AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG007119

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG007119 MtrunA17_Chr3g0088371 57.609 184 43 3 240 388 1 184 2.67e-58 188
MsaG007119 MtrunA17_Chr1g0172971 82.692 52 9 0 1 52 66 117 7.71e-21 94.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 62 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTCGATGAGTTAACTAATT+TGG 0.156761 2:+13995915 MsaT007119.1:CDS
AGTCGCTTCTTTGACCTAAT+TGG 0.186128 2:-13997040 None:intergenic
GAACACCGTTGAGAAATATT+TGG 0.241743 2:-13996868 None:intergenic
GTTGATATCGTTGCGCTTGA+TGG 0.296035 2:-13996789 None:intergenic
TTCTTTGACCTAATTGGATT+TGG 0.299426 2:-13997034 None:intergenic
GAATCGATTTCGACTACAAT+TGG 0.318510 2:+13995955 MsaT007119.1:CDS
TGTTCTTGAGGCAGGGAAAA+AGG 0.322946 2:+13996886 MsaT007119.1:CDS
TTTGCTTCTTCCGAGCTATA+AGG 0.345757 2:-13997102 None:intergenic
GGTTTCGAATGTTGATGTTT+TGG 0.354913 2:+13996473 MsaT007119.1:CDS
CTCAACGGTGTTCTTGAGGC+AGG 0.386173 2:+13996878 MsaT007119.1:CDS
GTCTTTAGTGCCAACATTCA+TGG 0.395146 2:-13996765 None:intergenic
TTCTCATACTCAACAAGAAC+TGG 0.395633 2:-13994669 None:intergenic
AAGAAAGACCAAATCCAATT+AGG 0.397771 2:+13997026 MsaT007119.1:CDS
TTTGGTCTTTCTTTGAACTT+TGG 0.398856 2:-13997016 None:intergenic
GAGGAGTTTCTTATTTCTAA+AGG 0.403538 2:+13996911 MsaT007119.1:CDS
CATGTCGTATGTTTGAGAAC+CGG 0.411671 2:+13996598 MsaT007119.1:CDS
GATTATGATCTTCAAACCTT+GGG 0.413114 2:-13996521 None:intergenic
CGATTATGATCTTCAAACCT+TGG 0.425681 2:-13996522 None:intergenic
CGTATGCATTGGTCTTCGCT+TGG 0.431648 2:+13996051 MsaT007119.1:CDS
AGCTGGAATATATTTGAAGT+TGG 0.433136 2:+13994728 MsaT007119.1:CDS
GAAAGGGTTGGTTGTAAAGC+TGG 0.447509 2:+13994711 MsaT007119.1:CDS
CGTTATGTTTGTAACAAAGA+AGG 0.449439 2:+13994594 MsaT007119.1:CDS
TGGTCTTTGCTCATGGCACA+TGG 0.452802 2:+13995849 MsaT007119.1:CDS
GTATGCATTGGTCTTCGCTT+GGG 0.454287 2:+13996052 MsaT007119.1:CDS
ATGTCGTATGTTTGAGAACC+GGG 0.461344 2:+13996599 MsaT007119.1:CDS
AAGGCCTACTTGACTTTAAG+TGG 0.468789 2:+13996007 MsaT007119.1:CDS
ACAAAATAAGAAATCGGATA+AGG 0.469178 2:+13994560 MsaT007119.1:CDS
GGGTTGTCACAGTCGACATT+GGG 0.480993 2:+13996556 MsaT007119.1:CDS
TTACAACCAACCCTTTCCTC+TGG 0.485330 2:-13994705 None:intergenic
CTGTCTGTGAACCATCTGTT+GGG 0.487793 2:+13996987 MsaT007119.1:CDS
CTCAAGTAGCACAAATGCTC+TGG 0.489977 2:-13994816 None:intergenic
CAATTCACAAAATAAGAAAT+CGG 0.490263 2:+13994554 MsaT007119.1:CDS
AATCGATTTCGACTACAATT+GGG 0.495092 2:+13995956 MsaT007119.1:CDS
GCTGTCTGTGAACCATCTGT+TGG 0.504047 2:+13996986 MsaT007119.1:CDS
AAATGCTCTGGTTTATGTAA+TGG 0.504865 2:-13994804 None:intergenic
CTCATTCAAATCGTATGCAT+TGG 0.507227 2:+13996040 MsaT007119.1:CDS
ATCATAATCGACTTGATGAA+AGG 0.507955 2:+13996535 MsaT007119.1:CDS
TGTCTATAAGATATATAAGT+GGG 0.514682 2:+13994764 MsaT007119.1:CDS
GATCTTCAAACCTTGGGGAA+AGG 0.519004 2:-13996515 None:intergenic
TAACAAAGAAGGTTTCAAGA+AGG 0.525236 2:+13994605 MsaT007119.1:CDS
TCATAATCGACTTGATGAAA+GGG 0.526860 2:+13996536 MsaT007119.1:CDS
GACAGAAATTCCTTATAGCT+CGG 0.533906 2:+13997092 MsaT007119.1:CDS
AGGGTTGTCACAGTCGACAT+TGG 0.538587 2:+13996555 MsaT007119.1:CDS
AACAAAGAAGGTTTCAAGAA+GGG 0.545537 2:+13994606 MsaT007119.1:CDS
GTGAAATCCACCATGAATGT+TGG 0.568119 2:+13996755 MsaT007119.1:intron
CAAGCCACTTAAAGTCAAGT+AGG 0.569623 2:-13996011 None:intergenic
ATGTCTATAAGATATATAAG+TGG 0.572287 2:+13994763 MsaT007119.1:CDS
TTTGGTGCAGTCCCAACAGA+TGG 0.581566 2:-13996998 None:intergenic
GGAGAATGCAAAGAAAATCT+CGG 0.585106 2:+13995871 MsaT007119.1:CDS
GAAGCAAAAGAAAGATGATG+AGG 0.585686 2:+13997117 MsaT007119.1:CDS
TCAACGGTGTTCTTGAGGCA+GGG 0.590097 2:+13996879 MsaT007119.1:CDS
ATTTCTCAACGGTGTTCTTG+AGG 0.591378 2:+13996874 MsaT007119.1:CDS
TTGAAGAAAACCTTTCCCCA+AGG 0.594796 2:+13996505 MsaT007119.1:CDS
TGAAGACTTAGAAGGCGTAA+CGG 0.598405 2:-13996954 None:intergenic
ACATCGTTTGCGCAGATGCG+AGG 0.603656 2:+13996842 MsaT007119.1:CDS
AGAACTGGACTGTCACATGT+TGG 0.620791 2:-13994654 None:intergenic
ATTATGATCTTCAAACCTTG+GGG 0.630358 2:-13996520 None:intergenic
GGTCTTTGCTCATGGCACAT+GGG 0.639768 2:+13995850 MsaT007119.1:CDS
TTTAGTGCCAACATTCATGG+TGG 0.641441 2:-13996762 None:intergenic
GGCATCCAAATATTTCTCAA+CGG 0.643931 2:+13996863 MsaT007119.1:CDS
CATGTCGACATAAGAAACCC+CGG 0.663279 2:-13996617 None:intergenic
TGTCGTATGTTTGAGAACCG+GGG 0.673760 2:+13996600 MsaT007119.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 13994537 13997153 13994537 ID=MsaG007119
Chr2 mRNA 13994537 13997153 13994537 ID=MsaT007119.1;Parent=MsaG007119
Chr2 exon 13994537 13994851 13994537 ID=MsaT007119.1.exon1;Parent=MsaT007119.1
Chr2 CDS 13994537 13994851 13994537 ID=cds.MsaT007119.1;Parent=MsaT007119.1
Chr2 exon 13995805 13996073 13995805 ID=MsaT007119.1.exon2;Parent=MsaT007119.1
Chr2 CDS 13995805 13996073 13995805 ID=cds.MsaT007119.1;Parent=MsaT007119.1
Chr2 exon 13996473 13996663 13996473 ID=MsaT007119.1.exon3;Parent=MsaT007119.1
Chr2 CDS 13996473 13996663 13996473 ID=cds.MsaT007119.1;Parent=MsaT007119.1
Chr2 exon 13996756 13997153 13996756 ID=MsaT007119.1.exon4;Parent=MsaT007119.1
Chr2 CDS 13996756 13997153 13996756 ID=cds.MsaT007119.1;Parent=MsaT007119.1
Gene Sequence

>MsaT007119.1

ATGTTGAAGTCCAAGAACAATTCACAAAATAAGAAATCGGATAAGGTACATTATGTGCGTTATGTTTGTAACAAAGAAGGTTTCAAGAAGGGAAGTCTGCTTAATCCTAAAAACAGGCCAACATGTGACAGTCCAGTTCTTGTTGAGTATGAGAAAGCTAAAGAAAAACCAGAGGAAAGGGTTGGTTGTAAAGCTGGAATATATTTGAAGTTGGATGAAGCGTTGAATGTCTATAAGATATATAAGTGGGAAGTTGATCACTGTCATCCATTACATAAACCAGAGCATTTGTGCTACTTGAGATCATTTCGAGAATGCGTTGTTGAAGTCAATTCGAATGTTTTTCAAGGTGTTTTTCATGGTCTTTGCTCATGGCACATGGGAGAATGCAAAGAAAATCTCGGCTCTCGTGCAAACAGTGCATTTTTCGATGAGTTAACTAATTTGGTTTCAAATGTCGAAGATGAATCGATTTCGACTACAATTGGGATCGATGATGAAAAGCTGCTTTTAATGGAAGGCCTACTTGACTTTAAGTGGCTTGTTCAAACTCATTCAAATCGTATGCATTGGTCTTCGCTTGGGGTTTCGAATGTTGATGTTTTGGATGCAGAATTTGAAGAAAACCTTTCCCCAAGGTTTGAAGATCATAATCGACTTGATGAAAGGGTTGTCACAGTCGACATTGGGAGCAAAAGTTTTACTTGTTCATGTCGTATGTTTGAGAACCGGGGTTTCTTATGTCGACATGTTTTCAAGATTTTGGAGGTCTTAGTGAAATCCACCATGAATGTTGGCACTAAAGACACCATCAAGCGCAACGATATCAACAAATTTGTGTTGTTACTGATTCGACTTTCTACATCGTTTGCGCAGATGCGAGGCATCCAAATATTTCTCAACGGTGTTCTTGAGGCAGGGAAAAAGGCAGAGGAGTTTCTTATTTCTAAAGGTATTCATACAGATCGATCATCCGTTACGCCTTCTAAGTCTTCAAAAGCAGTTGCTGTCTGTGAACCATCTGTTGGGACTGCACCAAAGTTCAAAGAAAGACCAAATCCAATTAGGTCAAAGAAGCGACTTAAAAGTGATTATGAAAAAGCTAGAGCAAGACAGAAATTCCTTATAGCTCGGAAGAAGCAAAAGAAAGATGATGAGGCTTTAACAAATTAA
Protein sequence

>MsaT007119.1

MLKSKNNSQNKKSDKVHYVRYVCNKEGFKKGSLLNPKNRPTCDSPVLVEYEKAKEKPEERVGCKAGIYLKLDEALNVYKIYKWEVDHCHPLHKPEHLCYLRSFRECVVEVNSNVFQGVFHGLCSWHMGECKENLGSRANSAFFDELTNLVSNVEDESISTTIGIDDEKLLLMEGLLDFKWLVQTHSNRMHWSSLGVSNVDVLDAEFEENLSPRFEDHNRLDERVVTVDIGSKSFTCSCRMFENRGFLCRHVFKILEVLVKSTMNVGTKDTIKRNDINKFVLLLIRLSTSFAQMRGIQIFLNGVLEAGKKAEEFLISKGIHTDRSSVTPSKSSKAVAVCEPSVGTAPKFKERPNPIRSKKRLKSDYEKARARQKFLIARKKQKKDDEALTN*