AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG005565


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005565 MtrunA17_Chr6g0469271 93.939 231 14 0 1 231 1 231 1.40e-164 453
MsaG005565 MtrunA17_Chr6g0470631 90.476 231 22 0 1 231 1 231 1.86e-158 438
MsaG005565 MtrunA17_Chr6g0470651 88.745 231 26 0 1 231 1 231 2.34e-156 432
MsaG005565 MtrunA17_Chr1g0209841 91.342 231 10 1 1 231 1 221 2.44e-156 432
MsaG005565 MtrunA17_Chr6g0457431 55.422 166 56 6 1 160 1 154 4.58e-60 186
MsaG005565 MtrunA17_Chr7g0215281 44.053 227 109 7 1 223 1 213 8.42e-56 180
MsaG005565 MtrunA17_Chr4g0053911 56.303 119 48 2 3 119 1 117 1.65e-46 154
MsaG005565 MtrunA17_Chr5g0401401 44.970 169 82 5 3 165 1 164 5.49e-45 150
MsaG005565 MtrunA17_Chr1g0207471 44.882 127 63 2 3 124 1 125 7.99e-36 125
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005565 AT3G02550.1 40.529 227 122 5 1 225 1 216 2.80e-53 172
MsaG005565 AT1G68510.1 55.102 147 54 3 1 145 1 137 3.07e-53 171
MsaG005565 AT1G67100.1 54.861 144 57 3 1 144 1 136 5.96e-50 163
MsaG005565 AT3G49940.1 53.659 123 55 1 3 125 1 121 1.41e-45 152
MsaG005565 AT5G67420.2 55.963 109 46 1 3 111 1 107 1.14e-43 147
MsaG005565 AT5G67420.1 55.963 109 46 1 3 111 1 107 1.14e-43 147
MsaG005565 AT4G37540.1 57.798 109 44 1 3 111 1 107 1.50e-43 147

Find 62 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTGGCATGCCCTTGGGATTC+AGG 0.157225 1:-82905608 None:intergenic
ATGGGGCGCTTGGCTTATTT+TGG 0.165756 1:+82906083 MsaT005565.1:CDS
AAGAATACCAACATGGAAAT+TGG 0.166066 1:+82906382 MsaT005565.1:CDS
ACCGGTTCGGCCATAAAATT+TGG 0.172606 1:-82905642 None:intergenic
ATGGCGTATATCATAGGTTT+TGG 0.254539 1:-82906236 None:intergenic
TGCTGAGAATCAAGTGAATT+TGG 0.279066 1:+82906447 MsaT005565.1:CDS
CCATGTTGGTATTCTTCAAA+AGG 0.367139 1:-82906375 None:intergenic
AGAATACCAACATGGAAATT+GGG 0.374565 1:+82906383 MsaT005565.1:CDS
TGCCACATGGCGTATATCAT+AGG 0.386203 1:-82906242 None:intergenic
CTTTGATTGCCAATCAACTA+AGG 0.392207 1:+82906483 MsaT005565.1:CDS
CATAAAATTTGGCAAGGAAG+AGG 0.404166 1:-82905631 None:intergenic
GACTGAACCAACTCGTGGCT+TGG 0.415502 1:-82906329 None:intergenic
ACTGAACCAACTCGTGGCTT+GGG 0.424285 1:-82906328 None:intergenic
GTGAATTTGGAACTCACTCT+TGG 0.424885 1:+82906460 MsaT005565.1:CDS
GGAAGAGGGTGGCATGCCCT+TGG 0.443110 1:-82905616 None:intergenic
GCAACTGATCCACTCAAGGC+AGG 0.443950 1:-82905585 None:intergenic
TGGCATGCCCTTGGGATTCA+GGG 0.444879 1:-82905607 None:intergenic
AAAACTCAATTCAAAAGAGC+TGG 0.446487 1:+82906292 MsaT005565.1:CDS
ATTGATGGGCAGACATCATC+AGG 0.455052 1:+82906184 MsaT005565.1:CDS
GCAGTTGAAGCTGTGCTGAC+TGG 0.456964 1:+82906133 MsaT005565.1:CDS
AGATTGGTGAATCCCACATA+TGG 0.458590 1:+82906064 MsaT005565.1:CDS
TAAGCCAAGCGCCCCATATG+TGG 0.471835 1:-82906077 None:intergenic
CATGTTGGTATTCTTCAAAA+GGG 0.477135 1:-82906374 None:intergenic
GAAGAGGGTGGCATGCCCTT+GGG 0.479104 1:-82905615 None:intergenic
GGAGATTGAGCAAACCGGTT+CGG 0.494518 1:-82905655 None:intergenic
AATCATCACTACAACCTTTG+CGG 0.504650 1:-82905550 None:intergenic
GATTGGTGAATCCCACATAT+GGG 0.508471 1:+82906065 MsaT005565.1:CDS
GATATACGCCATGTGGCAAA+AGG 0.516720 1:+82906247 MsaT005565.1:CDS
AATCCCACATATGGGGCGCT+TGG 0.518707 1:+82906073 MsaT005565.1:CDS
GGTGAGGAGATTGAGCAAAC+CGG 0.524508 1:-82905660 None:intergenic
TCATCAAGCCCTGCCTTGAG+TGG 0.538225 1:+82905576 MsaT005565.1:CDS
GTACCAATGTGGACATCAAA+GGG 0.546635 1:+82906269 MsaT005565.1:CDS
TTTCCCTTTGATGTCCACAT+TGG 0.551024 1:-82906272 None:intergenic
GGTACCAATGTGGACATCAA+AGG 0.551224 1:+82906268 MsaT005565.1:CDS
GTACGAGGCAGCTGGTAGAT+TGG 0.560594 1:+82906048 MsaT005565.1:CDS
GAATACCAACATGGAAATTG+GGG 0.561319 1:+82906384 MsaT005565.1:CDS
CTGAAGCCCAAGCCACGAGT+TGG 0.576033 1:+82906322 MsaT005565.1:CDS
AGTCTCCCCAATTTCCATGT+TGG 0.576332 1:-82906389 None:intergenic
ATAAAATTTGGCAAGGAAGA+GGG 0.578936 1:-82905630 None:intergenic
TTCGGCCATAAAATTTGGCA+AGG 0.579687 1:-82905637 None:intergenic
TAATGAAGTTGAGTTGCAAT+GGG 0.583194 1:+82905516 None:intergenic
TTTGATTGCCAATCAACTAA+GGG 0.586746 1:+82906484 MsaT005565.1:CDS
AAGCCAAGCGCCCCATATGT+GGG 0.589682 1:-82906076 None:intergenic
AAACTCAATTCAAAAGAGCT+GGG 0.590181 1:+82906293 MsaT005565.1:CDS
CAACTGATCCACTCAAGGCA+GGG 0.595554 1:-82905584 None:intergenic
ATCAGTTGCCCTGAATCCCA+AGG 0.599742 1:+82905599 MsaT005565.1:CDS
ATAATGAAGTTGAGTTGCAA+TGG 0.608858 1:+82905515 None:intergenic
TCATTGTTGTACGAGGCAGC+TGG 0.614180 1:+82906040 MsaT005565.1:CDS
ACGAGTTGGTTCAGTCGACT+CGG 0.622355 1:+82906336 MsaT005565.1:CDS
CAGGGCAACTGATCCACTCA+AGG 0.625744 1:-82905589 None:intergenic
GGGTGTCGTGTGCTCCGCAA+AGG 0.627575 1:+82905536 MsaT005565.1:CDS
ATTGGTGAATCCCACATATG+GGG 0.640018 1:+82906066 MsaT005565.1:CDS
TTTGATTGGTAGCATTGGTG+AGG 0.643249 1:-82905676 None:intergenic
AAATTGGGGAGACTTCATCA+AGG 0.644743 1:+82906398 MsaT005565.1:CDS
AATTGGGGAGACTTCATCAA+GGG 0.644822 1:+82906399 MsaT005565.1:CDS
AATCAAAATCATAATCCACC+AGG 0.664735 1:+82905692 MsaT005565.1:CDS
TCAGTTGCCCTGAATCCCAA+GGG 0.669183 1:+82905600 MsaT005565.1:CDS
GAGTCGACTGAACCAACTCG+TGG 0.679210 1:-82906334 None:intergenic
AACCTATGATATACGCCATG+TGG 0.679816 1:+82906240 MsaT005565.1:CDS
AAATTTGGCAAGGAAGAGGG+TGG 0.680062 1:-82905627 None:intergenic
GTTTAAATCATTGTTGTACG+AGG 0.684324 1:+82906033 MsaT005565.1:CDS
TGTGGCAAAAGGTACCAATG+TGG 0.731996 1:+82906258 MsaT005565.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 82905518 82906528 82905518 ID=MsaG005565
Chr1 mRNA 82905518 82906528 82905518 ID=MsaT005565.1;Parent=MsaG005565
Chr1 exon 82905518 82905713 82905518 ID=MsaT005565.1.exon1;Parent=MsaT005565.1
Chr1 CDS 82905518 82905713 82905518 ID=cds.MsaT005565.1;Parent=MsaT005565.1
Chr1 exon 82906029 82906528 82906029 ID=MsaT005565.1.exon2;Parent=MsaT005565.1
Chr1 CDS 82906029 82906528 82906029 ID=cds.MsaT005565.1;Parent=MsaT005565.1
Gene Sequence

>MsaT005565.1

ATGAAGTTGAGTTGCAATGGGTGTCGTGTGCTCCGCAAAGGTTGTAGTGATGATTGTATCATCAAGCCCTGCCTTGAGTGGATCAGTTGCCCTGAATCCCAAGGGCATGCCACCCTCTTCCTTGCCAAATTTTATGGCCGAACCGGTTTGCTCAATCTCCTCACCAATGCTACCAATCAAAATCATAATCCACCAGCTGTGTTTAAATCATTGTTGTACGAGGCAGCTGGTAGATTGGTGAATCCCACATATGGGGCGCTTGGCTTATTTTGGACAGCGAATTGGAGTCGTTGTGAAGCTGCAGTTGAAGCTGTGCTGACTGGATCGAATATTAATGACAGTTTTACAATGATTGATGGGCAGACATCATCAGGTACACTCAATGCTGAAAATCATGTTCTGCCCAAAACCTATGATATACGCCATGTGGCAAAAGGTACCAATGTGGACATCAAAGGGAAAACTCAATTCAAAAGAGCTGGGCAAGTTCTGAAGCCCAAGCCACGAGTTGGTTCAGTCGACTCGGCTACAATGTTGAAATCCCTTTTGAAGAATACCAACATGGAAATTGGGGAGACTTCATCAAGGGTTCAAACAGAGAAAATTAATGAAGCTGCTGAGAATCAAGTGAATTTGGAACTCACTCTTGGCTTTGATTGCCAATCAACTAAGGGCAAGAAAATATTAGATAAATGA

Protein sequence

>MsaT005565.1

MKLSCNGCRVLRKGCSDDCIIKPCLEWISCPESQGHATLFLAKFYGRTGLLNLLTNATNQNHNPPAVFKSLLYEAAGRLVNPTYGALGLFWTANWSRCEAAVEAVLTGSNINDSFTMIDGQTSSGTLNAENHVLPKTYDIRHVAKGTNVDIKGKTQFKRAGQVLKPKPRVGSVDSATMLKSLLKNTNMEIGETSSRVQTEKINEAAENQVNLELTLGFDCQSTKGKKILDK*