G62110.1 31.633 294 174 7 27 307 32 311 3.70e-31 123
MsaG017992 AT5G64950.1 29.221 308 207 5 77 375 71 376 1.16e-30 121
MsaG017992 AT1G56380.1 23.161 367 231 11 39 361 10 369 2.14e-18 86.3
MsaG017992 AT1G56380.2 23.161 367 231 11 39 361 21 380 2.72e-18 86.3
MsaG017992 AT1G62490.1 27.341 267 150 7 30 296 83 305 2.66e-15 76.6

Find 66 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCAACCTTGTTGAAAGTTTA+AGG 0.085452 4:-1934697 None:intergenic
GAAAGATTTGCCATTGTTAT+TGG 0.156741 4:+1935603 MsaT017992.1:CDS
CTTGTCACCAATCAAGATTT+TGG 0.169173 4:-1934903 None:intergenic
TAAGTATGGACAAAGAAATT+TGG 0.197332 4:+1935251 MsaT017992.1:CDS
TATGAAAACAATGGACTTCT+TGG 0.234883 4:+1935378 MsaT017992.1:CDS
GAATGCTACACAAGGAAAAT+TGG 0.258902 4:-1935131 None:intergenic
CCTAGTTTGCGATGATAAAA+AGG 0.296431 4:+1934982 MsaT017992.1:CDS
TTCCTCACTTGTCATAATAA+AGG 0.304109 4:-1935548 None:intergenic
AAAGAACAGTAGTTGAATAA+AGG 0.305931 4:-1934556 None:intergenic
AATGGCAAATCTTTCTGAAA+TGG 0.311445 4:-1935595 None:intergenic
AAAAGCTGAATAACAGCATT+TGG 0.312391 4:-1934740 None:intergenic
ATAACAGCATTTGGGCCATT+AGG 0.321633 4:-1934731 None:intergenic
ACAGCAGAGAAAAGTGAAAA+AGG 0.329234 4:-1934593 None:intergenic
AAGTATGGACAAAGAAATTT+GGG 0.343578 4:+1935252 MsaT017992.1:CDS
GATTTCCCCAAAATCTTGAT+TGG 0.348520 4:+1934896 MsaT017992.1:CDS
TCAAAGTTCTATTTCCAGTT+TGG 0.350471 4:+1935105 MsaT017992.1:CDS
TAACAGCATTTGGGCCATTA+GGG 0.351944 4:-1934730 None:intergenic
GTTAATTCAGTCAAAGAAAT+GGG 0.354117 4:+1935181 MsaT017992.1:CDS
GGGCATGTAGCAATGTCTTC+TGG 0.354285 4:-1935421 None:intergenic
TCACATACTCAGGATACTTT+AGG 0.366731 4:-1935336 None:intergenic
ATGGCAAATCTTTCTGAAAT+GGG 0.369413 4:-1935594 None:intergenic
CAACCTTGTTGAAAGTTTAA+GGG 0.375048 4:-1934696 None:intergenic
ATCTTGATAACAGCACATTT+AGG 0.385800 4:-1935481 None:intergenic
AGGAAAATTGGATACCAAAC+TGG 0.392789 4:-1935119 None:intergenic
ACAACCCACATGAGTTTATG+AGG 0.423242 4:-1934661 None:intergenic
AAGTGTCTTCTCCAAGTTGC+GGG 0.424163 4:-1935455 None:intergenic
AAGAACAGTAGTTGAATAAA+GGG 0.427774 4:-1934555 None:intergenic
TCCAACACAAATCAACATAA+AGG 0.430035 4:+1934617 MsaT017992.1:CDS
TAGCTTTGAGGCGTGGATCA+TGG 0.435733 4:+1935011 MsaT017992.1:CDS
GATTCGAGTAATTGTAAGTA+TGG 0.436929 4:+1935237 MsaT017992.1:CDS
TGTTAATTCAGTCAAAGAAA+TGG 0.438009 4:+1935180 MsaT017992.1:CDS
TTCCTCAAAACCTCAATGTT+CGG 0.445259 4:-1935070 None:intergenic
AAAAGGTAGTTCTAGCTTTG+AGG 0.445792 4:+1934999 MsaT017992.1:CDS
CTCAACAAATCTAGAATGCT+TGG 0.457146 4:-1935155 None:intergenic
ACCTTTATGTTGATTTGTGT+TGG 0.460913 4:-1934618 None:intergenic
AAGTTGCGGGTCAGAATCCC+AGG 0.461038 4:-1935442 None:intergenic
AAAGCTGAATAACAGCATTT+GGG 0.472696 4:-1934739 None:intergenic
TCAAGAGGTTTAATAAAGAG+TGG 0.472917 4:+1935511 MsaT017992.1:CDS
GAAGACATTGCTACATGCCC+TGG 0.473610 4:+1935424 MsaT017992.1:CDS
CAAAAGGGTGTTTCTTAACA+AGG 0.481935 4:-1934799 None:intergenic
TTGCAACTCATAAACCCTAA+TGG 0.484587 4:+1934716 MsaT017992.1:CDS
GGACTTCTTGGTGAAGGATG+TGG 0.492155 4:+1935390 MsaT017992.1:CDS
TATGAGGTTTGACAATGTAA+AGG 0.499828 4:-1934645 None:intergenic
TGGGATTCTGACCCGCAACT+TGG 0.503137 4:+1935444 MsaT017992.1:CDS
ATCAATGGTTGAAGCCCCAA+TGG 0.538102 4:-1934876 None:intergenic
CAAGCATTCTAGATTTGTTG+AGG 0.552143 4:+1935156 MsaT017992.1:CDS
GACTTCTTGGTGAAGGATGT+GGG 0.555487 4:+1935391 MsaT017992.1:CDS
GCAATGAGAAAATGATACAT+TGG 0.568531 4:-1934509 None:intergenic
AAAACAAAATACAACTTCGA+AGG 0.568698 4:-1935211 None:intergenic
TCTGAGATCATCACATACTC+AGG 0.569253 4:-1935346 None:intergenic
TGATTCTGTTCCGAACATTG+AGG 0.570760 4:+1935060 MsaT017992.1:CDS
TCAAACCTCATAAACTCATG+TGG 0.578097 4:+1934656 MsaT017992.1:CDS
GTAGTTCTAGCTTTGAGGCG+TGG 0.585169 4:+1935004 MsaT017992.1:CDS
AACAATGGACTTCTTGGTGA+AGG 0.587900 4:+1935384 MsaT017992.1:CDS
AAGACATTGCTACATGCCCT+GGG 0.601471 4:+1935425 MsaT017992.1:CDS
CAAGTGTCTTCTCCAAGTTG+CGG 0.602943 4:-1935456 None:intergenic
AAACTGGAAATAGAACTTTG+AGG 0.609479 4:-1935103 None:intergenic
TACCTTTATTATGACAAGTG+AGG 0.612836 4:+1935546 MsaT017992.1:CDS
TGGCAAATCTTTCTGAAATG+GGG 0.627523 4:-1935593 None:intergenic
TTATATGCATCCAATAACAA+TGG 0.629215 4:-1935613 None:intergenic
TTAATTCAGTCAAAGAAATG+GGG 0.635626 4:+1935182 MsaT017992.1:CDS
CGGAACAGAATCATTAACCA+TGG 0.638798 4:-1935050 None:intergenic
CAAACCTCATAAACTCATGT+GGG 0.639091 4:+1934657 MsaT017992.1:CDS
AAGCCCTTAAACTTTCAACA+AGG 0.642886 4:+1934693 MsaT017992.1:CDS
TGCTTGGTGAATGCTACACA+AGG 0.683625 4:-1935139 None:intergenic
AGTTGCGGGTCAGAATCCCA+GGG 0.702455 4:-1935441 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 1934512 1935654 1934512 ID=MsaG017992
Chr4 mRNA 1934512 1935654 1934512 ID=MsaT017992.1;Parent=MsaG017992
Chr4 exon 1934512 1935654 1934512 ID=MsaT017992.1.exon1;Parent=MsaT017992.1
Chr4 CDS 1934512 1935654 1934512 ID=cds.MsaT017992.1;Parent=MsaT017992.1
Gene Sequence

>MsaT017992.1

ATGTATCATTTTCTCATTGCTAGATTCACTCATACTCATAGAACCCTTTATTCAACTACTGTTCTTTATCACAGACACAATCCTTTTTCACTTTTCTCTGCTGTTTCCAACACAAATCAACATAAAGGTGACACCTTTACATTGTCAAACCTCATAAACTCATGTGGGTTGTCTCCTGAAAAAGCCCTTAAACTTTCAACAAGGTTGCAACTCATAAACCCTAATGGCCCAAATGCTGTTATTCAGCTTTTCAGAAGCTATGGTTTCTCTGATTCTCAGTTATCAAGCCTTGTTAAGAAACACCCTTTTGTACTTTTATCAAAATCTGATAAGACCCTTTTGCCAAAACTCAAGTTTTTGCAATCCATTGGGGCTTCAACCATTGATTTCCCCAAAATCTTGATTGGTGACAAGTTTTTGACAGCAAGCTTGGAGAAAACGATAATACCTCGTTACAAGATTCTTAAAAGCCTAGTTTGCGATGATAAAAAGGTAGTTCTAGCTTTGAGGCGTGGATCATGGAACTTTTACAATGATTCCATGGTTAATGATTCTGTTCCGAACATTGAGGTTTTGAGGAAGCTTGGTGTGCCTCAAAGTTCTATTTCCAGTTTGGTATCCAATTTTCCTTGTGTAGCATTCACCAAGCATTCTAGATTTGTTGAGGCTGTTAATTCAGTCAAAGAAATGGGGTTCAATCCTTCGAAGTTGTATTTTGTTTTGGCGATTCGAGTAATTGTAAGTATGGACAAAGAAATTTGGGAATCAAAATTTAAGATTTTCGAGAGGTGGGGCTGGTCAAGAGATATTTGTCGTTTCGCTTTCCTAAAGTATCCTGAGTATGTGATGATCTCAGAGAAAAAAATTATGAAAACAATGGACTTCTTGGTGAAGGATGTGGGTCTTACACCAGAAGACATTGCTACATGCCCTGGGATTCTGACCCGCAACTTGGAGAAGACACTTGTACCTAAATGTGCTGTTATCAAGATTTTGAAGTCAAGAGGTTTAATAAAGAGTGGTTTGCGTGTAAGTACCTTTATTATGACAAGTGAGGAAAAGTTTGTGCAGAAATATGTGACCCCATTTCAGAAAGATTTGCCATTGTTATTGGATGCATATAAAGTTCAGAAATCAGATTGA

Protein sequence

>MsaT017992.1

MYHFLIARFTHTHRTLYSTTVLYHRHNPFSLFSAVSNTNQHKGDTFTLSNLINSCGLSPEKALKLSTRLQLINPNGPNAVIQLFRSYGFSDSQLSSLVKKHPFVLLSKSDKTLLPKLKFLQSIGASTIDFPKILIGDKFLTASLEKTIIPRYKILKSLVCDDKKVVLALRRGSWNFYNDSMVNDSVPNIEVLRKLGVPQSSISSLVSNFPCVAFTKHSRFVEAVNSVKEMGFNPSKLYFVLAIRVIVSMDKEIWESKFKIFERWGWSRDICRFAFLKYPEYVMISEKKIMKTMDFLVKDVGLTPEDIATCPGILTRNLEKTLVPKCAVIKILKSRGLIKSGLRVSTFIMTSEEKFVQKYVTPFQKDLPLLLDAYKVQKSD*