AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG041890

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG041890 MtrunA17_Chr8g0346141 85.440 364 14 4 1 336 1 353 0.0 586
MsaG041890 MtrunA17_Chr3g0132851 75.484 310 71 4 8 316 33 338 1.12e-145 438
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG041890 AT1G09710.5 43.750 272 133 9 8 276 9 263 6.52e-58 197
MsaG041890 AT1G09710.3 43.750 272 133 9 8 276 9 263 6.52e-58 197
MsaG041890 AT1G09710.1 43.750 272 133 9 8 276 38 292 1.37e-57 196
MsaG041890 AT1G09710.4 43.750 272 133 9 8 276 38 292 1.37e-57 196
MsaG041890 AT1G09710.2 44.788 259 124 8 8 264 38 279 3.22e-57 196
MsaG041890 AT1G58220.2 41.115 287 143 10 8 290 36 300 8.69e-52 183
MsaG041890 AT1G58220.1 41.606 274 135 9 8 277 36 288 1.38e-51 183

Find 83 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCTTGTCAAGGGCTAAATTT+AGG 0.180768 8:+13377834 None:intergenic
TTCCAATCAAATTTGGTATC+AGG 0.181230 8:+13383183 None:intergenic
CAATTCATTCCAATCAAATT+TGG 0.191519 8:+13383176 None:intergenic
CCTCAATTGTTGAGCTATTA+GGG 0.224586 8:+13380351 None:intergenic
GCCTCAATTGTTGAGCTATT+AGG 0.234237 8:+13380350 None:intergenic
TCTGTTGCACTTCTCTTAAT+AGG 0.263867 8:+13380026 None:intergenic
CATGCTTCACAGGCCAATTT+CGG 0.296470 8:+13376994 None:intergenic
ACTGGAAAATTTACAGTCAT+TGG 0.296643 8:+13380326 None:intergenic
TTCTGTCTCTGAACAGTAAC+TGG 0.300327 8:+13380230 None:intergenic
TTCGGAGAAGGTAACCTTCT+TGG 0.304445 8:+13383374 None:intergenic
GTCCCCTGCGAAACCGAAAT+TGG 0.330547 8:-13377007 MsaT041890.1:CDS
AGAGATGCGGTGAAGGGAAT+TGG 0.330563 8:-13380076 MsaT041890.1:CDS
CTTGTCAAGGGCTAAATTTA+GGG 0.341996 8:+13377835 None:intergenic
GTTCTAGATGAACGGTAAAC+TGG 0.360722 8:+13380308 None:intergenic
CAAATTTGATTGGAATGAAT+TGG 0.371586 8:-13383175 MsaT041890.1:CDS
TCGGAGAAGGTAACCTTCTT+GGG 0.378162 8:+13383375 None:intergenic
AAAGACGGCAGTGCCAATTC+AGG 0.380490 8:-13377923 MsaT041890.1:CDS
ATGATTCCAGCTCGCAATCT+AGG 0.387454 8:+13380946 None:intergenic
TTCACAGCCCTCTAATTTGA+CGG 0.404084 8:-13380273 MsaT041890.1:CDS
ACCCTGATACCAAATTTGAT+TGG 0.413869 8:-13383185 MsaT041890.1:CDS
TGTCTGTTCCGTCAAATTAG+AGG 0.415678 8:+13380265 None:intergenic
AAAAGAATGGTCAGAGGAAG+AGG 0.418034 8:-13380123 MsaT041890.1:CDS
GGTCGCAGTGGATCCTGAAT+TGG 0.437512 8:+13377910 None:intergenic
TTAGAAACCAAGAGAATAGT+TGG 0.438935 8:-13380179 MsaT041890.1:CDS
GGTACCACCAACTATTCTCT+TGG 0.446261 8:+13380172 None:intergenic
CAGGCCAATTTCGGTTTCGC+AGG 0.452133 8:+13377003 None:intergenic
CTATGGCGCCGCTTGGCGTA+TGG 0.469893 8:-13383105 MsaT041890.1:CDS
GAGATGCGGTGAAGGGAATT+GGG 0.473351 8:-13380075 MsaT041890.1:CDS
TCCAATCAAATTTGGTATCA+GGG 0.474839 8:+13383184 None:intergenic
CCGTTCATCTAGAACTTCAA+AGG 0.500114 8:-13380300 MsaT041890.1:CDS
TCCCCTTGTTTGAAATCTTG+CGG 0.501955 8:+13383072 None:intergenic
CCATAGCATCTGATACTCTC+TGG 0.501959 8:+13383122 None:intergenic
TCAGATGCTATGGCGCCGCT+TGG 0.503407 8:-13383112 MsaT041890.1:CDS
AGAATATACTGCTGAACAGT+TGG 0.509877 8:-13377870 MsaT041890.1:CDS
CCCTAATAGCTCAACAATTG+AGG 0.514916 8:-13380351 MsaT041890.1:CDS
TTCAGCAGTATATTCTGTGT+TGG 0.516435 8:+13377877 None:intergenic
AGTCTCCACAGTTTGTAGTT+CGG 0.518961 8:-13377063 MsaT041890.1:CDS
CCAGTACCACAGCTTCCAAA+AGG 0.521688 8:-13380151 MsaT041890.1:CDS
GCTGTTCAGAGATGCGGTGA+AGG 0.527721 8:-13380083 MsaT041890.1:CDS
TGTGGAGATGCATGCTTCAC+AGG 0.528464 8:+13376984 None:intergenic
CCAGAGAGTATCAGATGCTA+TGG 0.533322 8:-13383122 MsaT041890.1:CDS
TTACCGGGATCAGTCATTCC+AGG 0.533788 8:+13377791 None:intergenic
CCTTTGAAGTTCTAGATGAA+CGG 0.536271 8:+13380300 None:intergenic
GTCTGTTCCGTCAAATTAGA+GGG 0.537189 8:+13380266 None:intergenic
AATTGGGTAGCCATGGCAAA+AGG 0.538707 8:-13380059 MsaT041890.1:CDS
AAGTGCAACAGAATTGTCTC+AGG 0.543345 8:-13380015 MsaT041890.1:intron
TTGGTGAACAAAACTTCCAC+TGG 0.548762 8:-13383156 MsaT041890.1:CDS
CCAAAAGGAAAAGAAAAGAA+TGG 0.553085 8:-13380136 MsaT041890.1:CDS
ACAAGGGGACGATGAACCTA+TGG 0.553695 8:-13383058 MsaT041890.1:intron
TCGCCGCAAGATTTCAAACA+AGG 0.557645 8:-13383075 MsaT041890.1:CDS
GCTCCTGGAATGACTGATCC+CGG 0.561406 8:-13377794 MsaT041890.1:intron
GAAAAGAAAAGAATGGTCAG+AGG 0.561735 8:-13380129 MsaT041890.1:CDS
TGATGTAGCTTCAACATGTA+CGG 0.566855 8:+13380917 None:intergenic
AGGCCAATTTCGGTTTCGCA+GGG 0.572888 8:+13377004 None:intergenic
GGAAGAGGACAATCAGCTAC+GGG 0.574165 8:-13380108 MsaT041890.1:CDS
GGTAGATTCACTTAGCGTGC+GGG 0.580813 8:+13380373 None:intergenic
CTGTTCAGAGATGCGGTGAA+GGG 0.582365 8:-13380082 MsaT041890.1:CDS
GCCAGAAAATAATCCCAAGA+AGG 0.583604 8:-13383388 MsaT041890.1:intron
CGGGCTGCTGTTCAGAGATG+CGG 0.586482 8:-13380089 MsaT041890.1:CDS
AGGAAGAGGACAATCAGCTA+CGG 0.586801 8:-13380109 MsaT041890.1:CDS
TGAAGGGAATTGGGTAGCCA+TGG 0.588079 8:-13380066 MsaT041890.1:CDS
GGACCACAAGCTTGTTGAGA+CGG 0.597179 8:+13377026 None:intergenic
CGCCGCAAGATTTCAAACAA+GGG 0.604213 8:-13383074 MsaT041890.1:CDS
GGGTAGATTCACTTAGCGTG+CGG 0.613224 8:+13380372 None:intergenic
CGTCCGTCTCAACAAGCTTG+TGG 0.613705 8:-13377029 MsaT041890.1:CDS
GAAGCATGCATCTCCACACA+TGG 0.614884 8:-13376979 MsaT041890.1:CDS
GTAGCTTCAACATGTACGGA+AGG 0.615313 8:+13380921 None:intergenic
GCTTGTTGAGACGGACGTTG+AGG 0.616100 8:+13377035 None:intergenic
AGGAACAACCATACGCCAAG+CGG 0.617202 8:+13383097 None:intergenic
ATTCACCTTCGCACATGCTG+AGG 0.618037 8:+13380890 None:intergenic
CTCAATTGTTGAGCTATTAG+GGG 0.619081 8:+13380352 None:intergenic
GCCGCAAGATTTCAAACAAG+GGG 0.627051 8:-13383073 MsaT041890.1:CDS
TAGTGACCTAGATTGCGAGC+TGG 0.630707 8:-13380952 MsaT041890.1:CDS
AGAGTCCTCAGCATGTGCGA+AGG 0.635460 8:-13380895 MsaT041890.1:intron
TGCTACCGAACTACAAACTG+TGG 0.639047 8:+13377058 None:intergenic
GGCCAATTTCGGTTTCGCAG+GGG 0.641281 8:+13377005 None:intergenic
GAAACCAAGAGAATAGTTGG+TGG 0.642501 8:-13380176 MsaT041890.1:CDS
TTCTGTGTTGGTTGTCACAG+TGG 0.646716 8:+13377889 None:intergenic
TTGTTTGAAATCTTGCGGCG+AGG 0.668744 8:+13383077 None:intergenic
GGTTGTCACAGTGGTCGCAG+TGG 0.683356 8:+13377898 None:intergenic
AGCGCTTTACGAAAGAAAGA+CGG 0.703513 8:-13377938 MsaT041890.1:CDS
GCATGCATCTCCACACATGG+AGG 0.707617 8:-13376976 MsaT041890.1:CDS
TCTGGCATTAGAAATACCAG+TGG 0.709866 8:+13383140 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 13376965 13383412 13376965 ID=MsaG041890
Chr8 mRNA 13376965 13383412 13376965 ID=MsaT041890.1;Parent=MsaG041890
Chr8 exon 13376965 13377137 13376965 ID=MsaT041890.1.exon6;Parent=MsaT041890.1
Chr8 CDS 13376965 13377137 13376965 ID=cds.MsaT041890.1;Parent=MsaT041890.1
Chr8 exon 13377795 13377966 13377795 ID=MsaT041890.1.exon5;Parent=MsaT041890.1
Chr8 CDS 13377795 13377966 13377795 ID=cds.MsaT041890.1;Parent=MsaT041890.1
Chr8 exon 13380016 13380408 13380016 ID=MsaT041890.1.exon4;Parent=MsaT041890.1
Chr8 CDS 13380016 13380408 13380016 ID=cds.MsaT041890.1;Parent=MsaT041890.1
Chr8 exon 13380896 13380982 13380896 ID=MsaT041890.1.exon3;Parent=MsaT041890.1
Chr8 CDS 13380896 13380982 13380896 ID=cds.MsaT041890.1;Parent=MsaT041890.1
Chr8 exon 13383059 13383220 13383059 ID=MsaT041890.1.exon2;Parent=MsaT041890.1
Chr8 CDS 13383059 13383220 13383059 ID=cds.MsaT041890.1;Parent=MsaT041890.1
Chr8 exon 13383389 13383412 13383389 ID=MsaT041890.1.exon1;Parent=MsaT041890.1
Chr8 CDS 13383389 13383412 13383389 ID=cds.MsaT041890.1;Parent=MsaT041890.1
Gene Sequence

>MsaT041890.1

ATGCCAGAAAATAATCCCAAGAAGGAATTATCAAATTACCCTGATACCAAATTTGATTGGAATGAATTGGTGAACAAAACTTCCACTGGTATTTCTAATGCCAGAGAGTATCAGATGCTATGGCGCCGCTTGGCGTATGGTTGTTCCTCGCCGCAAGATTTCAAACAAGGGGACGATGAACCTATGGATGATGATAGTGACCTAGATTGCGAGCTGGAATCATTTCCTTCCGTACATGTTGAAGCTACATCAGAGTCCTCAGCATGTGCGAAGGTGATAATTGCTTCCCGCACGCTAAGTGAATCTACCCCTAATAGCTCAACAATTGAGGCTCCAATGACTGTAAATTTTCCAGTTTACCGTTCATCTAGAACTTCAAAGGAAATTTCACAGCCCTCTAATTTGACGGAACAGACAAGCATTACGTTTCCAGTTACTGTTCAGAGACAGAAACTGCGAACTGTGTCAGCAACAGATGCTTTAGAAACCAAGAGAATAGTTGGTGGTACCAGTACCACAGCTTCCAAAAGGAAAAGAAAAGAATGGTCAGAGGAAGAGGACAATCAGCTACGGGCTGCTGTTCAGAGATGCGGTGAAGGGAATTGGGTAGCCATGGCAAAAGGAGACAGATTTCCTATTAAGAGAAGTGCAACAGAATTGTCTCAGAGGTGGAGCGCTTTACGAAAGAAAGACGGCAGTGCCAATTCAGGATCCACTGCGACCACTGTGACAACCAACACAGAATATACTGCTGAACAGTTGGCAACTCGTCACTCCCTAAATTTAGCCCTTGACAAGCCATTCAAAAAGTTTACTGCTCCTGGAATGACTGATCCCGGTAGGACCTCCACACCAATTAAAAATCAAGAGCACTCTCGTAGTACGACGCAAGTCTCCACAGTTTGTAGTTCGGTAGCACCTCAACGTCCGTCTCAACAAGCTTGTGGTCCCCTGCGAAACCGAAATTGGCCTGTGAAGCATGCATCTCCACACATGGAGGCTAATTTTTAA
Protein sequence

>MsaT041890.1

MPENNPKKELSNYPDTKFDWNELVNKTSTGISNAREYQMLWRRLAYGCSSPQDFKQGDDEPMDDDSDLDCELESFPSVHVEATSESSACAKVIIASRTLSESTPNSSTIEAPMTVNFPVYRSSRTSKEISQPSNLTEQTSITFPVTVQRQKLRTVSATDALETKRIVGGTSTTASKRKRKEWSEEEDNQLRAAVQRCGEGNWVAMAKGDRFPIKRSATELSQRWSALRKKDGSANSGSTATTVTTNTEYTAEQLATRHSLNLALDKPFKKFTAPGMTDPGRTSTPIKNQEHSRSTTQVSTVCSSVAPQRPSQQACGPLRNRNWPVKHASPHMEANF*