AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG000111


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG000111 MtrunA17_Chr1g0156031 98.529 340 4 1 1 339 1 340 0.0 699
MsaG000111 MtrunA17_Chr8g0385961 49.713 348 127 10 2 339 3 312 6.53e-104 307
MsaG000111 MtrunA17_Chr6g0479911 41.040 173 102 0 167 339 117 289 1.27e-45 157
MsaG000111 MtrunA17_Chr8g0375531 51.613 124 60 0 216 339 157 280 2.37e-42 148
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG000111 AT5G42520.1 65.084 358 90 15 1 339 1 342 1.17e-149 425
MsaG000111 AT5G42520.2 63.966 358 90 15 1 339 1 338 1.96e-145 414
MsaG000111 AT5G42520.3 62.543 291 84 11 65 339 1 282 2.21e-116 338
MsaG000111 AT2G21240.1 48.830 342 115 7 5 339 8 296 6.54e-100 297
MsaG000111 AT2G21240.2 48.830 342 115 7 5 339 8 296 6.54e-100 297
MsaG000111 AT4G38910.2 45.266 338 120 7 5 339 8 283 8.46e-93 278
MsaG000111 AT4G38910.1 45.253 316 111 6 24 339 5 258 1.35e-86 261
MsaG000111 AT2G35550.2 55.932 118 52 0 222 339 109 226 1.46e-45 155
MsaG000111 AT2G35550.4 55.932 118 52 0 222 339 109 226 1.46e-45 155
MsaG000111 AT2G35550.3 55.932 118 52 0 222 339 109 226 1.46e-45 155
MsaG000111 AT2G35550.1 55.932 118 52 0 222 339 154 271 1.91e-45 156
MsaG000111 AT1G68120.1 56.075 107 47 0 233 339 163 269 1.36e-43 151
MsaG000111 AT2G01930.2 55.455 110 49 0 230 339 174 283 2.13e-43 151
MsaG000111 AT2G01930.1 55.455 110 49 0 230 339 174 283 2.13e-43 151
MsaG000111 AT1G14685.1 54.545 110 50 0 230 339 170 279 2.34e-42 148
MsaG000111 AT1G14685.4 54.545 110 50 0 230 339 170 279 2.34e-42 148
MsaG000111 AT1G14685.3 54.545 110 50 0 230 339 170 279 2.34e-42 148
MsaG000111 AT1G14685.2 54.545 110 50 0 230 339 170 279 2.34e-42 148

Find 89 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTTGGCCCAATGGTCTTTA+AGG 0.149233 1:+1501697 None:intergenic
GGTAAACCATTTGCCTAATA+TGG 0.151975 1:-1502288 MsaT000111.1:CDS
CCATTCAAGCTCTTTGTTGT+TGG 0.281988 1:+1502070 None:intergenic
TTGCTGTACAACCACTTTAT+CGG 0.289810 1:-1501850 MsaT000111.1:CDS
TCTGGCCCTCTCTGAGAAAA+AGG 0.293315 1:-1502513 MsaT000111.1:CDS
AGTAGTGAGGAAATGATAAA+TGG 0.302982 1:-1502044 MsaT000111.1:CDS
GATTGACATAATTTGCTTCA+TGG 0.306231 1:+1502571 None:intergenic
CTGATGGACGATCGTGAAAA+TGG 0.307285 1:-1502793 MsaT000111.1:CDS
TAAGAAGAATCACCCATATT+AGG 0.336214 1:+1502275 None:intergenic
CTTACTTTCCTTTGGCCGTT+TGG 0.363106 1:+1502172 None:intergenic
CAATGGTCTTTAAGGTCAAC+CGG 0.380775 1:+1501705 None:intergenic
TTTCCCAACCTCTGAAGAAA+TGG 0.384675 1:+1502208 None:intergenic
GAATCAGACTTACTTTCCTT+TGG 0.396516 1:+1502164 None:intergenic
CCAACAACAAAGAGCTTGAA+TGG 0.401945 1:-1502070 MsaT000111.1:CDS
GGCCAGATTTCTTTCTTGAA+TGG 0.411936 1:+1502529 None:intergenic
GGAACGGAATAATGCACTTA+TGG 0.418242 1:-1502438 MsaT000111.1:CDS
CGAGAAAATGCTTTGGCCAA+TGG 0.428561 1:-1502383 MsaT000111.1:CDS
GTATCGATTTGTACCATGTT+TGG 0.434696 1:+1501680 None:intergenic
TTCCCAACCTCTGAAGAAAT+GGG 0.437141 1:+1502209 None:intergenic
AGGTTTCCAATCAGCCTTTG+AGG 0.441798 1:+1501992 None:intergenic
TATACATCACCTTCCGCAAC+AGG 0.447735 1:-1502309 MsaT000111.1:CDS
AATCACCCATATTAGGCAAA+TGG 0.448313 1:+1502282 None:intergenic
TTGTACCATGTTTGGCCCAA+TGG 0.454297 1:+1501688 None:intergenic
TAGCAGCCTCAAAGGCTGAT+TGG 0.454649 1:-1501998 MsaT000111.1:CDS
AATATGGGTGATTCTTCTTA+CGG 0.455899 1:-1502272 MsaT000111.1:CDS
AGATCAATATAAATCTGCTC+AGG 0.457509 1:-1502758 MsaT000111.1:CDS
TTCTGAGACAGTGCTACAAA+TGG 0.466001 1:-1501896 MsaT000111.1:CDS
GTACAAGAGCATGCTGGTGC+TGG 0.473862 1:+1501924 None:intergenic
GCACCAGCATGCTCTTGTAC+TGG 0.474798 1:-1501921 MsaT000111.1:CDS
CGGTTGACCTTAAAGACCAT+TGG 0.478594 1:-1501704 MsaT000111.1:CDS
TCTGAGACAGTGCTACAAAT+GGG 0.478630 1:-1501895 MsaT000111.1:CDS
GTAAACCATTTGCCTAATAT+GGG 0.479892 1:-1502287 MsaT000111.1:CDS
CAGTGCTACAAATGGGGTAA+TGG 0.484703 1:-1501888 MsaT000111.1:CDS
TCAGTTTCGAGAAAATGCTT+TGG 0.485734 1:-1502390 MsaT000111.1:CDS
AGCCATTCAAGAAAGAAATC+TGG 0.489436 1:-1502531 MsaT000111.1:CDS
CCCCGTGAGATTTGACATCC+TGG 0.492305 1:+1502341 None:intergenic
TGATTGGAAACCTCAGGACT+TGG 0.494236 1:-1501982 MsaT000111.1:CDS
GGCAAATGGTTTACCTGTTG+CGG 0.495581 1:+1502296 None:intergenic
TTCCAGCTGTGCCCAACAAA+AGG 0.495805 1:-1501818 MsaT000111.1:CDS
GAAGCAAATTATGTCAATCA+TGG 0.497300 1:-1502567 MsaT000111.1:CDS
CTTAGCCGGCTTGCAGCTGA+AGG 0.500276 1:-1501744 MsaT000111.1:CDS
TTGAATCATCGTATGCAACT+TGG 0.503216 1:+1501952 None:intergenic
GACATAATTTGCTTCATGGA+AGG 0.504898 1:+1502575 None:intergenic
ATATAAATCTGCTCAGGGAC+AGG 0.509112 1:-1502752 MsaT000111.1:intron
CTTTCAATAAACTACTTAGC+CGG 0.514461 1:-1501758 MsaT000111.1:CDS
TTTGGCCGTTTGGCACGCCT+AGG 0.515774 1:+1502182 None:intergenic
TTGTTGGGCACAGCTGGAAG+TGG 0.517836 1:+1501822 None:intergenic
GGTATGTCATCATGCCCTCC+AGG 0.518820 1:-1502359 MsaT000111.1:CDS
GGTTGACCTTAAAGACCATT+GGG 0.521688 1:-1501703 MsaT000111.1:CDS
CAAGCAGTTAGCAGCCTCAA+AGG 0.533010 1:-1502006 MsaT000111.1:CDS
AAAGGCTGATTGGAAACCTC+AGG 0.538629 1:-1501988 MsaT000111.1:CDS
AACCACCTAGGCGTGCCAAA+CGG 0.540428 1:-1502187 MsaT000111.1:CDS
CAATTGCAGTATCTCGCTGC+AGG 0.542654 1:+1502462 None:intergenic
ACAAATGGGGTAATGGAGGT+TGG 0.545815 1:-1501881 MsaT000111.1:CDS
ATCTAGAAAAGTCAAGAAAG+AGG 0.546447 1:-1502120 MsaT000111.1:CDS
GGCCGTTTGGCACGCCTAGG+TGG 0.547084 1:+1502185 None:intergenic
TCCAGGATGTCAAATCTCAC+GGG 0.552910 1:-1502342 MsaT000111.1:CDS
CTCCAGGATGTCAAATCTCA+CGG 0.563255 1:-1502343 MsaT000111.1:CDS
GCATGATGACATACCACCAT+TGG 0.567052 1:+1502367 None:intergenic
TTTGCTTCATGGAAGGATGC+TGG 0.583298 1:+1502582 None:intergenic
TGGTTCAATGCCAAGTCCTG+AGG 0.592965 1:+1501972 None:intergenic
AGAGCATGCTGGTGCTGGCA+TGG 0.596415 1:+1501929 None:intergenic
CCCAACCTCTGAAGAAATGG+GGG 0.597363 1:+1502211 None:intergenic
GCTTGAATGGAAGAGTAGTG+AGG 0.599481 1:-1502057 MsaT000111.1:CDS
AAAAGGCATGCTCGAGTAGG+TGG 0.599819 1:-1501801 MsaT000111.1:CDS
TAGGCGTGCCAAACGGCCAA+AGG 0.600212 1:-1502180 MsaT000111.1:CDS
CATGCCCTTCAGCTGCAAGC+CGG 0.601437 1:+1501739 None:intergenic
AAAGACCATTGGGCCAAACA+TGG 0.604624 1:-1501693 MsaT000111.1:CDS
AAGTGGATATACCGATAAAG+TGG 0.604637 1:+1501839 None:intergenic
TCTAGAAAAGTCAAGAAAGA+GGG 0.605111 1:-1502119 MsaT000111.1:CDS
AATGGTTTACCTGTTGCGGA+AGG 0.606017 1:+1502300 None:intergenic
GAGATACTGCAATTGCGGAA+CGG 0.606489 1:-1502454 MsaT000111.1:CDS
TGCTACAAATGGGGTAATGG+AGG 0.606890 1:-1501885 MsaT000111.1:CDS
TCCCAACCTCTGAAGAAATG+GGG 0.610433 1:+1502210 None:intergenic
GATCAATATAAATCTGCTCA+GGG 0.611740 1:-1502757 MsaT000111.1:CDS
GCAGCGAGATACTGCAATTG+CGG 0.613903 1:-1502459 MsaT000111.1:CDS
GAAAATGCTTTGGCCAATGG+TGG 0.615877 1:-1502380 MsaT000111.1:CDS
CAGAGGTTGGGAAACCACCT+AGG 0.616912 1:-1502199 MsaT000111.1:CDS
AGCACTTGCAGAACGTGACA+TGG 0.620297 1:-1502489 MsaT000111.1:CDS
TGGACGATCGTGAAAATGGA+AGG 0.626784 1:-1502789 MsaT000111.1:CDS
TTAGCCGGCTTGCAGCTGAA+GGG 0.630246 1:-1501743 MsaT000111.1:CDS
CTGAGACAGTGCTACAAATG+GGG 0.642920 1:-1501894 MsaT000111.1:CDS
AGGGCATGATCTCTCACACC+CGG 0.643910 1:-1501724 MsaT000111.1:CDS
ACACCAGTACAAGAGCATGC+TGG 0.644328 1:+1501918 None:intergenic
GTGAGATTTGACATCCTGGA+GGG 0.655568 1:+1502345 None:intergenic
AACAAAAGGCATGCTCGAGT+AGG 0.658830 1:-1501804 MsaT000111.1:CDS
CCAGGATGTCAAATCTCACG+GGG 0.670697 1:-1502341 MsaT000111.1:CDS
AATGGTCTTTAAGGTCAACC+GGG 0.672212 1:+1501706 None:intergenic
CGTGAGATTTGACATCCTGG+AGG 0.739694 1:+1502344 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 1501665 1502812 1501665 ID=MsaG000111
Chr1 mRNA 1501665 1502812 1501665 ID=MsaT000111.1;Parent=MsaG000111
Chr1 exon 1501665 1502624 1501665 ID=MsaT000111.1.exon2;Parent=MsaT000111.1
Chr1 CDS 1501665 1502624 1501665 ID=cds.MsaT000111.1;Parent=MsaT000111.1
Chr1 exon 1502753 1502812 1502753 ID=MsaT000111.1.exon1;Parent=MsaT000111.1
Chr1 CDS 1502753 1502812 1502753 ID=cds.MsaT000111.1;Parent=MsaT000111.1
Gene Sequence

>MsaT000111.1

ATGGACGATCGTGAAAATGGAAGGCACAAAGCAGATCAATATAAATCTGCTCAGGGACAGTGGTTAATGCAACAGCATCACCAGCATCCTTCCATGAAGCAAATTATGTCAATCATGGCTGAACGAGATGCAGCCATTCAAGAAAGAAATCTGGCCCTCTCTGAGAAAAAGGCAGCACTTGCAGAACGTGACATGGCATTCCTGCAGCGAGATACTGCAATTGCGGAACGGAATAATGCACTTATGGAAAGAGATAATGCGATTGCAACCCTTCAGTTTCGAGAAAATGCTTTGGCCAATGGTGGTATGTCATCATGCCCTCCAGGATGTCAAATCTCACGGGGAGTTAAGCATATACATCACCTTCCGCAACAGGTAAACCATTTGCCTAATATGGGTGATTCTTCTTACGGCACACGTGAATTGCACACAACTGATGCCCTCCCAGCAGCCCCCATTTCTTCAGAGGTTGGGAAACCACCTAGGCGTGCCAAACGGCCAAAGGAAAGTAAGTCTGATTCACCTAACAAGAAGACTCCAAAATCTAGAAAAGTCAAGAAAGAGGGTGATGATTTAAACAAGACAATGTTTGCCAACAACAAAGAGCTTGAATGGAAGAGTAGTGAGGAAATGATAAATGGAGATGATGATCTTAACAAGCAGTTAGCAGCCTCAAAGGCTGATTGGAAACCTCAGGACTTGGCATTGAACCAAGTTGCATACGATGATTCAACCATGCCAGCACCAGCATGCTCTTGTACTGGTGTTCTGAGACAGTGCTACAAATGGGGTAATGGAGGTTGGCAATCTGCTTGCTGTACAACCACTTTATCGGTATATCCACTTCCAGCTGTGCCCAACAAAAGGCATGCTCGAGTAGGTGGTAGAAAAATGAGTGGAAGTGCTTTCAATAAACTACTTAGCCGGCTTGCAGCTGAAGGGCATGATCTCTCACACCCGGTTGACCTTAAAGACCATTGGGCCAAACATGGTACAAATCGATACATCACAATAAAGTAG

Protein sequence

>MsaT000111.1

MDDRENGRHKADQYKSAQGQWLMQQHHQHPSMKQIMSIMAERDAAIQERNLALSEKKAALAERDMAFLQRDTAIAERNNALMERDNAIATLQFRENALANGGMSSCPPGCQISRGVKHIHHLPQQVNHLPNMGDSSYGTRELHTTDALPAAPISSEVGKPPRRAKRPKESKSDSPNKKTPKSRKVKKEGDDLNKTMFANNKELEWKSSEEMINGDDDLNKQLAASKADWKPQDLALNQVAYDDSTMPAPACSCTGVLRQCYKWGNGGWQSACCTTTLSVYPLPAVPNKRHARVGGRKMSGSAFNKLLSRLAAEGHDLSHPVDLKDHWAKHGTNRYITIK*