AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180004672.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180004672.01.T01 MTR_1g084200 98.266 173 2 1 29 200 1 173 1.27e-109 311
MsG0180004672.01.T01 MTR_7g111900 65.143 175 53 2 29 200 1 170 1.98e-73 219
MsG0180004672.01.T01 MTR_7g103200 67.516 157 46 1 29 185 1 152 1.21e-71 214
MsG0180004672.01.T01 MTR_2g019480 47.692 130 68 0 39 168 15 144 5.23e-41 137
MsG0180004672.01.T01 MTR_4g122930 48.299 147 71 3 29 173 1 144 1.32e-38 130
MsG0180004672.01.T01 MTR_2g046150 45.588 136 73 1 30 165 6 140 2.20e-36 125
MsG0180004672.01.T01 MTR_2g091215 46.512 129 69 0 37 165 4 132 2.02e-30 108
MsG0180004672.01.T01 MTR_2g091210 41.270 126 74 0 42 167 9 134 7.01e-30 107
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180004672.01.T01 AT1G56580 60.241 166 65 1 29 193 1 166 3.14e-65 198
MsG0180004672.01.T01 AT1G09310 57.303 178 68 2 29 199 1 177 4.30e-64 196
MsG0180004672.01.T01 AT5G46230 43.846 130 73 0 37 166 11 140 2.96e-37 126
MsG0180004672.01.T01 AT4G24130 41.549 142 83 0 37 178 13 154 1.28e-36 125
MsG0180004672.01.T01 AT5G49600 45.517 145 69 3 31 166 1 144 9.33e-34 119
MsG0180004672.01.T01 AT1G30020 47.959 98 51 0 41 138 15 112 4.21e-30 108

Find 47 sgRNAs with CRISPR-Local

Find 53 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTATGTCCTTCAAAGGTAAA+AGG 0.309948 1:-81071317 None:intergenic
TGAGATAGAAGGAGAAGTTA+AGG 0.310033 1:+81071617 MsG0180004672.01.T01:CDS
TCCATTGTATACCTCTGATT+TGG 0.345924 1:-81071235 None:intergenic
GTTGATAGGCTTGTGACTTA+TGG 0.355562 1:+81071417 MsG0180004672.01.T01:CDS
ATCACATTCAGGGCTATTAC+AGG 0.368505 1:+81071564 MsG0180004672.01.T01:CDS
CAACTGGTAAAATCACATTC+AGG 0.368809 1:+81071553 MsG0180004672.01.T01:CDS
TAGAAGAATGTGGATATCAT+AGG 0.386766 1:+81071337 MsG0180004672.01.T01:CDS
ACAAGTTTGAGAAAGTTGAT+AGG 0.420157 1:+81071403 MsG0180004672.01.T01:CDS
GGTAAGATCAAGAAGCTAAC+TGG 0.432806 1:+81071468 MsG0180004672.01.T01:CDS
TATTTCCAAGAGAAGTTCCT+TGG 0.437882 1:-81071280 None:intergenic
AGGTGAAGGAGCTCTTGGTT+TGG 0.449978 1:+81071496 MsG0180004672.01.T01:CDS
AAAGTCCAAGGAACTTCTCT+TGG 0.460248 1:+81071275 MsG0180004672.01.T01:CDS
GAAGTTCCTTGGACTTTGCT+TGG 0.463735 1:-81071269 None:intergenic
ACAGCAGCAGCAGTAGCAGC+AGG 0.477244 1:-81071684 None:intergenic
CAGTTGGTGGATCATCCAAC+TGG 0.480486 1:-81071536 None:intergenic
TTCAAAGGTAAAAGGCCATT+GGG 0.484390 1:-81071309 None:intergenic
TGTGAAGGTGAAGGAGCTCT+TGG 0.487405 1:+81071491 MsG0180004672.01.T01:CDS
TCTATCTCAAAAGCTGAGGC+AGG 0.495029 1:-81071603 None:intergenic
CAGTTGGATGATCCACCAAC+TGG 0.513052 1:+81071537 MsG0180004672.01.T01:CDS
CTTCAAAGGTAAAAGGCCAT+TGG 0.515656 1:-81071310 None:intergenic
AGGAGAAGTTAAGGATGTGA+AGG 0.516179 1:+81071626 MsG0180004672.01.T01:CDS
CATTCTTCTATGTCCTTCAA+AGG 0.524774 1:-81071324 None:intergenic
AACTGGTAAAATCACATTCA+GGG 0.526250 1:+81071554 MsG0180004672.01.T01:CDS
ATGATGATCATGAAGGATGA+AGG 0.529234 1:-81071133 None:intergenic
TGTGGATATCATAGGGAGAG+TGG 0.541120 1:+81071345 MsG0180004672.01.T01:CDS
AAGGTAAAAGGCCATTGGGT+AGG 0.553037 1:-81071305 None:intergenic
AGAAGAATGTGGATATCATA+GGG 0.557026 1:+81071338 MsG0180004672.01.T01:CDS
TCCACTGCATGAAATCCAGT+TGG 0.581202 1:+81071521 MsG0180004672.01.T01:CDS
CAAGAAGCTAACTGGTGTGA+AGG 0.582814 1:+81071476 MsG0180004672.01.T01:CDS
TGATTTGGCTCTGATCTCAT+CGG 0.588078 1:-81071220 None:intergenic
GCTAACTGGTGTGAAGGTGA+AGG 0.589102 1:+81071482 MsG0180004672.01.T01:CDS
TCCAACTGGATTTCATGCAG+TGG 0.601299 1:-81071522 None:intergenic
TGCTGCTGTTGAAGTCAAAG+AGG 0.615559 1:+81071698 MsG0180004672.01.T01:CDS
GCCAAATCAGAGGTATACAA+TGG 0.617305 1:+81071234 MsG0180004672.01.T01:CDS
TGAAGTTACTGCCACTGTTG+AGG 0.621958 1:+81071443 MsG0180004672.01.T01:CDS
CTATCTCAAAAGCTGAGGCA+GGG 0.624154 1:-81071602 None:intergenic
TCCTTCTATCTCAAAAGCTG+AGG 0.629108 1:-81071607 None:intergenic
TGATGATCATGAAGGATGAA+GGG 0.629709 1:-81071132 None:intergenic
TTGAAGGACATAGAAGAATG+TGG 0.634606 1:+81071327 MsG0180004672.01.T01:CDS
GTTACTGCCACTGTTGAGGT+TGG 0.637022 1:+81071447 MsG0180004672.01.T01:CDS
TTGGAAATAAACCTACCCAA+TGG 0.663914 1:+81071294 MsG0180004672.01.T01:CDS
AATCTGCCAAGCAAAGTCCA+AGG 0.673023 1:+81071263 MsG0180004672.01.T01:CDS
TTGTTTGAATCAAATGAGTG+AGG 0.675310 1:-81071168 None:intergenic
TGAGATCAGAGCCAAATCAG+AGG 0.680456 1:+81071224 MsG0180004672.01.T01:CDS
GATCTTACCAACCTCAACAG+TGG 0.683396 1:-81071454 None:intergenic
TGATCATGAAGGATGAAGGG+TGG 0.695320 1:-81071129 None:intergenic
GATGTGAATGATGATCATGA+AGG 0.708611 1:-81071140 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AGATTCATTTTTTTCTTTTT+TGG - Chr1:81071195-81071214 None:intergenic 15.0%
AACTGGTAAAATCACATTCA+GGG + Chr1:81071554-81071573 MsG0180004672.01.T01:CDS 30.0%
AGAAGAATGTGGATATCATA+GGG + Chr1:81071338-81071357 MsG0180004672.01.T01:CDS 30.0%
TAGAAGAATGTGGATATCAT+AGG + Chr1:81071337-81071356 MsG0180004672.01.T01:CDS 30.0%
TTGTTTGAATCAAATGAGTG+AGG - Chr1:81071171-81071190 None:intergenic 30.0%
! ACAAGTTTGAGAAAGTTGAT+AGG + Chr1:81071403-81071422 MsG0180004672.01.T01:CDS 30.0%
ATGATGATCATGAAGGATGA+AGG - Chr1:81071136-81071155 None:intergenic 35.0%
CAACTGGTAAAATCACATTC+AGG + Chr1:81071553-81071572 MsG0180004672.01.T01:CDS 35.0%
CATTCTTCTATGTCCTTCAA+AGG - Chr1:81071327-81071346 None:intergenic 35.0%
CTATGTCCTTCAAAGGTAAA+AGG - Chr1:81071320-81071339 None:intergenic 35.0%
GATGTGAATGATGATCATGA+AGG - Chr1:81071143-81071162 None:intergenic 35.0%
TATTTCCAAGAGAAGTTCCT+TGG - Chr1:81071283-81071302 None:intergenic 35.0%
TCCATTGTATACCTCTGATT+TGG - Chr1:81071238-81071257 None:intergenic 35.0%
TGAGATAGAAGGAGAAGTTA+AGG + Chr1:81071617-81071636 MsG0180004672.01.T01:CDS 35.0%
TGATGATCATGAAGGATGAA+GGG - Chr1:81071135-81071154 None:intergenic 35.0%
TTCAAAGGTAAAAGGCCATT+GGG - Chr1:81071312-81071331 None:intergenic 35.0%
TTGAAGGACATAGAAGAATG+TGG + Chr1:81071327-81071346 MsG0180004672.01.T01:CDS 35.0%
TTGGAAATAAACCTACCCAA+TGG + Chr1:81071294-81071313 MsG0180004672.01.T01:CDS 35.0%
! AATGTGATTTTACCAGTTGG+TGG - Chr1:81071552-81071571 None:intergenic 35.0%
! CTGAATGTGATTTTACCAGT+TGG - Chr1:81071555-81071574 None:intergenic 35.0%
AAAGTCCAAGGAACTTCTCT+TGG + Chr1:81071275-81071294 MsG0180004672.01.T01:CDS 40.0%
AGGAGAAGTTAAGGATGTGA+AGG + Chr1:81071626-81071645 MsG0180004672.01.T01:CDS 40.0%
ATCACATTCAGGGCTATTAC+AGG + Chr1:81071564-81071583 MsG0180004672.01.T01:CDS 40.0%
CTTCAAAGGTAAAAGGCCAT+TGG - Chr1:81071313-81071332 None:intergenic 40.0%
GGTAAGATCAAGAAGCTAAC+TGG + Chr1:81071468-81071487 MsG0180004672.01.T01:CDS 40.0%
TCCTTCTATCTCAAAAGCTG+AGG - Chr1:81071610-81071629 None:intergenic 40.0%
! CAATGGCCTTTTACCTTTGA+AGG + Chr1:81071311-81071330 MsG0180004672.01.T01:CDS 40.0%
! GCCAAATCAGAGGTATACAA+TGG + Chr1:81071234-81071253 MsG0180004672.01.T01:CDS 40.0%
! GTTGATAGGCTTGTGACTTA+TGG + Chr1:81071417-81071436 MsG0180004672.01.T01:CDS 40.0%
!! TGATTTGGCTCTGATCTCAT+CGG - Chr1:81071223-81071242 None:intergenic 40.0%
!!! ATAGGGAGAGTGGTTTTGTT+TGG + Chr1:81071355-81071374 MsG0180004672.01.T01:CDS 40.0%
AAGGTAAAAGGCCATTGGGT+AGG - Chr1:81071308-81071327 None:intergenic 45.0%
AATCTGCCAAGCAAAGTCCA+AGG + Chr1:81071263-81071282 MsG0180004672.01.T01:CDS 45.0%
CAAGAAGCTAACTGGTGTGA+AGG + Chr1:81071476-81071495 MsG0180004672.01.T01:CDS 45.0%
CTATCTCAAAAGCTGAGGCA+GGG - Chr1:81071605-81071624 None:intergenic 45.0%
GAAGTTCCTTGGACTTTGCT+TGG - Chr1:81071272-81071291 None:intergenic 45.0%
GATCTTACCAACCTCAACAG+TGG - Chr1:81071457-81071476 None:intergenic 45.0%
TCCAACTGGATTTCATGCAG+TGG - Chr1:81071525-81071544 None:intergenic 45.0%
TCCACTGCATGAAATCCAGT+TGG + Chr1:81071521-81071540 MsG0180004672.01.T01:CDS 45.0%
TCTATCTCAAAAGCTGAGGC+AGG - Chr1:81071606-81071625 None:intergenic 45.0%
TGAAGTTACTGCCACTGTTG+AGG + Chr1:81071443-81071462 MsG0180004672.01.T01:CDS 45.0%
TGAGATCAGAGCCAAATCAG+AGG + Chr1:81071224-81071243 MsG0180004672.01.T01:CDS 45.0%
TGATCATGAAGGATGAAGGG+TGG - Chr1:81071132-81071151 None:intergenic 45.0%
TGCTGCTGTTGAAGTCAAAG+AGG + Chr1:81071698-81071717 MsG0180004672.01.T01:CDS 45.0%
TGTGGATATCATAGGGAGAG+TGG + Chr1:81071345-81071364 MsG0180004672.01.T01:CDS 45.0%
!!! GCCTCAGCTTTTGAGATAGA+AGG + Chr1:81071606-81071625 MsG0180004672.01.T01:CDS 45.0%
AGGTGAAGGAGCTCTTGGTT+TGG + Chr1:81071496-81071515 MsG0180004672.01.T01:CDS 50.0%
CAGTTGGATGATCCACCAAC+TGG + Chr1:81071537-81071556 MsG0180004672.01.T01:CDS 50.0%
GCTAACTGGTGTGAAGGTGA+AGG + Chr1:81071482-81071501 MsG0180004672.01.T01:CDS 50.0%
GTTACTGCCACTGTTGAGGT+TGG + Chr1:81071447-81071466 MsG0180004672.01.T01:CDS 50.0%
TGTGAAGGTGAAGGAGCTCT+TGG + Chr1:81071491-81071510 MsG0180004672.01.T01:CDS 50.0%
!! CAGTTGGTGGATCATCCAAC+TGG - Chr1:81071539-81071558 None:intergenic 50.0%
ACAGCAGCAGCAGTAGCAGC+AGG - Chr1:81071687-81071706 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr1 gene 81071123 81071725 81071123 ID=MsG0180004672.01;Name=MsG0180004672.01
Chr1 mRNA 81071123 81071725 81071123 ID=MsG0180004672.01.T01;Parent=MsG0180004672.01;Name=MsG0180004672.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|200
Chr1 exon 81071123 81071725 81071123 ID=MsG0180004672.01.T01:exon:8299;Parent=MsG0180004672.01.T01
Chr1 CDS 81071123 81071725 81071123 ID=MsG0180004672.01.T01:cds;Parent=MsG0180004672.01.T01
Gene Sequence

>MsG0180004672.01.T01

ATGACACCACCCTTCATCCTTCATGATCATCATTCACATCAAGTACCTCACTCATTTGATTCAAACAAACCAAAAAAGAAAAAAATGAATCTTCTTACCGATGAGATCAGAGCCAAATCAGAGGTATACAATGGAGATGAAATCTGCCAAGCAAAGTCCAAGGAACTTCTCTTGGAAATAAACCTACCCAATGGCCTTTTACCTTTGAAGGACATAGAAGAATGTGGATATCATAGGGAGAGTGGTTTTGTTTGGCTTAAGCAGAAAGCAAGCTATACTCACAAGTTTGAGAAAGTTGATAGGCTTGTGACTTATGGCACTGAAGTTACTGCCACTGTTGAGGTTGGTAAGATCAAGAAGCTAACTGGTGTGAAGGTGAAGGAGCTCTTGGTTTGGCTTCCACTGCATGAAATCCAGTTGGATGATCCACCAACTGGTAAAATCACATTCAGGGCTATTACAGGACTTTTCAGAACATTCCCTGCCTCAGCTTTTGAGATAGAAGGAGAAGTTAAGGATGTGAAGGAAGAGAACAAAGATCAAGTCAAAGAAGCAGAAGCACCTGCTGCTACTGCTGCTGCTGTTGAAGTCAAAGAGGTCTAA

Protein sequence

>MsG0180004672.01.T01

MTPPFILHDHHSHQVPHSFDSNKPKKKKMNLLTDEIRAKSEVYNGDEICQAKSKELLLEINLPNGLLPLKDIEECGYHRESGFVWLKQKASYTHKFEKVDRLVTYGTEVTATVEVGKIKKLTGVKVKELLVWLPLHEIQLDDPPTGKITFRAITGLFRTFPASAFEIEGEVKDVKEENKDQVKEAEAPAATAAAVEVKEV*