AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG039355

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039355 MtrunA17_Chr7g0257331 98.283 233 4 0 1 233 1 233 1.99e-172 473
MsaG039355 MtrunA17_Chr5g0441531 43.781 201 103 2 15 205 18 218 1.91e-51 167
MsaG039355 MtrunA17_Chr8g0375041 42.308 234 106 4 16 221 3 235 1.63e-50 165
MsaG039355 MtrunA17_Chr5g0402291 43.850 187 81 1 16 178 3 189 2.64e-50 165
MsaG039355 MtrunA17_Chr5g0397881 44.162 197 75 2 20 181 22 218 2.66e-50 167
MsaG039355 MtrunA17_Chr1g0203601 38.912 239 100 3 16 208 12 250 3.49e-50 166
MsaG039355 MtrunA17_Chr3g0134031 37.553 237 93 4 2 190 9 238 3.78e-48 162
MsaG039355 MtrunA17_Chr6g0472421 43.216 199 77 2 20 182 31 229 2.56e-44 151
MsaG039355 MtrunA17_Chr4g0047421 46.154 169 83 4 20 181 31 198 2.31e-42 142
MsaG039355 MtrunA17_Chr5g0410881 49.020 153 74 2 19 170 29 178 2.15e-41 147
MsaG039355 MtrunA17_Chr7g0260331 56.190 105 42 1 9 113 40 140 4.28e-38 135
MsaG039355 MtrunA17_Chr3g0135831 45.062 162 76 3 9 170 37 185 4.55e-38 136
MsaG039355 MtrunA17_Chr6g0467041 56.989 93 40 0 21 113 21 113 3.60e-37 132
MsaG039355 MtrunA17_Chr1g0204741 52.033 123 56 1 5 127 23 142 4.84e-37 132
MsaG039355 MtrunA17_Chr1g0185131 40.860 186 84 4 20 203 30 191 2.12e-36 130
MsaG039355 MtrunA17_Chr8g0379701 43.750 144 72 1 13 156 3 137 1.13e-35 130
MsaG039355 MtrunA17_Chr4g0071051 52.679 112 49 1 9 120 92 199 7.95e-35 128
MsaG039355 MtrunA17_Chr8g0378061 58.242 91 38 0 23 113 23 113 1.41e-33 125
MsaG039355 MtrunA17_Chr6g0485571 39.394 165 75 2 21 172 10 162 1.31e-32 121
MsaG039355 MtrunA17_Chr2g0330821 54.255 94 43 0 20 113 77 170 4.30e-32 120
MsaG039355 MtrunA17_Chr4g0039891 43.333 150 80 2 22 170 12 157 1.07e-31 120
MsaG039355 MtrunA17_Chr2g0284481 46.667 105 56 0 22 126 15 119 2.87e-31 118
MsaG039355 MtrunA17_Chr8g0392001 54.255 94 42 1 21 113 21 114 2.26e-30 115
MsaG039355 MtrunA17_Chr1g0179321 60.000 70 28 0 12 81 39 108 1.15e-23 91.7
MsaG039355 MtrunA17_Chr4g0023771 50.000 58 29 0 22 79 15 72 1.93e-15 70.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039355 AT2G41690.1 61.667 180 51 3 20 181 38 217 2.45e-71 218
MsaG039355 AT5G62020.1 40.316 253 91 7 20 219 21 266 7.34e-50 165
MsaG039355 AT1G46264.1 41.784 213 86 3 11 185 23 235 5.94e-49 164
MsaG039355 AT4G36990.1 45.641 195 88 3 12 188 4 198 2.50e-46 155
MsaG039355 AT4G11660.1 41.589 214 79 2 20 187 57 270 2.09e-45 155
MsaG039355 AT1G32330.1 48.026 152 79 0 19 170 34 185 7.44e-42 148
MsaG039355 AT1G32330.2 48.026 152 79 0 19 170 34 185 7.57e-42 148
MsaG039355 AT4G17750.1 62.105 95 36 0 20 114 50 144 2.95e-39 142
MsaG039355 AT5G43840.1 53.043 115 54 0 12 126 9 123 9.71e-39 135
MsaG039355 AT3G63350.1 57.009 107 42 1 6 112 16 118 1.35e-38 135
MsaG039355 AT2G26150.1 45.679 162 75 4 9 170 35 183 1.02e-37 135
MsaG039355 AT2G26150.4 45.679 162 75 4 9 170 35 183 1.02e-37 135
MsaG039355 AT3G51910.1 54.286 105 48 0 12 116 19 123 1.48e-37 132
MsaG039355 AT5G03720.2 43.860 171 83 3 22 191 55 213 1.95e-37 135
MsaG039355 AT5G03720.1 43.860 171 83 3 22 191 55 213 1.95e-37 135
MsaG039355 AT3G22830.1 56.604 106 46 0 12 117 51 156 6.49e-37 134
MsaG039355 AT3G24520.1 43.421 152 68 2 21 172 16 149 6.01e-36 130
MsaG039355 AT3G02990.1 46.980 149 74 1 22 170 23 166 2.66e-35 130
MsaG039355 AT5G16820.1 59.140 93 38 0 22 114 27 119 1.24e-33 126
MsaG039355 AT5G16820.2 59.140 93 38 0 22 114 27 119 1.24e-33 126
MsaG039355 AT4G13980.1 57.143 91 39 0 23 113 24 114 8.46e-33 124
MsaG039355 AT5G54070.1 52.174 92 44 0 21 112 70 161 5.23e-32 119
MsaG039355 AT5G45710.3 36.493 211 111 4 15 215 6 203 1.36e-29 113
MsaG039355 AT5G45710.1 36.493 211 111 4 15 215 6 203 1.36e-29 113
MsaG039355 AT1G67970.1 41.509 159 78 4 21 176 18 164 1.03e-28 111
MsaG039355 AT4G18880.1 49.524 105 53 0 22 126 15 119 2.48e-26 105
MsaG039355 AT4G18870.1 39.773 88 53 0 22 109 146 233 4.32e-20 87.0
MsaG039355 AT4G18870.1 36.842 95 59 1 15 109 6 99 1.21e-16 77.4
MsaG039355 AT1G77570.1 34.444 90 56 2 23 109 27 116 2.82e-11 60.1

Find 46 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGGAGAAAGAAGGATTAAA+AGG 0.312750 7:+87982682 MsaT039355.1:CDS
TTTGATCTTCATCAGAATCT+TGG 0.337536 7:-87982434 None:intergenic
ATAAAAGGCCAATGCTGTTT+GGG 0.344706 7:+87982640 MsaT039355.1:CDS
AAGCTAAAGATGATGATAAA+AGG 0.345414 7:+87982625 MsaT039355.1:CDS
GTAAAGTTGCAACAAGTAGA+TGG 0.356542 7:+87982310 MsaT039355.1:CDS
GTGTAAAGAACTACTTGATT+TGG 0.382134 7:+87982569 MsaT039355.1:CDS
AATGCTGTTTGGGGTGAGAT+TGG 0.405597 7:+87982650 MsaT039355.1:CDS
GGAGTAGTTATTAGTGAGAA+GGG 0.409709 7:+87981035 MsaT039355.1:CDS
GATAAAAGGCCAATGCTGTT+TGG 0.412696 7:+87982639 MsaT039355.1:CDS
TATTAGTGAGAAGGGATTGT+TGG 0.414198 7:+87981043 MsaT039355.1:CDS
CGATGAAGGAACGGCGTTTG+TGG 0.421292 7:+87981157 MsaT039355.1:CDS
TCATCAACCTCATCAACTTC+GGG 0.428531 7:+87982462 MsaT039355.1:CDS
GATATCACACCATCGGTTAT+CGG 0.429226 7:-87981128 None:intergenic
GGCGTTTGTGGTGTGGCAGC+CGG 0.436959 7:+87981169 MsaT039355.1:CDS
AGGAGTAGTTATTAGTGAGA+AGG 0.465195 7:+87981034 MsaT039355.1:CDS
TGCAATGAAAGATTCAAGAA+AGG 0.469330 7:+87982339 MsaT039355.1:CDS
GAGAGTTACTATCCGAGATT+CGG 0.475046 7:+87982367 MsaT039355.1:CDS
TTGCTATGCTTGAAGAGTGT+TGG 0.486048 7:-87981215 None:intergenic
ATCATCAACCTCATCAACTT+CGG 0.493338 7:+87982461 MsaT039355.1:CDS
CTGAGCTAACAAGCATGAAA+AGG 0.494508 7:+87982544 MsaT039355.1:CDS
CATGTATGTCTTCAACAAGA+AGG 0.524524 7:-87981093 None:intergenic
GAGCAACAAGCAACAACAAA+CGG 0.533270 7:+87982404 MsaT039355.1:CDS
ATGTTCAACAAGGAGAAAGA+AGG 0.541421 7:+87982673 MsaT039355.1:CDS
GTCTTCAACAAGAAGGGTGA+TGG 0.545694 7:-87981086 None:intergenic
GAGAAGGGATTGTTGGAATG+TGG 0.547926 7:+87981050 MsaT039355.1:CDS
AATCTCACCCCAAACAGCAT+TGG 0.559832 7:-87982648 None:intergenic
CTTGTTGAAGACATACATGT+TGG 0.560125 7:+87981097 MsaT039355.1:CDS
AGATTCGGAGAAGAAAAGCT+TGG 0.562625 7:+87982382 MsaT039355.1:CDS
TAACCGATGGTGTGATATCG+TGG 0.574458 7:+87981132 MsaT039355.1:CDS
TAAAGTTGCAACAAGTAGAT+GGG 0.577262 7:+87982311 MsaT039355.1:CDS
ATGTATGTCTTCAACAAGAA+GGG 0.585625 7:-87981092 None:intergenic
GTTTGTGGTGTGGCAGCCGG+CGG 0.593281 7:+87981172 MsaT039355.1:CDS
TTCGGGTTACACTAATCTAG+TGG 0.594205 7:+87982479 MsaT039355.1:CDS
TGAAAACAAGCGACTCAAAG+AGG 0.607328 7:+87982503 MsaT039355.1:CDS
GTCGAGGATCCGATAACCGA+TGG 0.607491 7:+87981119 MsaT039355.1:CDS
AGTGTAACCCGAAGTTGATG+AGG 0.609806 7:-87982469 None:intergenic
GTGATATCGTGGAACGATGA+AGG 0.614245 7:+87981143 MsaT039355.1:CDS
ATCGTGGAACGATGAAGGAA+CGG 0.618716 7:+87981148 MsaT039355.1:CDS
GAAGACATACATGTTGGTCG+AGG 0.623457 7:+87981103 MsaT039355.1:CDS
AAGGAACGGCGTTTGTGGTG+TGG 0.626326 7:+87981162 MsaT039355.1:CDS
ATATCACGAGCAAACTCCGC+CGG 0.632816 7:-87981188 None:intergenic
GCGACTCAAAGAGGAAAATG+TGG 0.640956 7:+87982512 MsaT039355.1:CDS
TATGCTTGAAGAGTGTTGGA+AGG 0.652326 7:-87981211 None:intergenic
GTGAGATTGGATGTTCAACA+AGG 0.660188 7:+87982663 MsaT039355.1:CDS
GTTCCACGATATCACACCAT+CGG 0.688849 7:-87981135 None:intergenic
TAAAAGGCCAATGCTGTTTG+GGG 0.694963 7:+87982641 MsaT039355.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 87981029 87982761 87981029 ID=MsaG039355
Chr7 mRNA 87981029 87982761 87981029 ID=MsaT039355.1;Parent=MsaG039355
Chr7 exon 87981029 87981271 87981029 ID=MsaT039355.1.exon1;Parent=MsaT039355.1
Chr7 CDS 87981029 87981271 87981029 ID=cds.MsaT039355.1;Parent=MsaT039355.1
Chr7 exon 87982303 87982761 87982303 ID=MsaT039355.1.exon2;Parent=MsaT039355.1
Chr7 CDS 87982303 87982761 87982303 ID=cds.MsaT039355.1;Parent=MsaT039355.1
Gene Sequence

>MsaT039355.1

ATGGAAGGAGTAGTTATTAGTGAGAAGGGATTGTTGGAATGTGGAAGAAAGTGCAGTCCATCACCCTTCTTGTTGAAGACATACATGTTGGTCGAGGATCCGATAACCGATGGTGTGATATCGTGGAACGATGAAGGAACGGCGTTTGTGGTGTGGCAGCCGGCGGAGTTTGCTCGTGATATCCTTCCAACACTCTTCAAGCATAGCAACTTCTCTAGTTTTGTACGGCAGCTCAATACCTATGGATTTCGTAAAGTTGCAACAAGTAGATGGGAGTTTTGCAATGAAAGATTCAAGAAAGGTGAAAGAGAGTTACTATCCGAGATTCGGAGAAGAAAAGCTTGGAGCAACAAGCAACAACAAACGGTACAAAACCAAGATTCTGATGAAGATCAAAGATCATCATCAACCTCATCAACTTCGGGTTACACTAATCTAGTGGATGAAAACAAGCGACTCAAAGAGGAAAATGTGGTGTTGAATTCTGAGCTAACAAGCATGAAAAGGAAGTGTAAAGAACTACTTGATTTGGTTTCAATTTATACCAAAAAAATGGAAGAAGAGGAAGCTAAAGATGATGATAAAAGGCCAATGCTGTTTGGGGTGAGATTGGATGTTCAACAAGGAGAAAGAAGGATTAAAAGGACTAGAGCTGAGATTAGTGAAAACGCAAGCATTTTGTTGTCTCAATCATGCAAATAG
Protein sequence

>MsaT039355.1

MEGVVISEKGLLECGRKCSPSPFLLKTYMLVEDPITDGVISWNDEGTAFVVWQPAEFARDILPTLFKHSNFSSFVRQLNTYGFRKVATSRWEFCNERFKKGERELLSEIRRRKAWSNKQQQTVQNQDSDEDQRSSSTSSTSGYTNLVDENKRLKEENVVLNSELTSMKRKCKELLDLVSIYTKKMEEEEAKDDDKRPMLFGVRLDVQQGERRIKRTRAEISENASILLSQSCK*