AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG044746

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG044746 MtrunA17_Chr4g0055611 97.048 542 16 0 1 542 1 542 0.0 1088
MsaG044746 MtrunA17_Chr5g0399781 76.680 253 53 4 1 250 1 250 2.36e-127 372
MsaG044746 MtrunA17_Chr5g0399791 61.826 241 80 2 282 522 6 234 1.33e-94 288
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG044746 AT4G17570.3 50.752 532 227 14 1 518 1 511 3.28e-144 426
MsaG044746 AT4G17570.1 50.188 532 226 15 1 518 1 507 2.58e-139 413
MsaG044746 AT4G17570.2 49.807 518 225 14 15 518 27 523 9.62e-132 394
MsaG044746 AT5G47140.1 46.341 533 205 13 1 518 1 467 3.81e-119 360

Find 110 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTACATGTCTTGCAGTCTTC+AGG 0.202442 8:+64262836 None:intergenic
CCACATGCATTGCATAAAAT+TGG 0.209606 8:+64265630 None:intergenic
TGAGCAACCAAGCTAGAATT+TGG 0.226392 8:+64261840 None:intergenic
GTCCTTCTCGGTCAGTAGTC+TGG 0.257209 8:-64264729 MsaT044746.1:CDS
TGGAATCCTTGATTATATTC+AGG 0.275290 8:+64265417 None:intergenic
TATCCTCATCGACAGCCTTT+TGG 0.278578 8:+64265397 None:intergenic
AGCTGCTCCTGTTGCAGTCT+TGG 0.279584 8:+64264325 None:intergenic
TAAGAACAAAGAAGTGAAAT+TGG 0.296795 8:-64265493 MsaT044746.1:CDS
CGGGGAGATACTTCAGTAAT+TGG 0.306286 8:+64263153 None:intergenic
GTCTTTGATATCTCTTTGTT+TGG 0.309370 8:-64262866 MsaT044746.1:CDS
AGCTGGAAAACGTAATGATA+TGG 0.322982 8:-64262357 MsaT044746.1:CDS
GCTGCTCCTGTTGCAGTCTT+GGG 0.330451 8:+64264326 None:intergenic
TGGCATGAATTTCTCTTCTC+AGG 0.335218 8:-64264377 MsaT044746.1:CDS
TCAGAAAGCTGCGTTCAATT+TGG 0.340455 8:-64265336 MsaT044746.1:CDS
AACAGGATTGCTGTTGTTCA+TGG 0.347627 8:+64264614 None:intergenic
TTCAGAAGAAGCAGAGAAAC+AGG 0.359840 8:+64264597 None:intergenic
TGCTGGCCCAAGACTGCAAC+AGG 0.360278 8:-64264332 MsaT044746.1:CDS
GCACACCACTTTGGCGTAAC+GGG 0.374021 8:-64265665 MsaT044746.1:CDS
AAGACTGCAAGACATGTAAA+AGG 0.374366 8:-64262832 MsaT044746.1:CDS
ATACTGCTAAATTTCCTGAT+AGG 0.379031 8:-64263124 MsaT044746.1:intron
GACATGGAAGCATGCTTATT+AGG 0.380641 8:-64264525 MsaT044746.1:CDS
AATGAGGCATATTCGTGTTA+TGG 0.381814 8:-64264427 MsaT044746.1:CDS
TAACCAGATTCTAACCTATC+AGG 0.386767 8:+64263110 None:intergenic
GTTCGATAGCTTTCAATTCA+AGG 0.390519 8:-64262927 MsaT044746.1:CDS
ACGAATATGCCTCATTCATT+AGG 0.397130 8:+64264434 None:intergenic
TTTGATATCTCTTTGTTTGG+AGG 0.399259 8:-64262863 MsaT044746.1:CDS
TACATGTCTTGCAGTCTTCA+GGG 0.401258 8:+64262837 None:intergenic
GATAATGCTTATGCTGCATC+TGG 0.405843 8:-64265450 MsaT044746.1:CDS
ACAAGCAATAGATCAAGTTC+AGG 0.405979 8:-64265375 MsaT044746.1:CDS
TGGTTAATTTAGGTCCTTCT+CGG 0.410225 8:-64264741 MsaT044746.1:intron
CATTGCGAGGAAATGCAAAT+AGG 0.412981 8:+64261973 None:intergenic
ATTGCATAAAATTGGCTTCT+CGG 0.425605 8:+64265638 None:intergenic
CGTTGATGAGAGTTCGGATC+AGG 0.428748 8:-64261919 MsaT044746.1:CDS
AAACTTCGTTGATGAGAGTT+CGG 0.431868 8:-64261925 MsaT044746.1:CDS
GGAATCCTTGATTATATTCA+GGG 0.435974 8:+64265418 None:intergenic
TTTCTCTGCTTCTTCTGAAG+AGG 0.445798 8:-64264593 MsaT044746.1:CDS
GCTTCTTTGCCACCAGTGCC+AGG 0.446048 8:+64262026 None:intergenic
TTGCATAAAATTGGCTTCTC+GGG 0.450813 8:+64265639 None:intergenic
CCGATGGTCTCTGTTGAGAT+AGG 0.451064 8:-64264547 MsaT044746.1:CDS
GAGCAACCAAGCTAGAATTT+GGG 0.456850 8:+64261841 None:intergenic
CAATGGTGGCTTGCACATGC+TGG 0.457641 8:-64261955 MsaT044746.1:CDS
CTCTTCTCAGGGAGTTGCAA+AGG 0.470360 8:-64264365 MsaT044746.1:CDS
CCTGCTCCCAAATTCTAGCT+TGG 0.478457 8:-64261847 MsaT044746.1:CDS
GAAAGCTGCGTTCAATTTGG+CGG 0.481959 8:-64265333 MsaT044746.1:CDS
CAACAATGAGGAGTCCCAAA+AGG 0.482639 8:-64262061 MsaT044746.1:CDS
TCCTTCTCGGTCAGTAGTCT+GGG 0.482866 8:-64264728 MsaT044746.1:CDS
GGTGGCAAAGAAGCTGTAGA+TGG 0.485633 8:-64262017 MsaT044746.1:CDS
GCCAGTGTAATCACTAAGCA+TGG 0.486056 8:+64264396 None:intergenic
TGTGGAAAAGAATTGTTAGA+TGG 0.494479 8:+64261879 None:intergenic
ATTATACTCCTTTACATGCT+CGG 0.500610 8:-64265575 MsaT044746.1:CDS
CTATTTGCATTTCCTCGCAA+TGG 0.505348 8:-64261972 MsaT044746.1:CDS
CATAAAATTGGCTTCTCGGG+TGG 0.513655 8:+64265642 None:intergenic
TTGAGGATCAGAGAGTTTCA+AGG 0.515344 8:-64265536 MsaT044746.1:CDS
CAGAAAGGTGGAAACAAAGC+TGG 0.517998 8:-64262374 MsaT044746.1:CDS
GGCATGAATTTCTCTTCTCA+GGG 0.528773 8:-64264376 MsaT044746.1:CDS
AATTCTAGCTTGGTTGCTCA+AGG 0.529989 8:-64261837 MsaT044746.1:CDS
CGAGTATACTGAGCTACTAC+TGG 0.530369 8:+64261809 None:intergenic
CGCAACATTACTTGATGCCA+CGG 0.532105 8:+64262325 None:intergenic
GGCACACCACTTTGGCGTAA+CGG 0.532158 8:-64265666 MsaT044746.1:CDS
TAAACAATGCCTAATGAATG+AGG 0.536919 8:-64264443 MsaT044746.1:CDS
TTGCAATAGGCACACCACTT+TGG 0.540892 8:-64265674 MsaT044746.1:intron
TTTCAGAAACTTCTCGAGGA+AGG 0.544680 8:-64262890 MsaT044746.1:CDS
CCAAGCTAGAATTTGGGAGC+AGG 0.546142 8:+64261847 None:intergenic
ACCTGTCAAATCACTAGCAT+CGG 0.546237 8:+64265308 None:intergenic
GCAAAGGTCAGAAACTCTGC+TGG 0.547430 8:-64264349 MsaT044746.1:CDS
GTATCTGTCCGAGCATGTAA+AGG 0.548439 8:+64265567 None:intergenic
AGAAGAATGCTTCAGACGCC+CGG 0.550473 8:+64264672 None:intergenic
ACCGATGCTAGTGATTTGAC+AGG 0.552424 8:-64265309 MsaT044746.1:intron
AACAATGAGGAGTCCCAAAA+GGG 0.557773 8:-64262060 MsaT044746.1:CDS
TTCACCCCTGAATATAATCA+AGG 0.559752 8:-64265423 MsaT044746.1:CDS
ACATTACTTGATGCCACGGC+AGG 0.560071 8:+64262329 None:intergenic
GGATCTCGATGGAGGACAAA+GGG 0.566793 8:-64265609 MsaT044746.1:CDS
TCGTCACGAGCTATAGAGCT+AGG 0.567657 8:+64264499 None:intergenic
ATATAATCAAGGATTCCAAA+AGG 0.569920 8:-64265412 MsaT044746.1:CDS
GATTGAGACATGGGAAAACA+AGG 0.576682 8:-64266938 None:intergenic
TTTGCATTTCCTCGCAATGG+TGG 0.577452 8:-64261969 MsaT044746.1:CDS
AATTTAGCAGTATCAACCAC+GGG 0.579103 8:+64263134 None:intergenic
TTACAAAAGTGAAACTCCGA+TGG 0.581064 8:-64264563 MsaT044746.1:CDS
GCAGCTTTCTGAATTAGAGA+TGG 0.584857 8:+64265347 None:intergenic
CAAGCAATAGATCAAGTTCA+GGG 0.586403 8:-64265374 MsaT044746.1:CDS
AGCTCGTGACGAAGAGTCTG+AGG 0.591447 8:-64264488 MsaT044746.1:CDS
GTCTCTGTTGAGATAGGACA+TGG 0.594614 8:-64264541 MsaT044746.1:CDS
ATGCTTATGCTGCATCTGGA+TGG 0.594811 8:-64265446 MsaT044746.1:CDS
ATAGTAAAACCTGGCACTGG+TGG 0.598374 8:-64262035 MsaT044746.1:CDS
TGGATCTCGATGGAGGACAA+AGG 0.599405 8:-64265610 MsaT044746.1:CDS
TGCAACAGGAGCAGCTTGTG+TGG 0.602488 8:-64264318 MsaT044746.1:intron
GTGATAGTAAAACCTGGCAC+TGG 0.602888 8:-64262038 MsaT044746.1:CDS
CTTCTACGAGTGCAGAAAGG+TGG 0.623014 8:-64262386 MsaT044746.1:intron
GTAACTCCACAGTGAAAGCA+AGG 0.627202 8:+64266914 None:intergenic
CCAGTGTAATCACTAAGCAT+GGG 0.628822 8:+64264397 None:intergenic
AAAAGGGTGATAGTAAAACC+TGG 0.635517 8:-64262044 MsaT044746.1:CDS
CAGAATTGAAGACAACAATG+AGG 0.642781 8:-64262073 MsaT044746.1:CDS
GGGAGCAGGAGCTCTGCCTG+TGG 0.642912 8:+64261861 None:intergenic
ATGTGCAAGCCACCATTGCG+AGG 0.645717 8:+64261960 None:intergenic
CCTATCTCAACAGAGACCAT+CGG 0.650405 8:+64264547 None:intergenic
TGATATGGAATCTCCTGCCG+TGG 0.657248 8:-64262342 MsaT044746.1:CDS
CGATAGCTTTCAATTCAAGG+AGG 0.658269 8:-64262924 MsaT044746.1:CDS
GAATCCTTGATTATATTCAG+GGG 0.659607 8:+64265419 None:intergenic
ATTCCAAAAGGCTGTCGATG+AGG 0.660779 8:-64265400 MsaT044746.1:CDS
TCCCAGACTACTGACCGAGA+AGG 0.665184 8:+64264727 None:intergenic
GCAATGCATGTGGATCTCGA+TGG 0.669120 8:-64265620 MsaT044746.1:CDS
GGTGGCCCGTTACGCCAAAG+TGG 0.670404 8:+64265660 None:intergenic
CCCATGCTTAGTGATTACAC+TGG 0.670617 8:-64264397 MsaT044746.1:CDS
ATGCATGTGGATCTCGATGG+AGG 0.680507 8:-64265617 MsaT044746.1:CDS
TTAGGATGTAGTGAACTACA+AGG 0.684148 8:-64263210 MsaT044746.1:intron
AAATTTAGCAGTATCAACCA+CGG 0.687637 8:+64263133 None:intergenic
CAAGGACCTTGCTTTCACTG+TGG 0.702292 8:-64266920 MsaT044746.1:CDS
GTCAGTAGTCTGGGATACTG+CGG 0.720733 8:-64264719 MsaT044746.1:CDS
ATTACTGAAGTATCTCCCCG+TGG 0.761483 8:-64263150 MsaT044746.1:CDS
ATTTAGCAGTATCAACCACG+GGG 0.799155 8:+64263135 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 64261791 64266951 64261791 ID=MsaG044746
Chr8 mRNA 64261791 64266951 64261791 ID=MsaT044746.1;Parent=MsaG044746
Chr8 exon 64261791 64262092 64261791 ID=MsaT044746.1.exon8;Parent=MsaT044746.1
Chr8 CDS 64261791 64262092 64261791 ID=cds.MsaT044746.1;Parent=MsaT044746.1
Chr8 exon 64262282 64262393 64262282 ID=MsaT044746.1.exon7;Parent=MsaT044746.1
Chr8 CDS 64262282 64262393 64262282 ID=cds.MsaT044746.1;Parent=MsaT044746.1
Chr8 exon 64262775 64262961 64262775 ID=MsaT044746.1.exon6;Parent=MsaT044746.1
Chr8 CDS 64262775 64262961 64262775 ID=cds.MsaT044746.1;Parent=MsaT044746.1
Chr8 exon 64263125 64263228 64263125 ID=MsaT044746.1.exon5;Parent=MsaT044746.1
Chr8 CDS 64263125 64263228 64263125 ID=cds.MsaT044746.1;Parent=MsaT044746.1
Chr8 exon 64263857 64263929 64263857 ID=MsaT044746.1.exon4;Parent=MsaT044746.1
Chr8 CDS 64263857 64263929 64263857 ID=cds.MsaT044746.1;Parent=MsaT044746.1
Chr8 exon 64264319 64264751 64264319 ID=MsaT044746.1.exon3;Parent=MsaT044746.1
Chr8 CDS 64264319 64264751 64264319 ID=cds.MsaT044746.1;Parent=MsaT044746.1
Chr8 exon 64265310 64265687 64265310 ID=MsaT044746.1.exon2;Parent=MsaT044746.1
Chr8 CDS 64265310 64265687 64265310 ID=cds.MsaT044746.1;Parent=MsaT044746.1
Chr8 exon 64266912 64266951 64266912 ID=MsaT044746.1.exon1;Parent=MsaT044746.1
Chr8 CDS 64266912 64266951 64266912 ID=cds.MsaT044746.1;Parent=MsaT044746.1
Gene Sequence

>MsaT044746.1

ATGGGAAAACAAGGACCTTGCTTTCACTGTGGAGTTACAAGCACACCACTTTGGCGTAACGGGCCACCCGAGAAGCCAATTTTATGCAATGCATGTGGATCTCGATGGAGGACAAAGGGAACACTTGCAAATTATACTCCTTTACATGCTCGGACAGATACTGTCGATTTTGAGGATCAGAGAGTTTCAAGGTTAAAGATTGTATCATTAAATAAGAACAAAGAAGTGAAATTGGTTAAACGAAAGCAGAACTATGATAATGCTTATGCTGCATCTGGATGGTTCACCCCTGAATATAATCAAGGATTCCAAAAGGCTGTCGATGAGGATACAAGCAATAGATCAAGTTCAGGGTCAGCCATCTCTAATTCAGAAAGCTGCGTTCAATTTGGCGGCACCGATGCTAGTGATTTGACAGGTCCTTCTCGGTCAGTAGTCTGGGATACTGCGGCGCCTTCAAAAAAGAGAACATGTGCCGGGCGTCTGAAGCATTCTTCTGTTGAAAAGCTCACACAAGACTTGTGTACTATTCTCCATGAACAACAGCAATCCTGTTTCTCTGCTTCTTCTGAAGAGGAACTTCTTTACAAAAGTGAAACTCCGATGGTCTCTGTTGAGATAGGACATGGAAGCATGCTTATTAGGCATCCTAGCTCTATAGCTCGTGACGAAGAGTCTGAGGCTAGCTCTCTTTCAGTTGATAATAAACAATGCCTAATGAATGAGGCATATTCGTGTTATGGTTCAATTCCCATGCTTAGTGATTACACTGGCATGAATTTCTCTTCTCAGGGAGTTGCAAAGGTCAGAAACTCTGCTGGCCCAAGACTGCAACAGGAGCAGCTTGTGTGGGACAAGTCTCAGCTTGAAAAACTAGAAGTTCTTGGAAATCATGATTCATCACTGTGCTCAATAGATTTAAATGATGTAGTGAACTACAAGGAGTTTTCAAGAAACTTGACAAATGAAGAGCAGCACCAATTACTGAAGTATCTCCCCGTGGTTGATACTGCTAAATTTCCTGATAGCATTAAAATTATGTTCGATAGCTTTCAATTCAAGGAGGAGTTAACTTATTTTCAGAAACTTCTCGAGGAAGGTGTCTTTGATATCTCTTTGTTTGGAGGAGACCCTGAAGACTGCAAGACATGTAAAAGGCTTGCATTATCTAACTTGTCAAAGTCAAAATGTGTAGAACACTATAATTTTCTCAAGAAAGGTGGAAACAAAGCTGGAAAACGTAATGATATGGAATCTCCTGCCGTGGCATCAAGTAATGTTGCGAATGTTAAGAGATTGCGTGTCAGCCAAAATCAAAATTTTCCAGAATTGAAGACAACAATGAGGAGTCCCAAAAGGGTGATAGTAAAACCTGGCACTGGTGGCAAAGAAGCTGTAGATGGCTCTAGCATCAGTCCAAAAAGCCTATTTGCATTTCCTCGCAATGGTGGCTTGCACATGCTGGATTCTTTAAACTTCGTTGATGAGAGTTCGGATCAGGATCTGCTGCTAGAGTTTCCATCTAACAATTCTTTTCCACAGGCAGAGCTCCTGCTCCCAAATTCTAGCTTGGTTGCTCAAGGAAGCACCAGTAGTAGCTCAGTATACTCGCATGTTACTCGTCCTTGA
Protein sequence

>MsaT044746.1

MGKQGPCFHCGVTSTPLWRNGPPEKPILCNACGSRWRTKGTLANYTPLHARTDTVDFEDQRVSRLKIVSLNKNKEVKLVKRKQNYDNAYAASGWFTPEYNQGFQKAVDEDTSNRSSSGSAISNSESCVQFGGTDASDLTGPSRSVVWDTAAPSKKRTCAGRLKHSSVEKLTQDLCTILHEQQQSCFSASSEEELLYKSETPMVSVEIGHGSMLIRHPSSIARDEESEASSLSVDNKQCLMNEAYSCYGSIPMLSDYTGMNFSSQGVAKVRNSAGPRLQQEQLVWDKSQLEKLEVLGNHDSSLCSIDLNDVVNYKEFSRNLTNEEQHQLLKYLPVVDTAKFPDSIKIMFDSFQFKEELTYFQKLLEEGVFDISLFGGDPEDCKTCKRLALSNLSKSKCVEHYNFLKKGGNKAGKRNDMESPAVASSNVANVKRLRVSQNQNFPELKTTMRSPKRVIVKPGTGGKEAVDGSSISPKSLFAFPRNGGLHMLDSLNFVDESSDQDLLLEFPSNNSFPQAELLLPNSSLVAQGSTSSSSVYSHVTRP*