AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG016437

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016437 MtrunA17_Chr3g0128721 75.887 564 83 3 1 511 1 564 0.0 821
MsaG016437 MtrunA17_Chr4g0008701 47.407 540 228 9 1 511 1 513 3.79e-124 373
MsaG016437 MtrunA17_Chr7g0267601 46.269 536 224 9 1 511 1 497 6.11e-123 369
MsaG016437 MtrunA17_Chr8g0361741 48.540 274 125 2 13 274 13 282 6.75e-69 223
MsaG016437 MtrunA17_Chr5g0432691 33.548 155 103 0 7 161 4 158 9.19e-25 100
MsaG016437 MtrunA17_Chr4g0014321 33.775 151 99 1 6 155 3 153 2.84e-23 98.6
MsaG016437 MtrunA17_Chr8g0351751 35.443 158 97 3 4 157 1 157 3.84e-22 95.5
MsaG016437 MtrunA17_Chr2g0283941 30.968 155 106 1 7 160 4 158 3.16e-21 92.8
MsaG016437 MtrunA17_Chr4g0014031 33.544 158 104 1 4 160 1 158 3.59e-21 92.4
MsaG016437 MtrunA17_Chr4g0013041 35.333 150 94 2 7 155 4 151 3.75e-21 91.7
MsaG016437 MtrunA17_Chr3g0107381 28.571 154 110 0 4 157 1 154 8.13e-20 88.2
MsaG016437 MtrunA17_Chr2g0296831 35.000 120 78 0 6 125 3 122 3.56e-19 83.6
MsaG016437 MtrunA17_Chr3g0110131 29.487 156 110 0 6 161 3 158 1.26e-18 85.5
MsaG016437 MtrunA17_Chr3g0107331 29.299 157 111 0 6 162 2 158 1.31e-18 83.2
MsaG016437 MtrunA17_Chr3g0107341 31.724 145 99 0 6 150 2 146 3.01e-18 82.0
MsaG016437 MtrunA17_Chr3g0107351 29.032 155 110 0 6 160 2 156 3.55e-18 82.0
MsaG016437 MtrunA17_Chr3g0107361 28.387 155 111 0 6 160 2 156 2.53e-17 79.3
MsaG016437 MtrunA17_Chr4g0014131 31.967 122 82 1 37 157 34 155 3.89e-17 80.9
MsaG016437 MtrunA17_Chr1g0197461 26.897 145 105 1 6 150 2 145 5.03e-15 72.8
MsaG016437 MtrunA17_Chr4g0014121 36.458 96 61 0 37 132 62 157 9.96e-15 72.8
MsaG016437 MtrunA17_Chr1g0197321 28.758 153 96 3 6 157 3 143 1.25e-14 71.6
MsaG016437 MtrunA17_Chr1g0197261 29.032 155 109 1 6 160 3 156 2.64e-14 70.5
MsaG016437 MtrunA17_Chr5g0420351 28.244 131 93 1 6 136 3 132 5.04e-12 63.9
MsaG016437 MtrunA17_Chr1g0188681 28.244 131 93 1 6 136 3 132 1.98e-11 62.4
MsaG016437 MtrunA17_Chr1g0188651 31.304 115 78 1 6 120 3 116 3.39e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016437 AT5G27960.1 33.813 139 84 1 7 137 2 140 4.70e-20 91.7
MsaG016437 AT5G26650.1 35.246 122 78 1 7 128 2 122 4.98e-20 92.0
MsaG016437 AT1G65300.1 32.903 155 95 2 6 152 2 155 7.52e-20 90.1
MsaG016437 AT2G40210.1 29.825 171 117 2 4 174 1 168 7.73e-18 85.9
MsaG016437 AT2G28700.1 31.405 121 83 0 4 124 1 121 5.44e-15 76.6
MsaG016437 AT1G31630.1 33.333 123 80 2 6 128 2 122 6.81e-15 76.3
MsaG016437 AT3G05860.3 30.328 122 83 2 4 124 1 121 7.93e-15 74.7
MsaG016437 AT3G05860.1 30.328 122 83 2 4 124 1 121 1.15e-14 74.7
MsaG016437 AT3G05860.2 30.833 120 81 2 6 124 3 121 2.49e-14 72.4
MsaG016437 AT2G15660.1 30.657 137 86 3 41 174 31 161 2.64e-14 73.2
MsaG016437 AT5G48670.1 28.662 157 110 2 4 159 1 156 3.11e-14 74.3
MsaG016437 AT1G65330.1 26.012 173 119 2 8 172 4 175 6.71e-14 72.8
MsaG016437 AT1G31640.1 30.357 112 77 1 6 117 2 112 1.78e-12 69.7
MsaG016437 AT5G06500.1 27.333 150 108 1 6 155 3 151 4.66e-12 66.6
MsaG016437 AT5G26630.1 28.161 174 119 3 6 178 3 171 5.50e-12 65.9
MsaG016437 AT5G27810.1 28.571 91 65 0 34 124 3 93 3.16e-11 61.2
MsaG016437 AT1G22590.2 24.510 102 73 1 6 103 3 104 5.05e-11 61.6

Find 91 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATGACAATATGGTAGATTT+TGG 0.154646 3:+97866554 MsaT016437.1:CDS
ATGCCTCCTCAAGGCGATTT+TGG 0.215144 3:+97866971 MsaT016437.1:CDS
ATACCGCCACACACATATTT+TGG 0.262443 3:+97866749 MsaT016437.1:CDS
GAAAGGATTGTTCACTAAAA+TGG 0.281180 3:+97866094 MsaT016437.1:CDS
CCAACAACCATTGTTAGATT+TGG 0.295072 3:+97866604 MsaT016437.1:CDS
CTGACTTATGTGGAGGAAAA+AGG 0.299572 3:+97866278 MsaT016437.1:CDS
TTCATTATATTTGTTGATCT+TGG 0.314656 3:-97866324 None:intergenic
GTTATTCCCTAGAGGAAATT+CGG 0.319248 3:+97866874 MsaT016437.1:CDS
GATGGAAGCAACTTCAATTA+AGG 0.320529 3:+97867640 MsaT016437.1:CDS
GAAGCATGTGCAGTTGTATT+TGG 0.341907 3:+97866143 MsaT016437.1:CDS
TGCTTTAGACAATGACAATA+TGG 0.384922 3:+97866544 MsaT016437.1:CDS
TTCGTAGCCAAAACAACATT+GGG 0.385715 3:+97867560 MsaT016437.1:CDS
TTATTCCCTAGAGGAAATTC+GGG 0.398930 3:+97866875 MsaT016437.1:CDS
TAACAACACAGATAGCAAAA+TGG 0.410915 3:+97867333 MsaT016437.1:CDS
ACAATAGGTCAAGGAAGCTT+TGG 0.412892 3:+97867301 MsaT016437.1:intron
CAACGCATCAACATCACTAC+TGG 0.426637 3:-97867149 None:intergenic
TTGATGCTTTGCTTCCTCAA+TGG 0.441644 3:+97867389 MsaT016437.1:CDS
TTCGTTTAAAATTTGATGCA+TGG 0.443888 3:-97866366 None:intergenic
ACTCATTTGATCAGCTTGCT+TGG 0.447445 3:-97866627 None:intergenic
CCAAATCTAACAATGGTTGT+TGG 0.452405 3:-97866604 None:intergenic
GACATCGGCAGTGGCAGAGA+GGG 0.454249 3:-97866518 None:intergenic
CTTCCTCAATGGAATTTCAC+AGG 0.455585 3:+97867400 MsaT016437.1:CDS
CTCCATGTTGCTACCTAGAT+AGG 0.463692 3:-97866909 None:intergenic
CCTAGTGGTGGTGGCGGTGT+TGG 0.464100 3:+97866662 MsaT016437.1:CDS
TTTCATCAAGGCAATGTTGA+AGG 0.479948 3:+97867496 MsaT016437.1:CDS
ACAGGTTCTGATAACAATGT+AGG 0.484981 3:+97867418 MsaT016437.1:CDS
TAAAAGTCATGGTTGAGATC+AGG 0.485469 3:+97866003 None:intergenic
GTTGATTTGTTATTTCATCA+AGG 0.487404 3:+97867484 MsaT016437.1:CDS
TTTCCTCCACATAAGTCAGT+TGG 0.491297 3:-97866274 None:intergenic
TTTCTTGATCGTACTGACTC+TGG 0.497017 3:-97866242 None:intergenic
ATAGGTCAAGGAAGCTTTGG+AGG 0.505259 3:+97867304 MsaT016437.1:intron
ATAGAGATGGTGATAATATG+AGG 0.515278 3:+97867536 MsaT016437.1:CDS
ATTGTCAACAAAGTTTGCAT+TGG 0.523622 3:-97867614 None:intergenic
TGGCGGTGTTGGTGCTATGT+TGG 0.535172 3:+97866673 MsaT016437.1:CDS
TGTGCAGTTGTATTTGGTCC+AGG 0.539751 3:+97866149 MsaT016437.1:CDS
CATCGGCAGTGGCAGAGAGG+GGG 0.541750 3:-97866516 None:intergenic
AGTAGCATGGAGATAACATC+AGG 0.542693 3:+97866821 MsaT016437.1:CDS
TCATGGTTGAGATCAGGAAA+AGG 0.542864 3:+97866009 None:intergenic
GTAGCGAATCTTTCTTTGAG+TGG 0.550195 3:-97866060 None:intergenic
CGCTACGTGAACAGAGTGAA+AGG 0.557937 3:+97866077 MsaT016437.1:CDS
ATTGTTCACTAAAATGGAGC+AGG 0.561588 3:+97866100 MsaT016437.1:CDS
ATCGGCAGTGGCAGAGAGGG+GGG 0.565993 3:-97866515 None:intergenic
ATTCGTAGCCAAAACAACAT+TGG 0.568395 3:+97867559 MsaT016437.1:CDS
ACATCGGCAGTGGCAGAGAG+GGG 0.572548 3:-97866517 None:intergenic
CCAACACCGCCACCACCACT+AGG 0.584109 3:-97866662 None:intergenic
AACTTTGTTGACAATAACGA+TGG 0.584315 3:+97867622 MsaT016437.1:CDS
GACGAACCAACTGACTTATG+TGG 0.588916 3:+97866268 MsaT016437.1:CDS
AAATCTTGATGAATATGGCA+TGG 0.593745 3:+97867585 MsaT016437.1:CDS
AAAGCACATGACATCGGCAG+TGG 0.598200 3:-97866527 None:intergenic
AAAATATTGGAAGCAACATG+TGG 0.603782 3:+97867107 MsaT016437.1:CDS
TGCTTGGCCAAATCTAACAA+TGG 0.608791 3:-97866611 None:intergenic
GTAGATAACATGCCTCCTCA+AGG 0.611282 3:+97866962 MsaT016437.1:CDS
CAAGCTGATCAAATGAGTGA+TGG 0.615984 3:+97866632 MsaT016437.1:CDS
ACTGAGGGTCTTGAATCACC+TGG 0.617132 3:-97866167 None:intergenic
CACATGCTTCAATACCACAC+AGG 0.617665 3:-97866130 None:intergenic
GACATGGAGGTATCACTGCA+TGG 0.617708 3:+97867445 MsaT016437.1:CDS
ATACCGCCGCATGTAAGTCA+TGG 0.618320 3:+97866932 MsaT016437.1:CDS
CCTCATGCAAATCGTAGTGG+TGG 0.618609 3:+97867364 MsaT016437.1:CDS
TCATGAGATGGCCACACTGA+GGG 0.621251 3:-97866182 None:intergenic
TAACAATATTTACAGCAACA+TGG 0.622242 3:+97866724 MsaT016437.1:CDS
TAACAATGTAGGCAACGACA+TGG 0.622250 3:+97867429 MsaT016437.1:CDS
TTTAATCCTAGTGGTGGTGG+CGG 0.627901 3:+97866656 MsaT016437.1:CDS
CCTCCAAAATCGCCTTGAGG+AGG 0.629694 3:-97866974 None:intergenic
GATGATATGTTATTCCCTAG+AGG 0.633514 3:+97866866 MsaT016437.1:CDS
GAACCTGTGAAATTCCATTG+AGG 0.637565 3:-97867403 None:intergenic
TGACATCGGCAGTGGCAGAG+AGG 0.641912 3:-97866519 None:intergenic
TATATTTGTTGATCTTGGCG+AGG 0.646504 3:-97866319 None:intergenic
AACGCATCAACATCACTACT+GGG 0.649454 3:-97867148 None:intergenic
ACATGCTTCAATACCACACA+GGG 0.652435 3:-97866129 None:intergenic
AGTGTGGCCATCTCATGATG+TGG 0.654651 3:+97866187 MsaT016437.1:CDS
TTGTCTAAAGCACATGACAT+CGG 0.658558 3:-97866533 None:intergenic
TTCCCTAGAGGAAATTCGGG+GGG 0.658559 3:+97866878 MsaT016437.1:CDS
CGTAGCCAAAACAACATTGG+GGG 0.666330 3:+97867562 MsaT016437.1:CDS
CCACCACCAAAATATGTGTG+TGG 0.667305 3:-97866755 None:intergenic
GAACCAACTGACTTATGTGG+AGG 0.672923 3:+97866271 MsaT016437.1:CDS
AAACCTCCAAAATCGCCTTG+AGG 0.673422 3:-97866977 None:intergenic
CCACCAAAATATGTGTGTGG+CGG 0.676512 3:-97866752 None:intergenic
TGACCTCTAAAACTAAACTG+AGG 0.679604 3:-97867061 None:intergenic
TCGTAGCCAAAACAACATTG+GGG 0.682214 3:+97867561 MsaT016437.1:CDS
TCACCTCATGCAAATCGTAG+TGG 0.690515 3:+97867361 MsaT016437.1:CDS
TACCTATCTAGGTAGCAACA+TGG 0.698196 3:+97866907 MsaT016437.1:CDS
CCACCACTACGATTTGCATG+AGG 0.708156 3:-97867364 None:intergenic
ATCATGAGATGGCCACACTG+AGG 0.712363 3:-97866183 None:intergenic
ACATCGCCATGACTTACATG+CGG 0.715191 3:-97866938 None:intergenic
TCGCCATGACTTACATGCGG+CGG 0.715340 3:-97866935 None:intergenic
TATTCCCTAGAGGAAATTCG+GGG 0.717198 3:+97866876 MsaT016437.1:CDS
ACATCAGGTAAATATCTCAG+TGG 0.722619 3:+97866836 MsaT016437.1:CDS
ATTCCCTAGAGGAAATTCGG+GGG 0.724819 3:+97866877 MsaT016437.1:CDS
GTGATTCAAGACCCTCAGTG+TGG 0.727963 3:+97866171 MsaT016437.1:CDS
CAATGTAGGCAACGACATGG+AGG 0.748862 3:+97867432 MsaT016437.1:CDS
GAGCAGGTGAAAACCCTGTG+TGG 0.782460 3:+97866116 MsaT016437.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 97866011 97867660 97866011 ID=MsaG016437
Chr3 mRNA 97866011 97867660 97866011 ID=MsaT016437.1;Parent=MsaG016437
Chr3 exon 97866011 97867193 97866011 ID=MsaT016437.1.exon1;Parent=MsaT016437.1
Chr3 CDS 97866011 97867193 97866011 ID=cds.MsaT016437.1;Parent=MsaT016437.1
Chr3 exon 97867308 97867660 97867308 ID=MsaT016437.1.exon2;Parent=MsaT016437.1
Chr3 CDS 97867308 97867660 97867308 ID=cds.MsaT016437.1;Parent=MsaT016437.1
Gene Sequence

>MsaT016437.1

ATGGTTGAGATCAGGAAAAGGAAAATCACATCCAAGTTGATTGAAAATGCCACTCAAAGAAAGATTCGCTACGTGAACAGAGTGAAAGGATTGTTCACTAAAATGGAGCAGGTGAAAACCCTGTGTGGTATTGAAGCATGTGCAGTTGTATTTGGTCCAGGTGATTCAAGACCCTCAGTGTGGCCATCTCATGATGTGGCCAAAAAACTAATACAAAAATTTGAATCTATGCCAGAGTCAGTACGATCAAGAAATATGACGAACCAACTGACTTATGTGGAGGAAAAAGGAAAAAAGCTTGACGCTGACCTCGCCAAGATCAACAAATATAATGAAGAGACGCTTTTAAGAGTTTCCATGCATCAAATTTTAAACGAAGGTAAGTATCTTGCTGATTTAGATACTAGTATGAAAAACAACTTGATTGGATTTTTACTTGAAAAAATTAAGATCGTCAGAAAGAGAACCGATTATTTTGAAAAGGCAGTGTTTCCTCTTAATAAACCCCCCTCTCTGCCACTGCCGATGTCATGTGCTTTAGACAATGACAATATGGTAGATTTTGGGATAAACACAAATAGAGAAGTTTTGAACCAACAACCATTGTTAGATTTGGCCAAGCAAGCTGATCAAATGAGTGATGGTTTTAATCCTAGTGGTGGTGGCGGTGTTGGTGCTATGTTGGTTAATCAAGAGAATTTTGAAGGTTTTTATAACAATATTTACAGCAACATGGAGATACCGCCACACACATATTTTGGTGGTGGTGTTGATGTGGCATTTTCTCAAGGCAATATGGAAGATTTTGATAGTAGCATGGAGATAACATCAGGTAAATATCTCAGTGGTAGTGTTGATGATATGTTATTCCCTAGAGGAAATTCGGGGGGTTCTAATACCTATCTAGGTAGCAACATGGAGATACCGCCGCATGTAAGTCATGGCGATGTTGTAGATAACATGCCTCCTCAAGGCGATTTTGGAGGTTTTTATCATCACATGTGGATTCCACCACATGAAAATTCTAGTAGCAATGTTGATGCGTTGTTTCCTCAGTTTAGTTTTAGAGGTCAAAACAACTTTGAAAGTTTTGATAAAAATATTGGAAGCAACATGTGGACACCATCACATGAAAATCCCAGTAGTGATGTTGATGCGTTGATTTTTACACAAAATTCTGGAGGTCAAGGAAGCTTTGGAGGTTTTGATAACAACACAGATAGCAAAATGGAGATATCACCTCATGCAAATCGTAGTGGTGGTATTGATGCTTTGCTTCCTCAATGGAATTTCACAGGTTCTGATAACAATGTAGGCAACGACATGGAGGTATCACTGCATGGAAATTCAAGTGATGACGTTGATTTGTTATTTCATCAAGGCAATGTTGAAGGTTTTGATAACAAAAATCATAGAGATGGTGATAATATGAGGATTCGTAGCCAAAACAACATTGGGGGAAATCTTGATGAATATGGCATGGAGAGTGCCAATGCAAACTTTGTTGACAATAACGATGGAAGCAACTTCAATTAA
Protein sequence

>MsaT016437.1

MVEIRKRKITSKLIENATQRKIRYVNRVKGLFTKMEQVKTLCGIEACAVVFGPGDSRPSVWPSHDVAKKLIQKFESMPESVRSRNMTNQLTYVEEKGKKLDADLAKINKYNEETLLRVSMHQILNEGKYLADLDTSMKNNLIGFLLEKIKIVRKRTDYFEKAVFPLNKPPSLPLPMSCALDNDNMVDFGINTNREVLNQQPLLDLAKQADQMSDGFNPSGGGGVGAMLVNQENFEGFYNNIYSNMEIPPHTYFGGGVDVAFSQGNMEDFDSSMEITSGKYLSGSVDDMLFPRGNSGGSNTYLGSNMEIPPHVSHGDVVDNMPPQGDFGGFYHHMWIPPHENSSSNVDALFPQFSFRGQNNFESFDKNIGSNMWTPSHENPSSDVDALIFTQNSGGQGSFGGFDNNTDSKMEISPHANRSGGIDALLPQWNFTGSDNNVGNDMEVSLHGNSSDDVDLLFHQGNVEGFDNKNHRDGDNMRIRSQNNIGGNLDEYGMESANANFVDNNDGSNFN*