AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG016716

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016716 MtrunA17_Chr3g0131891 93.642 173 11 0 1 173 7 179 1.01e-118 339
MsaG016716 MtrunA17_Chr7g0233561 65.556 180 56 1 1 174 6 185 4.50e-80 241
MsaG016716 MtrunA17_Chr7g0233571 64.021 189 55 4 1 179 1 186 2.37e-76 228
MsaG016716 MtrunA17_Chr7g0233531 74.615 130 32 1 28 157 1 129 3.33e-65 201
MsaG016716 MtrunA17_Chr7g0233541 67.949 156 40 4 28 174 1 155 1.79e-63 197
MsaG016716 MtrunA17_Chr7g0233521 61.039 154 39 3 28 174 1 140 4.05e-53 170
MsaG016716 MtrunA17_Chr3g0103191 48.515 101 50 1 10 110 9 107 2.24e-29 108
MsaG016716 MtrunA17_Chr3g0103151 47.525 101 51 1 10 110 9 107 2.88e-27 100
MsaG016716 MtrunA17_Chr8g0390841 35.256 156 86 3 11 153 37 190 3.28e-27 107
MsaG016716 MtrunA17_Chr5g0419201 32.759 174 105 3 13 174 16 189 5.33e-26 98.6
MsaG016716 MtrunA17_Chr3g0103181 46.535 101 52 1 10 110 9 107 5.67e-25 97.8
MsaG016716 MtrunA17_Chr1g0208771 51.852 81 39 0 29 109 13 93 1.06e-23 96.7
MsaG016716 MtrunA17_Chr1g0163071 34.783 161 80 3 28 168 1 156 1.27e-23 94.7
MsaG016716 MtrunA17_Chr3g0077461 36.134 119 76 0 12 130 236 354 3.69e-20 86.7
MsaG016716 MtrunA17_Chr3g0077461 31.967 122 76 2 29 143 23 144 1.08e-16 77.0
MsaG016716 MtrunA17_Chr1g0162441 38.776 98 60 0 13 110 7 104 5.00e-20 86.3
MsaG016716 MtrunA17_Chr3g0077411 31.884 138 91 2 12 147 24 160 6.36e-20 86.3
MsaG016716 MtrunA17_Chr3g0077411 33.333 120 79 1 11 129 260 379 1.54e-18 82.4
MsaG016716 MtrunA17_Chr4g0033961 37.500 112 68 1 13 122 6 117 1.18e-19 85.1
MsaG016716 MtrunA17_Chr1g0171611 41.414 99 56 1 10 108 6 102 2.01e-19 83.2
MsaG016716 MtrunA17_Chr6g0467351 35.036 137 81 2 11 146 13 142 3.23e-19 81.6
MsaG016716 MtrunA17_Chr4g0067431 43.269 104 58 1 11 113 13 116 3.73e-19 83.2
MsaG016716 MtrunA17_Chr1g0163101 35.385 130 79 3 8 135 12 138 8.10e-19 79.7
MsaG016716 MtrunA17_Chr1g0163231 40.404 99 57 1 10 108 6 102 1.51e-18 80.9
MsaG016716 MtrunA17_Chr3g0103171 43.902 82 46 0 29 110 6 87 3.42e-18 79.7
MsaG016716 MtrunA17_Chr1g0163181 36.800 125 76 2 22 145 14 136 1.88e-17 79.0
MsaG016716 MtrunA17_Chr4g0009491 34.746 118 77 0 12 129 224 341 3.04e-17 78.6
MsaG016716 MtrunA17_Chr4g0009491 31.481 108 61 1 27 134 11 105 9.29e-14 68.6
MsaG016716 MtrunA17_Chr1g0163251 47.191 89 45 1 22 110 14 100 6.56e-17 77.4
MsaG016716 MtrunA17_Chr3g0077451 31.304 115 70 1 27 141 10 115 8.70e-17 75.5
MsaG016716 MtrunA17_Chr1g0163061 41.346 104 60 1 11 113 13 116 1.69e-16 75.1
MsaG016716 MtrunA17_Chr1g0163241 38.679 106 63 1 29 134 23 126 1.75e-16 73.2
MsaG016716 MtrunA17_Chr1g0163261 35.075 134 85 1 10 143 6 137 5.50e-16 73.9
MsaG016716 MtrunA17_Chr1g0154251 35.484 93 59 1 11 103 25 116 7.36e-16 74.7
MsaG016716 MtrunA17_Chr1g0154161 34.021 97 64 0 11 107 28 124 8.10e-16 73.9
MsaG016716 MtrunA17_Chr1g0162411 34.579 107 69 1 13 118 7 113 1.30e-15 73.9
MsaG016716 MtrunA17_Chr1g0163191 42.697 89 49 1 22 110 14 100 1.39e-15 70.5
MsaG016716 MtrunA17_Chr1g0163221 36.893 103 64 1 11 112 9 111 2.38e-15 72.8
MsaG016716 MtrunA17_Chr5g0429931 32.787 122 77 2 29 146 11 131 3.06e-15 71.2
MsaG016716 MtrunA17_Chr1g0163141 32.203 177 95 6 27 183 9 180 3.96e-15 70.1
MsaG016716 MtrunA17_Chr3g0077381 33.898 118 78 0 12 129 246 363 4.13e-15 72.4
MsaG016716 MtrunA17_Chr3g0077381 34.483 87 57 0 27 113 34 120 2.10e-14 70.5
MsaG016716 MtrunA17_Chr1g0154101 35.870 92 59 0 11 102 23 114 8.08e-15 71.6
MsaG016716 MtrunA17_Chr1g0154101 32.990 97 63 2 11 107 182 276 4.00e-13 66.6
MsaG016716 MtrunA17_Chr1g0154211 34.409 93 60 1 11 103 21 112 8.73e-15 71.2
MsaG016716 MtrunA17_Chr1g0163131 32.800 125 81 2 11 135 16 137 1.21e-14 70.5
MsaG016716 MtrunA17_Chr1g0154171 34.737 95 61 1 11 105 21 114 1.62e-14 70.5
MsaG016716 MtrunA17_Chr3g0077361 27.536 138 98 2 12 147 39 176 9.65e-14 68.6
MsaG016716 MtrunA17_Chr1g0163121 43.820 89 47 2 27 115 9 94 1.09e-13 65.1
MsaG016716 MtrunA17_Chr1g0163201 42.683 82 45 1 29 110 19 98 1.16e-13 68.2
MsaG016716 MtrunA17_Chr1g0154131 36.000 100 61 1 11 107 177 276 1.33e-13 68.2
MsaG016716 MtrunA17_Chr1g0154131 35.417 96 58 1 11 102 19 114 3.89e-12 63.9
MsaG016716 MtrunA17_Chr1g0154191 33.333 93 62 0 11 103 20 112 1.39e-13 67.8
MsaG016716 MtrunA17_Chr1g0154241 31.959 97 65 1 11 107 20 115 3.88e-13 65.9
MsaG016716 MtrunA17_Chr1g0154111 28.169 142 101 1 11 151 24 165 1.74e-12 64.7
MsaG016716 MtrunA17_Chr1g0154151 37.838 74 46 0 29 102 20 93 8.45e-12 62.4
MsaG016716 MtrunA17_Chr1g0154071 31.915 94 63 1 14 107 157 249 1.33e-11 62.4
MsaG016716 MtrunA17_Chr1g0154071 27.835 97 69 1 11 107 26 121 8.30e-11 60.1
MsaG016716 MtrunA17_Chr6g0476181 30.120 166 100 5 28 181 1 162 2.34e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016716 AT3G18990.1 41.176 102 59 1 10 110 2 103 1.18e-21 90.5
MsaG016716 AT3G18990.2 41.176 102 59 1 10 110 2 103 1.78e-21 90.1
MsaG016716 AT4G01580.1 39.423 104 63 0 13 116 30 133 5.25e-21 85.9
MsaG016716 AT1G49475.1 38.889 108 65 1 13 120 34 140 8.27e-21 85.5
MsaG016716 AT3G18960.2 38.462 104 64 0 13 116 30 133 9.75e-20 82.4
MsaG016716 AT3G18960.1 38.462 104 64 0 13 116 30 133 1.18e-19 82.8
MsaG016716 AT3G18960.3 40.909 88 52 0 29 116 9 96 1.64e-16 73.6
MsaG016716 AT3G53310.1 32.609 92 61 1 13 104 11 101 1.71e-11 61.6

Find 30 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTAAATTGGAAATTAAATT+TGG 0.186782 3:+101209294 MsaT016716.1:CDS
TATTTCTCCACAAGCTTTCT+TGG 0.203077 3:-101209226 None:intergenic
GCTAACTCCTCCTTTGAAAT+TGG 0.203833 3:+101209565 MsaT016716.1:CDS
CAAAGATGTGCACATGAAAA+AGG 0.205065 3:-101209423 None:intergenic
GACAAGAGTTGAAGCTAAAA+AGG 0.273172 3:+101209477 MsaT016716.1:CDS
AGACTCCAAATGGTGTAAAT+TGG 0.312711 3:+101209281 MsaT016716.1:CDS
AATTTCCAATTTACACCATT+TGG 0.315099 3:-101209286 None:intergenic
AGAAAGCTTGTGGAGAAATA+TGG 0.315667 3:+101209229 MsaT016716.1:CDS
CTACAATCTTCATTATTTGA+AGG 0.379644 3:-101209523 None:intergenic
TGGCAAAATATGGTTTCAAA+AGG 0.425042 3:+101209327 MsaT016716.1:CDS
GCAGTAGTTGTGTTAATGTT+CGG 0.444915 3:+101209590 MsaT016716.1:CDS
TTACAAGCTTTCCTTGATGA+AGG 0.456239 3:-101208396 None:intergenic
TTAGCTTCAACTCTTGTCAA+AGG 0.484921 3:-101209472 None:intergenic
ATGATCTTGAAGAAGTGAAC+TGG 0.487555 3:-101208361 None:intergenic
TAGCTTCAACTCTTGTCAAA+GGG 0.493656 3:-101209471 None:intergenic
CTTTCTGTCAATATGATGTA+CGG 0.494299 3:-101209629 None:intergenic
ACATGTGTAAAGACTCCAAA+TGG 0.500501 3:+101209271 MsaT016716.1:CDS
CGTACATCATATTGACAGAA+AGG 0.506265 3:+101209630 MsaT016716.1:CDS
CATCTTTGATAAGAGTGCCT+TGG 0.514558 3:+101209438 MsaT016716.1:CDS
AAATATGGTTTCAAAAGGGA+TGG 0.524548 3:+101209332 MsaT016716.1:CDS
CATATTGACAGAAAGGGAAA+AGG 0.525115 3:+101209637 MsaT016716.1:CDS
TAATGTTCGGAAATTTCAAA+AGG 0.529933 3:+101209603 MsaT016716.1:CDS
GGCAAAATATGGTTTCAAAA+GGG 0.535267 3:+101209328 MsaT016716.1:CDS
ACTACTGCTTCCAATTTCAA+AGG 0.542132 3:-101209575 None:intergenic
GTACATCATATTGACAGAAA+GGG 0.549586 3:+101209631 MsaT016716.1:CDS
CAAAGGGCTATTTATCTCCA+AGG 0.557179 3:-101209455 None:intergenic
GAGTATCATTCTCTAGCTCA+TGG 0.575939 3:+101209367 MsaT016716.1:CDS
CTTACTCAAAACCTTCATCA+AGG 0.582547 3:+101208385 MsaT016716.1:CDS
GATGATGCCAAGAAAGCTTG+TGG 0.596116 3:+101209219 MsaT016716.1:intron
ACTGCTTCCAATTTCAAAGG+AGG 0.612452 3:-101209572 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 101208334 101209690 101208334 ID=MsaG016716
Chr3 mRNA 101208334 101209690 101208334 ID=MsaT016716.1;Parent=MsaG016716
Chr3 exon 101208334 101208414 101208334 ID=MsaT016716.1.exon1;Parent=MsaT016716.1
Chr3 CDS 101208334 101208414 101208334 ID=cds.MsaT016716.1;Parent=MsaT016716.1
Chr3 exon 101209220 101209690 101209220 ID=MsaT016716.1.exon2;Parent=MsaT016716.1
Chr3 CDS 101209220 101209690 101209220 ID=cds.MsaT016716.1;Parent=MsaT016716.1
Gene Sequence

>MsaT016716.1

ATGGCTAACGAAATTCTTCAAGTGAAGCCAGTTCACTTCTTCAAGATCATACTTACTCAAAACCTTCATCAAGGAAAGCTTATGATGCCAAGAAAGCTTGTGGAGAAATATGGAGAATGCTTACCGAAAACTACATGTGTAAAGACTCCAAATGGTGTAAATTGGAAATTAAATTTGGTAAAAAGTGATGGCAAAATATGGTTTCAAAAGGGATGGAAAGAATTTGCAGAGTATCATTCTCTAGCTCATGGCCATCTCCTGCTTTTTAAATATGAAAGAACTTCCCTTTTTCATGTGCACATCTTTGATAAGAGTGCCTTGGAGATAAATAGCCCTTTGACAAGAGTTGAAGCTAAAAAGGTCTTCAACTGTCAAGGAAAAAAACCTTCAAATAATGAAGATTGTAGAGCAAGTCAAAAGAGAAAAGCTAACTCCTCCTTTGAAATTGGAAGCAGTAGTTGTGTTAATGTTCGGAAATTTCAAAAGGCAGCCGTACATCATATTGACAGAAAGGGAAAAGGTATGAGATTTTGTGTCTTCATTGTCTTGTGA
Protein sequence

>MsaT016716.1

MANEILQVKPVHFFKIILTQNLHQGKLMMPRKLVEKYGECLPKTTCVKTPNGVNWKLNLVKSDGKIWFQKGWKEFAEYHSLAHGHLLLFKYERTSLFHVHIFDKSALEINSPLTRVEAKKVFNCQGKKPSNNEDCRASQKRKANSSFEIGSSSCVNVRKFQKAAVHHIDRKGKGMRFCVFIVL*