AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG040826

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040826 MtrunA17_Chr7g0274781 97.297 222 6 0 1 222 5 226 8.12e-163 448
MsaG040826 MtrunA17_Chr5g0416091 39.894 188 109 2 37 222 76 261 2.73e-47 156
MsaG040826 MtrunA17_Chr8g0362331 40.244 164 96 1 37 198 75 238 4.12e-47 156
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040826 AT1G71260.1 57.983 238 84 4 1 222 1 238 7.35e-91 267
MsaG040826 AT2G02740.1 42.408 191 100 4 39 222 81 268 1.11e-51 168
MsaG040826 AT1G14410.1 40.838 191 96 3 42 222 80 263 1.72e-51 167

Find 50 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTTGCGTTGCCACACATTA+TGG 0.228816 7:+104230085 MsaT040826.1:intron
GCTTGCTTCCTTCATCTTCC+AGG 0.275752 7:+104227218 MsaT040826.1:CDS
TTGCCCTTGTAAACAGAATA+AGG 0.288907 7:-104227507 None:intergenic
AAAATTTGTGAGTTCATCTT+TGG 0.301520 7:-104230158 None:intergenic
AGGAACACTAAAATTCTCTT+TGG 0.325050 7:-104229160 None:intergenic
ATGAGTTTCATGCCTGCTAT+TGG 0.341936 7:+104227883 MsaT040826.1:CDS
GAAAGAATTCACATGAATCT+TGG 0.354145 7:-104228736 None:intergenic
AAAGAATTCACATGAATCTT+GGG 0.363397 7:-104228735 None:intergenic
TGAGTTTCATGCCTGCTATT+GGG 0.372914 7:+104227884 MsaT040826.1:CDS
GCAAACTCAGCAGTTGTAAC+AGG 0.373789 7:-104229180 None:intergenic
AGGCATGAAACTCATCATTA+TGG 0.404570 7:-104227875 None:intergenic
GTGAAACAGGAATCATCTAT+TGG 0.407409 7:+104227319 MsaT040826.1:intron
TTTGCGTTGCCACACATTAT+GGG 0.408601 7:+104230086 MsaT040826.1:CDS
AGCAGAATAGTTGTTATTTG+TGG 0.411050 7:-104227372 None:intergenic
TGCTCCTTATTCTGTTTACA+AGG 0.424645 7:+104227503 MsaT040826.1:CDS
GTTGCCACACATTATGGGTT+GGG 0.425766 7:+104230091 MsaT040826.1:CDS
AACCGACTTCAGTAGCTGAT+AGG 0.440719 7:-104228694 None:intergenic
CGTTGCCACACATTATGGGT+TGG 0.443320 7:+104230090 MsaT040826.1:CDS
ATATACCTTGATTTCATTGA+GGG 0.447907 7:-104228764 None:intergenic
GTCGGTTCTTTGATAGCCAT+TGG 0.458218 7:+104228710 MsaT040826.1:CDS
TTCTTATGCTGCAGTAATGC+TGG 0.463315 7:+104228946 MsaT040826.1:intron
TTGGGGAGCGCAAATATGAC+TGG 0.493872 7:+104227902 MsaT040826.1:CDS
GCAGTAATGCTGGTCAAGTA+AGG 0.498490 7:+104228956 MsaT040826.1:intron
AATAACAACTATTCTGCTAA+AGG 0.500782 7:+104227377 MsaT040826.1:CDS
GAGTTTCATGCCTGCTATTG+GGG 0.513089 7:+104227885 MsaT040826.1:CDS
ATTGGAAGTTCTTTCCGCTA+GGG 0.516317 7:+104227337 MsaT040826.1:CDS
ATGACCCCTCAATGAAATCA+AGG 0.516531 7:+104228759 MsaT040826.1:CDS
TTGAAAGCTGACTGTCCCAC+TGG 0.516551 7:-104230135 None:intergenic
AATATACCTTGATTTCATTG+AGG 0.524866 7:-104228765 None:intergenic
GCCCTATCAGCTACTGAAGT+CGG 0.527679 7:+104228692 MsaT040826.1:CDS
ACCGACTTCAGTAGCTGATA+GGG 0.538316 7:-104228693 None:intergenic
AGGGAGTACCTGGAAGATGA+AGG 0.540073 7:-104227226 None:intergenic
TATTTGCGCTCCCCAATAGC+AGG 0.541622 7:-104227895 None:intergenic
TATTGGAAGTTCTTTCCGCT+AGG 0.545874 7:+104227336 MsaT040826.1:CDS
ACAAAGTAGCCATTGCTATG+AGG 0.558527 7:-104228997 None:intergenic
ACATGAATCTTGGGGACCAA+TGG 0.561311 7:-104228726 None:intergenic
TCAATTAAGCCTCATAGCAA+TGG 0.569726 7:+104228988 MsaT040826.1:CDS
ACATCCAACTTAGTAAAAGT+AGG 0.596084 7:-104227558 None:intergenic
GCTCCTTATTCTGTTTACAA+GGG 0.608711 7:+104227504 MsaT040826.1:CDS
ATTCTCTTTGGTATTTAACA+CGG 0.610530 7:-104229148 None:intergenic
TATACCTTGATTTCATTGAG+GGG 0.613978 7:-104228763 None:intergenic
TAACTAATCAGCAGTCCAGT+GGG 0.621978 7:+104230120 MsaT040826.1:CDS
AAGAATTCACATGAATCTTG+GGG 0.637953 7:-104228734 None:intergenic
AAAGAGGCATACACTGCAAG+CGG 0.640513 7:-104229214 None:intergenic
TGGGGAGCGCAAATATGACT+GGG 0.642764 7:+104227903 MsaT040826.1:CDS
CTAACTAATCAGCAGTCCAG+TGG 0.653328 7:+104230119 MsaT040826.1:CDS
TTAGTAAAAGTAGGAAGACA+AGG 0.653333 7:-104227549 None:intergenic
CGATCCCAACCCATAATGTG+TGG 0.655749 7:-104230095 None:intergenic
GCTCTTGTTGTTGATCGTCG+CGG 0.693088 7:+104227850 MsaT040826.1:CDS
GGCAGTAGAGAAATCCCTAG+CGG 0.738730 7:-104227351 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 104227202 104230202 104227202 ID=MsaG040826
Chr7 mRNA 104227202 104230202 104227202 ID=MsaT040826.1;Parent=MsaG040826
Chr7 exon 104227202 104227239 104227202 ID=MsaT040826.1.exon1;Parent=MsaT040826.1
Chr7 CDS 104227202 104227239 104227202 ID=cds.MsaT040826.1;Parent=MsaT040826.1
Chr7 exon 104227328 104227398 104227328 ID=MsaT040826.1.exon2;Parent=MsaT040826.1
Chr7 CDS 104227328 104227398 104227328 ID=cds.MsaT040826.1;Parent=MsaT040826.1
Chr7 exon 104227481 104227578 104227481 ID=MsaT040826.1.exon3;Parent=MsaT040826.1
Chr7 CDS 104227481 104227578 104227481 ID=cds.MsaT040826.1;Parent=MsaT040826.1
Chr7 exon 104227844 104227936 104227844 ID=MsaT040826.1.exon4;Parent=MsaT040826.1
Chr7 CDS 104227844 104227936 104227844 ID=cds.MsaT040826.1;Parent=MsaT040826.1
Chr7 exon 104228686 104228780 104228686 ID=MsaT040826.1.exon5;Parent=MsaT040826.1
Chr7 CDS 104228686 104228780 104228686 ID=cds.MsaT040826.1;Parent=MsaT040826.1
Chr7 exon 104228960 104229027 104228960 ID=MsaT040826.1.exon6;Parent=MsaT040826.1
Chr7 CDS 104228960 104229027 104228960 ID=cds.MsaT040826.1;Parent=MsaT040826.1
Chr7 exon 104229136 104229224 104229136 ID=MsaT040826.1.exon7;Parent=MsaT040826.1
Chr7 CDS 104229136 104229224 104229136 ID=cds.MsaT040826.1;Parent=MsaT040826.1
Chr7 exon 104230086 104230202 104230086 ID=MsaT040826.1.exon8;Parent=MsaT040826.1
Chr7 CDS 104230086 104230202 104230086 ID=cds.MsaT040826.1;Parent=MsaT040826.1
Gene Sequence

>MsaT040826.1

ATGTTGAAGTTCTCTCGCTTGCTTCCTTCATCTTCCAGGAATCATCTATTGGAAGTTCTTTCCGCTAGGGATTTCTCTACTGCCACAAATAACAACTATTCTGCTAAAGGATATACTTCAGATCGTATATTTGCTCCTTATTCTGTTTACAAGGGCAAAGCTGCATTCTCACTCAGTCCTTGTCTTCCTACTTTTACTAAGTTGGATTCTGGGGCTCTTGTTGTTGATCGTCGCGGTTCCATAATGATGAGTTTCATGCCTGCTATTGGGGAGCGCAAATATGACTGGGAGAAGAGACAAAGATTTGCCCTATCAGCTACTGAAGTCGGTTCTTTGATAGCCATTGGTCCCCAAGATTCATGTGAATTCTTTCATGACCCCTCAATGAAATCAAGTAATGCTGGTCAAGTAAGGAAGAGTTTGTCAATTAAGCCTCATAGCAATGGCTACTTTGTCTCTCTGTCTGTTGTTAACTCCGTGTTAAATACCAAAGAGAATTTTAGTGTTCCTGTTACAACTGCTGAGTTTGCTGTGATGAAGACCGCTTGCAGTTTTGCGTTGCCACACATTATGGGTTGGGATCGTCTAACTAATCAGCAGTCCAGTGGGACAGTCAGCTTTCAACCAAAGATGAACTCACAAATTTTAGACTTGGAGTGGGAAAAGTGA
Protein sequence

>MsaT040826.1

MLKFSRLLPSSSRNHLLEVLSARDFSTATNNNYSAKGYTSDRIFAPYSVYKGKAAFSLSPCLPTFTKLDSGALVVDRRGSIMMSFMPAIGERKYDWEKRQRFALSATEVGSLIAIGPQDSCEFFHDPSMKSSNAGQVRKSLSIKPHSNGYFVSLSVVNSVLNTKENFSVPVTTAEFAVMKTACSFALPHIMGWDRLTNQQSSGTVSFQPKMNSQILDLEWEK*