AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG021313


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG021313 MtrunA17_Chr4g0037381 100.000 78 0 0 1 78 1 78 7.10e-55 171
MsaG021313 MtrunA17_Chr8g0371801 44.878 205 99 3 1 202 1 194 2.61e-34 122
MsaG021313 MtrunA17_Chr3g0080991 71.930 57 15 1 146 202 2160 2215 4.45e-12 64.7
MsaG021313 MtrunA17_Chr3g0080991 78.846 52 11 0 146 197 2052 2103 3.01e-11 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG021313 AT2G21060.1 55.769 208 67 2 3 203 12 201 2.24e-42 142
MsaG021313 AT4G36020.1 43.519 216 105 3 1 202 6 218 2.16e-40 139
MsaG021313 AT4G36020.3 43.519 216 105 3 1 202 6 218 2.16e-40 139
MsaG021313 AT4G36020.2 44.601 213 99 3 1 199 6 213 2.64e-40 138
MsaG021313 AT2G17870.1 48.980 196 74 3 2 197 7 176 4.25e-35 125
MsaG021313 AT4G38680.1 53.953 215 61 2 3 200 8 201 1.18e-32 117

Find 106 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGTGGTGGAGGTGGTGGTTA+TGG 0.245413 4:-64869976 MsaT021313.1:CDS
GGTGGAGGTGGAGGTGGTTA+TGG 0.260026 4:-64869931 MsaT021313.1:CDS
TATGGAGGAGGTGGTGGTTA+TGG 0.270427 4:-64869913 MsaT021313.1:CDS
GGTGGCTATGGTGGAGGTGG+AGG 0.278061 4:-64869940 MsaT021313.1:CDS
AGGTATGGAGGTGGTGGTGG+TGG 0.283884 4:-64869778 MsaT021313.1:CDS
TATGGTGGTGGTGGAAGAGG+TGG 0.295052 4:-64869895 MsaT021313.1:CDS
GGCCGTGGAGGAGGCGGTGG+TGG 0.304119 4:-64869871 MsaT021313.1:CDS
ATGAGTGGGTCAAAATTAAC+TGG 0.306323 4:-64870285 MsaT021313.1:CDS
GGTTACGGTGGTGGCGGTTA+TGG 0.316775 4:-64869997 MsaT021313.1:CDS
GGTGGTGGCTATGGTGGAGG+TGG 0.316871 4:-64869943 MsaT021313.1:CDS
CCTGATGGTGCTTCTGTTCA+AGG 0.337236 4:-64870072 MsaT021313.1:CDS
GGCGGTTATGGTGGTGGAGG+TGG 0.338413 4:-64869985 MsaT021313.1:CDS
TTCAATGATCAGAAGGGGTT+TGG 0.339445 4:-64870249 MsaT021313.1:CDS
CGCGGAGGCGGTGGCGGTGG+AGG 0.352586 4:-64870042 MsaT021313.1:CDS
GGTGGTGGTGGTGGAGGCAG+TGG 0.354613 4:-64869769 MsaT021313.1:CDS
GGAGGTGGAGGTGGTTATGG+AGG 0.355689 4:-64869928 MsaT021313.1:CDS
GGCTATGGTGGAGGTGGAGG+TGG 0.356154 4:-64869937 MsaT021313.1:CDS
GGAAGAGGAGGTGGTGGCTA+TGG 0.357145 4:-64869952 MsaT021313.1:CDS
GGAAGGTATGGAGGTGGTGG+TGG 0.365647 4:-64869781 MsaT021313.1:CDS
TCCAAGGCTGTTAGCGTGAC+TGG 0.369895 4:-64870096 MsaT021313.1:CDS
GGTGGCGGTGGAAGGTATGG+AGG 0.384868 4:-64869790 MsaT021313.1:CDS
GGTGGTGGCGGTGGAAGGTA+TGG 0.387598 4:-64869793 MsaT021313.1:CDS
GGTTATGGTGGTGGTGGAAG+AGG 0.389445 4:-64869898 MsaT021313.1:CDS
AACTCCTCACTTCCATCATC+AGG 0.391515 4:+64870216 None:intergenic
GGTGGTTATGGAGGAGGTGG+TGG 0.392511 4:-64869919 MsaT021313.1:CDS
TGTACCAGCGGTGGAGGTGG+TGG 0.393098 4:-64869808 MsaT021313.1:CDS
TGCTACAGCTGTGGTGAATC+TGG 0.396062 4:-64869736 MsaT021313.1:CDS
GGAGGTGGTGGTTATGGTGG+TGG 0.397534 4:-64869907 MsaT021313.1:CDS
TGGTGGTGGTGGAAGAGGTG+GGG 0.399416 4:-64869893 MsaT021313.1:CDS
AGACGCGGAGGCGGTGGCGG+TGG 0.401671 4:-64870045 MsaT021313.1:CDS
ATGGTGGTGGTGGAAGAGGT+GGG 0.402824 4:-64869894 MsaT021313.1:CDS
AGCGGTGGAGGTGGTGGCGG+TGG 0.408716 4:-64869802 MsaT021313.1:CDS
GGTGGTGGAGGCAGTGGCGG+TGG 0.415366 4:-64869763 MsaT021313.1:CDS
TATGGAGGTGGTGGTGGTGG+AGG 0.416098 4:-64869775 MsaT021313.1:CDS
TCGAGACGCGGAGGCGGTGG+CGG 0.417231 4:-64870048 MsaT021313.1:CDS
GAACGTGGTGGTGGTGGTTA+CGG 0.418432 4:-64870012 MsaT021313.1:CDS
GGTGGAGGTGGTTATGGAGG+AGG 0.420020 4:-64869925 MsaT021313.1:CDS
GGTGGTGGTGGAAGAGGTGG+GGG 0.422868 4:-64869892 MsaT021313.1:CDS
AGAGGAGGTGGTGGCTATGG+TGG 0.424510 4:-64869949 MsaT021313.1:CDS
GGTGGTGGTGGAGGCAGTGG+CGG 0.424613 4:-64869766 MsaT021313.1:CDS
GGAGGTGGTTATGGAGGAGG+TGG 0.426099 4:-64869922 MsaT021313.1:CDS
GGTTATGGTGGAAGAGGAGG+TGG 0.427128 4:-64869961 MsaT021313.1:CDS
TGTTACAACTGTGGTGAATC+TGG 0.428449 4:-64869847 MsaT021313.1:CDS
GGTGGAGGTGGTGGTTATGG+TGG 0.432658 4:-64869973 MsaT021313.1:CDS
TTTGCTAGAGATTGTCCAAC+AGG 0.434784 4:-64869709 MsaT021313.1:CDS
AATTAACTGGGAAGGTGAAA+TGG 0.440654 4:-64870272 MsaT021313.1:CDS
GTGGAGGTGGTGGCGGTGGA+AGG 0.441131 4:-64869798 MsaT021313.1:CDS
GGTTATGGTGGTGGAGGTGG+TGG 0.444295 4:-64869982 MsaT021313.1:CDS
GGAGGCGGTGGCGGTGGAGG+TGG 0.446329 4:-64870039 MsaT021313.1:CDS
AGGGAGTGTACCAGCGGTGG+AGG 0.448006 4:-64869814 MsaT021313.1:CDS
ACCAGCGGTGGAGGTGGTGG+CGG 0.451970 4:-64869805 MsaT021313.1:CDS
GGAGGAGGTGGTGGTTATGG+TGG 0.453646 4:-64869910 MsaT021313.1:CDS
GGTGGTGGCGGTTATGGTGG+TGG 0.454112 4:-64869991 MsaT021313.1:CDS
GGATCGAGACGCGGAGGCGG+TGG 0.464328 4:-64870051 MsaT021313.1:CDS
GGTGGAAGGTATGGAGGTGG+TGG 0.464973 4:-64869784 MsaT021313.1:CDS
GAGTGTACCAGCGGTGGAGG+TGG 0.465774 4:-64869811 MsaT021313.1:CDS
GGTGGTGGTGGTTACGGTGG+TGG 0.466074 4:-64870006 MsaT021313.1:CDS
GGTGGTGGTTATGGTGGTGG+TGG 0.466088 4:-64869904 MsaT021313.1:CDS
GGCGGTGGAAGGTATGGAGG+TGG 0.466630 4:-64869787 MsaT021313.1:CDS
GGTGGTTATGAACGTGGTGG+TGG 0.470130 4:-64870021 MsaT021313.1:CDS
GGTTATGAACGTGGTGGTGG+TGG 0.471310 4:-64870018 MsaT021313.1:CDS
TCCAGTCACGCTAACAGCCT+TGG 0.474100 4:+64870095 None:intergenic
GGATTCATCACCCCTGATGA+TGG 0.483119 4:-64870228 MsaT021313.1:CDS
GGAGGTGGTGGCTATGGTGG+AGG 0.490451 4:-64869946 MsaT021313.1:CDS
GGTGGTGGTTACGGTGGTGG+CGG 0.491692 4:-64870003 MsaT021313.1:CDS
ACCGCCACCACCTCCACCGC+TGG 0.498982 4:+64869804 None:intergenic
CTTCAACGAGCGCTGCCTGT+TGG 0.500201 4:+64869694 None:intergenic
CATCAGTCTGGATCTGAGAT+TGG 0.500424 4:+64870184 None:intergenic
GAGAGCGGAATCCATCAGTC+TGG 0.502708 4:+64870172 None:intergenic
TATGGTGGAAGAGGAGGTGG+TGG 0.507234 4:-64869958 MsaT021313.1:CDS
GGTGGCGGTTATGGTGGTGG+AGG 0.507909 4:-64869988 MsaT021313.1:CDS
CCTTGAACAGAAGCACCATC+AGG 0.525346 4:+64870072 None:intergenic
GGTGGTGGTTATGGTGGAAG+AGG 0.528058 4:-64869967 MsaT021313.1:CDS
GGTGGTTATGGTGGAAGAGG+AGG 0.530270 4:-64869964 MsaT021313.1:CDS
TACGGTGGTGGCGGTTATGG+TGG 0.535417 4:-64869994 MsaT021313.1:CDS
CAAGGATCGAGACGCGGAGG+CGG 0.550280 4:-64870054 MsaT021313.1:CDS
AAAATTCAATTCATCATGAG+TGG 0.553878 4:-64870300 None:intergenic
CAATCTCAGATCCAGACTGA+TGG 0.559889 4:-64870183 MsaT021313.1:CDS
ATCCACCACCGCCTCCTCCA+CGG 0.561523 4:+64869869 None:intergenic
GAAATGGTTCAATGATCAGA+AGG 0.565831 4:-64870256 MsaT021313.1:CDS
GGATTCCGCTCTCTTGCTGA+AGG 0.577787 4:-64870162 MsaT021313.1:CDS
CGTGGTGGTGGTGGTTACGG+TGG 0.581197 4:-64870009 MsaT021313.1:CDS
ACTCCTCACTTCCATCATCA+GGG 0.589005 4:+64870217 None:intergenic
GTTAGCGTGACTGGACCTGA+TGG 0.602247 4:-64870087 MsaT021313.1:CDS
GCAAGGGAGTGTACCAGCGG+TGG 0.606856 4:-64869817 MsaT021313.1:CDS
CTGTGGTGAATCTGGCCACA+TGG 0.607505 4:-64869839 MsaT021313.1:CDS
GTGAATCTGGCCACATGGCA+AGG 0.610638 4:-64869834 MsaT021313.1:CDS
TGATAACGATGGAAGATCCA+AGG 0.617668 4:-64870112 MsaT021313.1:CDS
TGAATCTGGCCACATGGCAA+GGG 0.618787 4:-64869833 MsaT021313.1:CDS
AAATGGTTCAATGATCAGAA+GGG 0.619071 4:-64870255 MsaT021313.1:CDS
CACCCCTGATGATGGAAGTG+AGG 0.619233 4:-64870220 MsaT021313.1:CDS
AATGGTTCAATGATCAGAAG+GGG 0.619776 4:-64870254 MsaT021313.1:CDS
TGGGTCAAAATTAACTGGGA+AGG 0.622767 4:-64870280 MsaT021313.1:CDS
GGTGGAAGCTGCTACAGCTG+TGG 0.625709 4:-64869745 MsaT021313.1:CDS
AAATTCAATTCATCATGAGT+GGG 0.626143 4:-64870299 None:intergenic
CAGATTGAGTCTGATAACGA+TGG 0.643460 4:-64870123 MsaT021313.1:CDS
CTCCTCACTTCCATCATCAG+GGG 0.654781 4:+64870218 None:intergenic
TGAGTGGGTCAAAATTAACT+GGG 0.660344 4:-64870284 MsaT021313.1:CDS
ATGGCAAGGGAGTGTACCAG+CGG 0.661029 4:-64869820 MsaT021313.1:CDS
ATTCACCTTCAGCAAGAGAG+CGG 0.661963 4:+64870157 None:intergenic
TGGTACACTCCCTTGCCATG+TGG 0.662957 4:+64869824 None:intergenic
GTTCAAGGATCGAGACGCGG+AGG 0.675795 4:-64870057 MsaT021313.1:CDS
TCTGTTCAAGGATCGAGACG+CGG 0.700237 4:-64870060 MsaT021313.1:CDS
GGTGGAGGTGGTTATGAACG+TGG 0.702193 4:-64870027 MsaT021313.1:CDS
GGAGGTGGTTATGAACGTGG+TGG 0.730284 4:-64870024 MsaT021313.1:CDS
GGTGGTGGATGTTACAACTG+TGG 0.753886 4:-64869856 MsaT021313.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 64869696 64870307 64869696 ID=MsaG021313
Chr4 mRNA 64869696 64870307 64869696 ID=MsaT021313.1;Parent=MsaG021313
Chr4 exon 64869696 64870307 64869696 ID=MsaT021313.1.exon1;Parent=MsaT021313.1
Chr4 CDS 64869696 64870307 64869696 ID=cds.MsaT021313.1;Parent=MsaT021313.1
Gene Sequence

>MsaT021313.1

ATGAGTGGGTCAAAATTAACTGGGAAGGTGAAATGGTTCAATGATCAGAAGGGGTTTGGATTCATCACCCCTGATGATGGAAGTGAGGAGTTGTTTGTTCACCAATCTCAGATCCAGACTGATGGATTCCGCTCTCTTGCTGAAGGTGAATCTGTTGAGTATCAGATTGAGTCTGATAACGATGGAAGATCCAAGGCTGTTAGCGTGACTGGACCTGATGGTGCTTCTGTTCAAGGATCGAGACGCGGAGGCGGTGGCGGTGGAGGTGGTTATGAACGTGGTGGTGGTGGTTACGGTGGTGGCGGTTATGGTGGTGGAGGTGGTGGTTATGGTGGAAGAGGAGGTGGTGGCTATGGTGGAGGTGGAGGTGGTTATGGAGGAGGTGGTGGTTATGGTGGTGGTGGAAGAGGTGGGGGCCGTGGAGGAGGCGGTGGTGGATGTTACAACTGTGGTGAATCTGGCCACATGGCAAGGGAGTGTACCAGCGGTGGAGGTGGTGGCGGTGGAAGGTATGGAGGTGGTGGTGGTGGAGGCAGTGGCGGTGGAAGCTGCTACAGCTGTGGTGAATCTGGTCATTTTGCTAGAGATTGTCCAACAGGCAGCGCTCGTTGA

Protein sequence

>MsaT021313.1

MSGSKLTGKVKWFNDQKGFGFITPDDGSEELFVHQSQIQTDGFRSLAEGESVEYQIESDNDGRSKAVSVTGPDGASVQGSRRGGGGGGGGYERGGGGYGGGGYGGGGGGYGGRGGGGYGGGGGGYGGGGGYGGGGRGGGRGGGGGGCYNCGESGHMARECTSGGGGGGGRYGGGGGGGSGGGSCYSCGESGHFARDCPTGSAR*