AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG001452

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001452 MtrunA17_Chr1g0163201 81.545 233 38 1 57 284 160 392 6.05e-136 390
MsaG001452 MtrunA17_Chr1g0163201 88.889 36 4 0 20 55 18 53 2.66e-14 72.4
MsaG001452 MtrunA17_Chr1g0163181 65.234 256 58 2 57 283 175 428 1.87e-112 332
MsaG001452 MtrunA17_Chr1g0163181 87.273 55 7 0 1 55 1 55 3.67e-27 109
MsaG001452 MtrunA17_Chr1g0163151 71.171 222 62 1 62 283 1 220 3.03e-112 323
MsaG001452 MtrunA17_Chr1g0163111 67.949 234 56 3 62 283 1 227 5.01e-106 308
MsaG001452 MtrunA17_Chr6g0476171 39.336 211 123 4 78 283 34 244 9.10e-40 139
MsaG001452 MtrunA17_Chr1g0162151 37.500 224 118 5 62 282 1 205 1.72e-37 132
MsaG001452 MtrunA17_Chr1g0163131 30.556 288 171 9 14 282 27 304 1.66e-31 119
MsaG001452 MtrunA17_Chr1g0163261 45.000 140 66 2 57 187 156 293 3.34e-30 115
MsaG001452 MtrunA17_Chr1g0163251 40.602 133 79 0 55 187 158 290 1.76e-29 115
MsaG001452 MtrunA17_Chr1g0163251 89.091 55 6 0 1 55 1 55 1.95e-28 112
MsaG001452 MtrunA17_Chr1g0163091 41.085 129 73 1 62 187 1 129 5.24e-28 105
MsaG001452 MtrunA17_Chr1g0163191 87.273 55 7 0 1 55 1 55 5.24e-27 103
MsaG001452 MtrunA17_Chr1g0163231 41.803 122 67 3 61 178 159 280 1.50e-22 94.7
MsaG001452 MtrunA17_Chr1g0163231 56.140 57 21 1 1 53 1 57 6.16e-13 67.8
MsaG001452 MtrunA17_Chr1g0171611 44.762 105 54 3 78 178 164 268 3.25e-21 90.9
MsaG001452 MtrunA17_Chr1g0171611 52.542 59 24 1 1 55 1 59 1.29e-12 67.0
MsaG001452 MtrunA17_Chr1g0163241 63.636 55 16 1 1 55 7 57 1.56e-16 75.5
MsaG001452 MtrunA17_Chr1g0163101 65.000 40 14 0 14 53 26 65 1.09e-11 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 59 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAATTAGCTGTGCTTCTTTA+AGG 0.101734 1:+20270907 MsaT001452.1:CDS
CAACACCGTTTGGAAATTTA+AGG 0.151014 1:-20269140 None:intergenic
CTTTGGGATTGCTTCGTTTC+CGG 0.165431 1:-20270227 None:intergenic
TTAAAACCTAGTAGTTTCTT+TGG 0.230973 1:-20270244 None:intergenic
TATTTCTCCACATATTTCTT+TGG 0.248757 1:-20269090 None:intergenic
TTAATGGAACTGCAACAATA+AGG 0.270673 1:+20270026 MsaT001452.1:CDS
AGAAATATGTGGAGAAATAT+TGG 0.281812 1:+20269094 MsaT001452.1:CDS
GCATAACACATTCAAGGTTT+TGG 0.294441 1:+20270555 MsaT001452.1:CDS
TTGGAGATACTTGTCTCTTT+AGG 0.296651 1:+20270850 MsaT001452.1:CDS
TTACGTCAATGGCTATTTCT+TGG 0.299414 1:+20269890 MsaT001452.1:CDS
TTTGGAAATTTAAGGAATAT+AGG 0.302976 1:-20269132 None:intergenic
GTGGTGGTTGGAAAATATTC+AGG 0.328531 1:+20270116 MsaT001452.1:CDS
TTGGAAATTTAAGGAATATA+GGG 0.346499 1:-20269131 None:intergenic
TTATAAAGAAAGATCTTGTT+TGG 0.355178 1:+20270093 MsaT001452.1:CDS
GAGGTTAGTTTGAGGTATTA+TGG 0.363534 1:+20270070 MsaT001452.1:CDS
TAAAACCTAGTAGTTTCTTT+GGG 0.368375 1:-20270243 None:intergenic
TAATGGAACTGCAACAATAA+GGG 0.385781 1:+20270027 MsaT001452.1:CDS
AATACTATTCTATGAAAATC+TGG 0.407656 1:-20268943 None:intergenic
ACAGCTTCAGATTGTGCCAT+TGG 0.421914 1:-20269828 None:intergenic
TATAAAGAAAGATCTTGTTT+GGG 0.427295 1:+20270094 MsaT001452.1:CDS
ATGGTGACAATGAATGAAAA+AGG 0.439234 1:-20270196 None:intergenic
TTCGTTTCCGGCACGAGTAA+TGG 0.441162 1:-20270215 None:intergenic
GATGAAGCATAACACATTCA+AGG 0.455053 1:+20270549 MsaT001452.1:CDS
CAGCTTCAGATTGTGCCATT+GGG 0.460205 1:-20269827 None:intergenic
AAAGAATGCAATGTGGAGAT+TGG 0.464528 1:+20270831 MsaT001452.1:CDS
GTGTTATGCTTCATCACATC+AGG 0.468230 1:-20270541 None:intergenic
TGTCATTATAACTTCAAAAG+AGG 0.475259 1:-20269862 None:intergenic
AGTATTCGTGGCTGTAGGTT+CGG 0.481056 1:+20270786 MsaT001452.1:CDS
GCTGTAGGTTCGGTAAAGAT+TGG 0.487428 1:+20270796 MsaT001452.1:CDS
CCAAAGGAGTTTATGAAAAG+AGG 0.490308 1:+20270693 MsaT001452.1:CDS
GCAATCCCAAAGAAACTACT+AGG 0.493084 1:+20270238 MsaT001452.1:CDS
GATCTTGTTTGGGTGGTGGT+TGG 0.501988 1:+20270104 MsaT001452.1:CDS
GTCATTATAACTTCAAAAGA+GGG 0.507540 1:-20269861 None:intergenic
GAGAAAGTCATGGTTGGTAA+AGG 0.511846 1:+20270749 MsaT001452.1:CDS
GGAGTGTGGAGGTTAGTTTG+AGG 0.513468 1:+20270062 MsaT001452.1:CDS
AACTATTATGAGAGTATTCG+TGG 0.521105 1:+20270774 MsaT001452.1:CDS
ATTGTCACCATTACTCGTGC+CGG 0.527562 1:+20270208 MsaT001452.1:CDS
AGGATGTCATGAAAATATTG+TGG 0.531604 1:+20270713 MsaT001452.1:CDS
ATATTCCTTAAATTTCCAAA+CGG 0.536219 1:+20269135 MsaT001452.1:CDS
ATGACACAATCTTACGTCAA+TGG 0.537902 1:+20269879 MsaT001452.1:CDS
AAAGAAAGATCTTGTTTGGG+TGG 0.538945 1:+20270097 MsaT001452.1:CDS
GAAAGATCTTGTTTGGGTGG+TGG 0.546468 1:+20270100 MsaT001452.1:CDS
CAATAAGGGTTGGTAATGAA+AGG 0.551596 1:+20270041 MsaT001452.1:CDS
TCTTTAGGTTAATTGATGAA+AGG 0.553116 1:+20270865 MsaT001452.1:CDS
GTAAATTTGAGATGATTCGA+CGG 0.557247 1:+20270170 MsaT001452.1:CDS
GTATTTGCAGACTGTACCAA+AGG 0.572448 1:+20270677 MsaT001452.1:intron
TGATCTCTTGAAAACTCACT+TGG 0.572671 1:-20269992 None:intergenic
AATGGGGAGAAAGTCATGGT+TGG 0.573178 1:+20270743 MsaT001452.1:CDS
TTTGGTGAAGAACACAGCCC+CGG 0.573521 1:+20270573 MsaT001452.1:CDS
GGAACTGCAACAATAAGGGT+TGG 0.581562 1:+20270031 MsaT001452.1:CDS
GAGGGTTCCAAAGAAATATG+TGG 0.594786 1:+20269083 MsaT001452.1:intron
AGTTAGTAACGAAGTGAGCA+TGG 0.596955 1:+20269785 MsaT001452.1:intron
TGGTGGTTGGAAAATATTCA+GGG 0.603185 1:+20270117 MsaT001452.1:CDS
GGTTGGTAATGAAAGGAGTG+TGG 0.615653 1:+20270048 MsaT001452.1:CDS
ATGAGAGTATTCGTGGCTGT+AGG 0.616385 1:+20270781 MsaT001452.1:CDS
TATGTGGAGAAATATTGGAA+AGG 0.617787 1:+20269099 MsaT001452.1:CDS
TGGTAATGAAAGGAGTGTGG+AGG 0.642373 1:+20270051 MsaT001452.1:CDS
GAAGCCTAGAAAATACCCAA+TGG 0.693832 1:+20269812 MsaT001452.1:CDS
ATTCATGAAAGAATGCAATG+TGG 0.699756 1:+20270824 MsaT001452.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 20268925 20270935 20268925 ID=MsaG001452
Chr1 mRNA 20268925 20270935 20268925 ID=MsaT001452.1;Parent=MsaG001452
Chr1 exon 20268925 20268981 20268925 ID=MsaT001452.1.exon1;Parent=MsaT001452.1
Chr1 CDS 20268925 20268981 20268925 ID=cds.MsaT001452.1;Parent=MsaT001452.1
Chr1 exon 20269084 20269192 20269084 ID=MsaT001452.1.exon2;Parent=MsaT001452.1
Chr1 CDS 20269084 20269192 20269084 ID=cds.MsaT001452.1;Parent=MsaT001452.1
Chr1 exon 20269787 20269911 20269787 ID=MsaT001452.1.exon3;Parent=MsaT001452.1
Chr1 CDS 20269787 20269911 20269787 ID=cds.MsaT001452.1;Parent=MsaT001452.1
Chr1 exon 20269986 20270259 20269986 ID=MsaT001452.1.exon4;Parent=MsaT001452.1
Chr1 CDS 20269986 20270259 20269986 ID=cds.MsaT001452.1;Parent=MsaT001452.1
Chr1 exon 20270536 20270594 20270536 ID=MsaT001452.1.exon5;Parent=MsaT001452.1
Chr1 CDS 20270536 20270594 20270536 ID=cds.MsaT001452.1;Parent=MsaT001452.1
Chr1 exon 20270687 20270935 20270687 ID=MsaT001452.1.exon6;Parent=MsaT001452.1
Chr1 CDS 20270687 20270935 20270687 ID=cds.MsaT001452.1;Parent=MsaT001452.1
Gene Sequence

>MsaT001452.1

ATGTCATTTCAACATGTTCCAGATTTTCATAGAATAGTATTGCAAGATAAGAAACTTAGGGTTCCAAAGAAATATGTGGAGAAATATTGGAAAGGAATATCAAACCCTATATTCCTTAAATTTCCAAACGGTGTTGAACAAAAAATATTTTGGGTGGAGAGTAATGTTAGTAACGAAGTGAGCATGGTGAAGAAGCCTAGAAAATACCCAATGGCACAATCTGAAGCTGTTAATGAGAATCCCTCTTTTGAAGTTATAATGACACAATCTTACGTCAATGGCTATTTCTTGTGGTTACCAAGTGAGTTTTCAAGAGATCACTTGAAAAAATTTAATGGAACTGCAACAATAAGGGTTGGTAATGAAAGGAGTGTGGAGGTTAGTTTGAGGTATTATGGTTATAAAGAAAGATCTTGTTTGGGTGGTGGTTGGAAAATATTCAGGGAAAGATATAATTTTCAAGTTGACGATGTTTGTAAATTTGAGATGATTCGACGGAGACCTTTTTCATTCATTGTCACCATTACTCGTGCCGGAAACGAAGCAATCCCAAAGAAACTACTAGATGGTCCTGATGTGATGAAGCATAACACATTCAAGGTTTTGGTGAAGAACACAGCCCCGACTGTACCAAAGGAGTTTATGAAAAGAGGATGTCATGAAAATATTGTGGAGTTAAAAATGGGGAGAAAGTCATGGTTGGTAAAGGTGAACTATTATGAGAGTATTCGTGGCTGTAGGTTCGGTAAAGATTGGATAAAATTCATGAAAGAATGCAATGTGGAGATTGGAGATACTTGTCTCTTTAGGTTAATTGATGAAAGGAAATTTGTGTTTGATGTTTCAATTAGCTGTGCTTCTTTAAGGCACTAA
Protein sequence

>MsaT001452.1

MSFQHVPDFHRIVLQDKKLRVPKKYVEKYWKGISNPIFLKFPNGVEQKIFWVESNVSNEVSMVKKPRKYPMAQSEAVNENPSFEVIMTQSYVNGYFLWLPSEFSRDHLKKFNGTATIRVGNERSVEVSLRYYGYKERSCLGGGWKIFRERYNFQVDDVCKFEMIRRRPFSFIVTITRAGNEAIPKKLLDGPDVMKHNTFKVLVKNTAPTVPKEFMKRGCHENIVELKMGRKSWLVKVNYYESIRGCRFGKDWIKFMKECNVEIGDTCLFRLIDERKFVFDVSISCASLRH*