AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG004953

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG004953 MtrunA17_Chr3g0093911 67.760 183 49 6 85 259 163 343 1.12e-75 234
MsaG004953 MtrunA17_Chr1g0207351 72.619 168 38 4 100 259 192 359 1.40e-75 234
MsaG004953 MtrunA17_Chr7g0252101 71.084 166 40 4 102 259 260 425 2.82e-72 228
MsaG004953 MtrunA17_Chr7g0252101 55.789 95 36 1 4 98 27 115 5.16e-24 100
MsaG004953 MtrunA17_Chr1g0202841 66.279 172 47 6 98 259 2 172 3.16e-68 209
MsaG004953 MtrunA17_Chr1g0209051 65.269 167 50 4 101 259 98 264 1.55e-67 210
MsaG004953 MtrunA17_Chr3g0077801 61.677 167 52 4 103 259 181 345 9.23e-59 190
MsaG004953 MtrunA17_Chr4g0075971 63.190 163 52 4 104 259 434 595 1.26e-56 191
MsaG004953 MtrunA17_Chr4g0075971 51.485 101 42 2 3 97 184 283 5.21e-20 89.4
MsaG004953 MtrunA17_Chr7g0243331 61.963 163 55 4 104 259 181 343 3.54e-56 184
MsaG004953 MtrunA17_Chr3g0077851 58.182 165 61 3 103 259 165 329 1.28e-53 176
MsaG004953 MtrunA17_Chr3g0123471 56.364 165 62 4 103 258 96 259 1.84e-52 171
MsaG004953 MtrunA17_Chr3g0077901 56.364 165 64 3 103 259 201 365 2.93e-52 174
MsaG004953 MtrunA17_Chr3g0112311 53.757 173 64 6 103 259 178 350 8.73e-48 162
MsaG004953 MtrunA17_Chr6g0488101 53.143 175 63 5 103 259 275 448 1.07e-47 164
MsaG004953 MtrunA17_Chr6g0488101 39.048 105 53 3 4 98 27 130 6.51e-13 68.2
MsaG004953 MtrunA17_Chr1g0187941 62.222 135 44 3 100 227 3 137 2.23e-47 154
MsaG004953 MtrunA17_Chr6g0488271 52.299 174 66 4 103 259 235 408 2.79e-47 162
MsaG004953 MtrunA17_Chr6g0488271 41.758 91 43 2 17 98 1 90 5.93e-13 68.2
MsaG004953 MtrunA17_Chr6g0452641 50.867 173 66 4 103 257 160 331 4.49e-44 152
MsaG004953 MtrunA17_Chr6g0486591 50.980 153 56 5 125 259 1 152 1.32e-40 137
MsaG004953 MtrunA17_Chr3g0122991 54.331 127 44 2 121 233 148 274 2.27e-37 133
MsaG004953 MtrunA17_Chr1g0196241 73.864 88 19 2 167 250 1 88 6.37e-37 125
MsaG004953 MtrunA17_Chr1g0209191 65.217 92 22 2 178 259 1 92 6.60e-35 121
MsaG004953 MtrunA17_Chr1g0209061 55.789 95 21 4 11 102 30 106 2.79e-20 83.6
MsaG004953 MtrunA17_Chr4g0075861 50.495 101 43 2 3 97 184 283 1.26e-18 84.3
MsaG004953 MtrunA17_Chr6g0459061 30.719 153 100 4 104 251 187 338 1.02e-16 79.0
MsaG004953 MtrunA17_Chr1g0206781 53.571 56 26 0 3 58 23 78 1.81e-11 60.1
MsaG004953 MtrunA17_Chr5g0415031 47.222 72 35 1 3 71 55 126 6.76e-11 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 57 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCTCATATCCCCACCTATT+TGG 0.159328 1:+76076761 None:intergenic
CCTTTATGTAGTGTTTATTC+AGG 0.216363 1:-76076713 MsaT004953.1:CDS
CTCCAGTTTGACATAATTCA+TGG 0.299341 1:+76076844 None:intergenic
TCTCATATCCCCACCTATTT+GGG 0.303333 1:+76076762 None:intergenic
ATGCATTGAGCAACCCAAAT+AGG 0.308917 1:-76076775 MsaT004953.1:CDS
GGTCGACAAAATCTAGTGTT+TGG 0.335860 1:+76077557 None:intergenic
CCTAAGGGAAAATGTTTCAT+TGG 0.345717 1:+76076949 None:intergenic
GGGGAGGGTGGTTGACTTTG+TGG 0.347817 1:-76077071 MsaT004953.1:CDS
AACCATGAATTATGTCAAAC+TGG 0.388496 1:-76076846 MsaT004953.1:CDS
AGAGAACCGTGAACTTCCTT+TGG 0.394473 1:-76077599 MsaT004953.1:CDS
ATTTAAGGTTCGACGAAGTA+AGG 0.397434 1:-76076892 MsaT004953.1:CDS
AGTTTGATTTGATGTTCCTT+TGG 0.399942 1:+76078933 None:intergenic
CAAGTTCCTTCATGTTGGAT+TGG 0.401543 1:-76076643 MsaT004953.1:CDS
TTATGTCAAACTGGAGACTT+TGG 0.403683 1:-76076837 MsaT004953.1:CDS
ACACACCGGCAAATTGAAAA+AGG 0.404330 1:+76077536 None:intergenic
GTTGTGATCTAAAGGGAAAA+AGG 0.417556 1:-76077635 MsaT004953.1:intron
TTCGTCAATAGGAAATGAAC+GGG 0.420738 1:-76077092 MsaT004953.1:intron
CTAAGGGAAAATGTTTCATT+GGG 0.435162 1:+76076950 None:intergenic
CCTGAATAAACACTACATAA+AGG 0.437679 1:+76076713 None:intergenic
GTCGACAAAATCTAGTGTTT+GGG 0.443544 1:+76077558 None:intergenic
TGATTTGATGTTCCTTTGGC+AGG 0.443659 1:+76078937 None:intergenic
AAGGAACTTGCTCCTTGAGT+TGG 0.466623 1:+76076656 None:intergenic
CATCACAATTAACTAACCTA+AGG 0.476886 1:+76076933 None:intergenic
GAGTACCCCTATGTTGGCCT+TGG 0.476948 1:+76077018 None:intergenic
TATGTCAAACTGGAGACTTT+GGG 0.481376 1:-76076836 MsaT004953.1:CDS
CTTTATGTAGTGTTTATTCA+GGG 0.488519 1:-76076712 MsaT004953.1:CDS
AGGAGCAAGTTCCTTCATGT+TGG 0.509044 1:-76076648 MsaT004953.1:CDS
AGAGTCAAGGAGCTGCTTGA+AGG 0.509677 1:-76078993 MsaT004953.1:CDS
GAGCAACTCTATGTATGCAC+TGG 0.514243 1:-76076741 MsaT004953.1:CDS
TTGATTACGCTTCCAACTCA+AGG 0.533033 1:-76076668 MsaT004953.1:CDS
AGGTGCTGCGGCAAGAGTCA+AGG 0.534822 1:-76079006 MsaT004953.1:CDS
TTGATGTTCCTTTGGCAGGA+AGG 0.538933 1:+76078941 None:intergenic
GAGTCAAGGAGCTGCTTGAA+GGG 0.541631 1:-76078992 MsaT004953.1:CDS
AAAAGTCCTAAAAGATGTGA+AGG 0.543573 1:-76079048 MsaT004953.1:CDS
GTCACTACCAAGGCCAACAT+AGG 0.547612 1:-76077025 MsaT004953.1:CDS
TCACTACCAAGGCCAACATA+GGG 0.550648 1:-76077024 MsaT004953.1:CDS
CGAGGCAGTACAAGCTAATG+AGG 0.552124 1:-76079075 MsaT004953.1:CDS
GCACATCCAAAGGAAGTTCA+CGG 0.562215 1:+76077593 None:intergenic
CAAATCAAACTTGAGACCAC+TGG 0.570634 1:-76078921 MsaT004953.1:intron
CAAGCTGAGTACCCCTATGT+TGG 0.578511 1:+76077012 None:intergenic
TTTATGTAGTGTTTATTCAG+GGG 0.586406 1:-76076711 MsaT004953.1:CDS
CATTGAGCAACCCAAATAGG+TGG 0.598653 1:-76076772 MsaT004953.1:CDS
AAAACACCAATCCAACATGA+AGG 0.599108 1:+76076637 None:intergenic
ATCACAATTAACTAACCTAA+GGG 0.600746 1:+76076934 None:intergenic
ATTCGTCAATAGGAAATGAA+CGG 0.603412 1:-76077093 MsaT004953.1:intron
ATGATATCAAGCACATCCAA+AGG 0.608076 1:+76077583 None:intergenic
ATTCAATACCTTCCTGCCAA+AGG 0.612236 1:-76078949 MsaT004953.1:CDS
ATTGAGCAACCCAAATAGGT+GGG 0.612873 1:-76076771 MsaT004953.1:CDS
GATCAAAGAATTTATACAAG+AGG 0.613874 1:-76079026 MsaT004953.1:CDS
TAGCTTGTACTGCCTCGTCA+TGG 0.617598 1:+76079081 None:intergenic
AATTTATACAAGAGGTGCTG+CGG 0.636068 1:-76079018 MsaT004953.1:CDS
AGCAACTCTATGTATGCACT+GGG 0.636113 1:-76076740 MsaT004953.1:CDS
AATATATGTTGTCACTACCA+AGG 0.650134 1:-76077035 MsaT004953.1:CDS
CACTACCAAGGCCAACATAG+GGG 0.661007 1:-76077023 MsaT004953.1:CDS
TTGAGCAACCCAAATAGGTG+GGG 0.691982 1:-76076770 MsaT004953.1:CDS
TCGTCAATAGGAAATGAACG+GGG 0.727167 1:-76077091 MsaT004953.1:intron
CGTCAATAGGAAATGAACGG+GGG 0.729159 1:-76077090 MsaT004953.1:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 76074928 76079232 76074928 ID=MsaG004953
Chr1 mRNA 76074928 76079232 76074928 ID=MsaT004953.1;Parent=MsaG004953
Chr1 exon 76074928 76074954 76074928 ID=MsaT004953.1.exon5;Parent=MsaT004953.1
Chr1 CDS 76074928 76074954 76074928 ID=cds.MsaT004953.1;Parent=MsaT004953.1
Chr1 exon 76076619 76077103 76076619 ID=MsaT004953.1.exon4;Parent=MsaT004953.1
Chr1 CDS 76076619 76077103 76076619 ID=cds.MsaT004953.1;Parent=MsaT004953.1
Chr1 exon 76077542 76077643 76077542 ID=MsaT004953.1.exon3;Parent=MsaT004953.1
Chr1 CDS 76077542 76077643 76077542 ID=cds.MsaT004953.1;Parent=MsaT004953.1
Chr1 exon 76078922 76079108 76078922 ID=MsaT004953.1.exon2;Parent=MsaT004953.1
Chr1 CDS 76078922 76079108 76078922 ID=cds.MsaT004953.1;Parent=MsaT004953.1
Chr1 exon 76079230 76079232 76079230 ID=MsaT004953.1.exon1;Parent=MsaT004953.1
Chr1 CDS 76079230 76079232 76079230 ID=cds.MsaT004953.1;Parent=MsaT004953.1
Gene Sequence

>MsaT004953.1

ATGAACTACCATGACGAGGCAGTACAAGCTAATGAGGTTTTAAAAGTCCTAAAAGATGTGAAGGATCAAAGAATTTATACAAGAGGTGCTGCGGCAAGAGTCAAGGAGCTGCTTGAAGGGCATACTCATTTAATTTTGAGATTCAATACCTTCCTGCCAAAGGAACATCAAATCAAACTTGAGACCACTGGGAAAAAGGTGAAGAAGGTAGAAGAGAACCGTGAACTTCCTTTGGATGTGCTTGATATCATTTCCCAAACACTAGATTTTGTCGACCTTTTTCAATTTGCCGGAAATGAACGGGGGAGGGTGGTTGACTTTGTGGTCTTGCATAATATAATATATGTTGTCACTACCAAGGCCAACATAGGGGTACTCAGCTTGACTTCTGCAAATATTAAATTTCTAAATTTGAAGAATACTCCCAATGAAACATTTTCCCTTAGGTTAGTTAATTGTGATGAGCAACTTTTAGTGGTTGATTTAAGGTTCGACGAAGTAAGGAATGTGTACAAGATAGATTTCTCAACCATGAATTATGTCAAACTGGAGACTTTGGGCGACATTGCATTATTTTATGCTTTGGACAGAAATTTTTATGCATTGAGCAACCCAAATAGGTGGGGATATGAGAGCAACTCTATGTATGCACTGGGAAATCCTTTATGTAGTGTTTATTCAGGGGATGATAAAAAGTTGCAAAAATTGATTACGCTTCCAACTCAAGGAGCAAGTTCCTTCATGTTGGATTGGTGTTTTAGACATCTACAATATGAGGAAAAATCTTATGTTGATACTTGTTAA
Protein sequence

>MsaT004953.1

MNYHDEAVQANEVLKVLKDVKDQRIYTRGAAARVKELLEGHTHLILRFNTFLPKEHQIKLETTGKKVKKVEENRELPLDVLDIISQTLDFVDLFQFAGNERGRVVDFVVLHNIIYVVTTKANIGVLSLTSANIKFLNLKNTPNETFSLRLVNCDEQLLVVDLRFDEVRNVYKIDFSTMNYVKLETLGDIALFYALDRNFYALSNPNRWGYESNSMYALGNPLCSVYSGDDKKLQKLITLPTQGASSFMLDWCFRHLQYEEKSYVDTC*