AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG024896

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024896 MtrunA17_Chr5g0395181 96.744 215 5 1 1 215 1 213 4.50e-155 428
MsaG024896 MtrunA17_Chr4g0040071 78.607 201 38 2 19 214 13 213 6.80e-116 329
MsaG024896 MtrunA17_Chr5g0411151 70.755 212 55 2 7 211 21 232 8.17e-110 314
MsaG024896 MtrunA17_Chr8g0366581 69.302 215 59 2 7 214 19 233 1.28e-106 306
MsaG024896 MtrunA17_Chr1g0179781 55.612 196 81 4 21 210 7 202 3.58e-72 218
MsaG024896 MtrunA17_Chr7g0265291 55.500 200 82 4 21 213 7 206 1.07e-70 214
MsaG024896 MtrunA17_Chr2g0308401 49.265 136 59 4 22 147 5 140 3.07e-40 135
MsaG024896 MtrunA17_Chr4g0020811 47.794 136 61 3 22 147 7 142 4.92e-40 134
MsaG024896 MtrunA17_Chr2g0320521 35.556 225 108 5 22 209 7 231 1.91e-39 135
MsaG024896 MtrunA17_Chr2g0297251 35.398 226 106 5 21 210 37 258 3.15e-39 135
MsaG024896 MtrunA17_Chr4g0065041 45.185 135 73 1 21 155 8 141 1.24e-38 134
MsaG024896 MtrunA17_Chr7g0230511 44.030 134 73 2 21 154 9 140 6.93e-37 129
MsaG024896 MtrunA17_Chr2g0320561 46.809 141 65 4 22 152 5 145 5.34e-35 124
MsaG024896 MtrunA17_Chr2g0320551 44.853 136 65 3 22 147 5 140 2.26e-34 120
MsaG024896 MtrunA17_Chr4g0052451 41.463 82 42 1 73 148 11 92 1.97e-19 79.7
MsaG024896 MtrunA17_Chr5g0434331 28.141 199 110 7 15 209 37 206 2.59e-18 79.7
MsaG024896 MtrunA17_Chr8g0386511 30.519 154 99 3 60 209 4 153 7.52e-17 74.7
MsaG024896 MtrunA17_Chr8g0392151 32.877 146 75 5 23 147 15 158 4.83e-16 74.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024896 AT4G17900.1 64.762 210 66 3 7 210 20 227 1.47e-95 278
MsaG024896 AT4G17900.2 66.667 198 58 3 19 210 18 213 4.83e-93 271
MsaG024896 AT1G32700.1 66.509 212 55 5 15 214 4 211 1.67e-91 267
MsaG024896 AT1G21000.1 49.174 242 81 5 10 209 5 246 3.65e-75 227
MsaG024896 AT1G21000.2 49.174 242 81 5 10 209 2 243 3.78e-75 227
MsaG024896 AT5G46710.3 53.883 206 86 4 13 209 4 209 2.83e-73 221
MsaG024896 AT5G46710.1 53.365 208 88 4 11 209 18 225 6.65e-73 221
MsaG024896 AT1G32700.2 66.477 176 45 4 49 214 1 172 2.75e-72 217
MsaG024896 AT1G76590.1 48.684 228 78 3 21 209 18 245 9.65e-71 216
MsaG024896 AT1G43000.2 45.495 222 102 3 7 209 2 223 3.34e-65 201
MsaG024896 AT1G43000.1 46.296 216 97 3 13 209 1 216 9.17e-65 199
MsaG024896 AT5G46710.2 59.420 138 55 1 11 147 18 155 1.16e-58 182
MsaG024896 AT2G27930.1 42.927 205 90 4 18 211 1 189 2.87e-51 164
MsaG024896 AT2G27930.4 42.927 205 90 4 18 211 1 189 2.87e-51 164
MsaG024896 AT2G27930.3 54.745 137 52 2 21 147 4 140 9.30e-48 155
MsaG024896 AT2G27930.2 54.745 137 52 2 21 147 4 140 9.30e-48 155
MsaG024896 AT2G12646.1 45.652 138 74 1 18 155 3 139 5.92e-40 137
MsaG024896 AT2G12646.2 45.652 138 74 1 18 155 3 139 5.92e-40 137
MsaG024896 AT2G12646.3 45.926 135 72 1 21 155 3 136 1.86e-39 136
MsaG024896 AT3G60670.1 45.455 132 71 1 16 147 2 132 1.73e-36 128
MsaG024896 AT1G31040.1 34.071 226 110 6 21 209 19 242 6.14e-35 124
MsaG024896 AT2G27930.5 43.243 148 58 3 74 211 61 192 1.19e-31 114
MsaG024896 AT2G27930.6 43.243 148 58 3 74 211 61 192 1.19e-31 114
MsaG024896 AT2G01818.1 32.127 221 126 6 12 209 2 221 1.27e-24 97.1
MsaG024896 AT2G01818.2 32.886 149 81 5 80 209 9 157 2.76e-12 62.8

Find 42 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTTAAGTATTTAGTAAATA+AGG 0.240485 5:-1791451 None:intergenic
TTCACAGACATGGCAAATAT+TGG 0.300856 5:-1790602 None:intergenic
TATTTATTTACTCAGATAGT+TGG 0.359410 5:+1791239 MsaT024896.1:intron
TCATTCACCTACTGCTCCCT+TGG 0.389190 5:+1790640 MsaT024896.1:CDS
GGGGATGGAGAAGGTGTAGT+TGG 0.392811 5:+1789521 MsaT024896.1:CDS
CTACTGCTCCCTTGGTTGTA+AGG 0.404328 5:+1790648 MsaT024896.1:CDS
CTTCATATCATGATGTGATA+AGG 0.416229 5:+1790464 MsaT024896.1:CDS
CAAAGATCACAGAGCTATCC+AGG 0.430527 5:+1789718 MsaT024896.1:CDS
TTCTTGTTTGATAGATAAGA+AGG 0.443037 5:+1790440 MsaT024896.1:intron
TTTCTTCTGGAATTTCTTGG+AGG 0.443249 5:-1791264 None:intergenic
TTCATATCATGATGTGATAA+GGG 0.444748 5:+1790465 MsaT024896.1:CDS
AAAAGTTAAGTGAGAGAGAT+GGG 0.446555 5:+1791288 MsaT024896.1:CDS
TTGTAAGGTGGCGGTGTTGA+AGG 0.453737 5:-1791377 None:intergenic
GTTCCACATAGAGCTCCAAT+AGG 0.475327 5:+1791422 MsaT024896.1:CDS
TTCCACATAGAGCTCCAATA+GGG 0.487236 5:+1791423 MsaT024896.1:CDS
AAGAACCTTGCTTGGAGAAG+TGG 0.495841 5:-1789593 None:intergenic
GTGACACCTTTGCCAGGCTT+AGG 0.508847 5:-1790580 None:intergenic
CCTTTGCCAGGCTTAGGCTG+AGG 0.513021 5:-1790574 None:intergenic
ATATTGGTGACACCTTTGCC+AGG 0.513857 5:-1790586 None:intergenic
ATTGAACAAAGAACCTTGCT+TGG 0.519311 5:-1789601 None:intergenic
AGTGAGAGAGATGGGTCAGA+TGG 0.523449 5:+1791296 MsaT024896.1:CDS
CAAAATTGCTAAGAGGAGGA+AGG 0.525337 5:+1791397 MsaT024896.1:CDS
GAAAGGCCTCAGCCTAAGCC+TGG 0.525826 5:+1790568 MsaT024896.1:CDS
AGATTGTGTTCTTGAATGAA+AGG 0.538525 5:+1790551 MsaT024896.1:CDS
TATTGCTTGGACTGTATGAA+TGG 0.540936 5:+1789665 MsaT024896.1:CDS
TGAATGCAATATGTATTGCT+TGG 0.544713 5:+1789652 MsaT024896.1:CDS
CACCTTACAAAATTGCTAAG+AGG 0.547965 5:+1791390 MsaT024896.1:CDS
TGCAACCACTTCTCCAAGCA+AGG 0.549474 5:+1789588 MsaT024896.1:CDS
GAAGGCTTCGTTCACAGACA+TGG 0.567153 5:-1790612 None:intergenic
AAAATTGCTAAGAGGAGGAA+GGG 0.570406 5:+1791398 MsaT024896.1:CDS
TGGAGAAGTGGTTGCAACCA+TGG 0.580919 5:-1789581 None:intergenic
CTTACAACCAAGGGAGCAGT+AGG 0.590242 5:-1790647 None:intergenic
CCTCAGCCTAAGCCTGGCAA+AGG 0.590940 5:+1790574 MsaT024896.1:CDS
AAGAAATCAAGTGGCCACCA+TGG 0.599172 5:+1789564 MsaT024896.1:CDS
AATGCATACCTTACAACCAA+GGG 0.611602 5:-1790656 None:intergenic
TGAATGAAGAAGAAATCAAG+TGG 0.619967 5:+1789555 MsaT024896.1:CDS
CTTACAAAATTGCTAAGAGG+AGG 0.624645 5:+1791393 MsaT024896.1:CDS
AGTAGGTGAATGAATCAAGA+AGG 0.627686 5:-1790630 None:intergenic
TCCACATAGAGCTCCAATAG+GGG 0.638714 5:+1791424 MsaT024896.1:CDS
CCACATAGAGCTCCAATAGG+GGG 0.648093 5:+1791425 MsaT024896.1:CDS
CAATGCATACCTTACAACCA+AGG 0.674127 5:-1790657 None:intergenic
AGAAGTGGTTGCAACCATGG+TGG 0.773987 5:-1789578 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 1789366 1791463 1789366 ID=MsaG024896
Chr5 mRNA 1789366 1791463 1789366 ID=MsaT024896.1;Parent=MsaG024896
Chr5 exon 1789366 1789368 1789366 ID=MsaT024896.1.exon1;Parent=MsaT024896.1
Chr5 CDS 1789366 1789368 1789366 ID=cds.MsaT024896.1;Parent=MsaT024896.1
Chr5 exon 1789521 1789739 1789521 ID=MsaT024896.1.exon2;Parent=MsaT024896.1
Chr5 CDS 1789521 1789739 1789521 ID=cds.MsaT024896.1;Parent=MsaT024896.1
Chr5 exon 1790454 1790669 1790454 ID=MsaT024896.1.exon3;Parent=MsaT024896.1
Chr5 CDS 1790454 1790669 1790454 ID=cds.MsaT024896.1;Parent=MsaT024896.1
Chr5 exon 1791254 1791463 1791254 ID=MsaT024896.1.exon4;Parent=MsaT024896.1
Chr5 CDS 1791254 1791463 1791254 ID=cds.MsaT024896.1;Parent=MsaT024896.1
Gene Sequence

>MsaT024896.1

ATGGGGGATGGAGAAGGTGTAGTTGGAGTGAGAAGTCTGAATGAAGAAGAAATCAAGTGGCCACCATGGTTGCAACCACTTCTCCAAGCAAGGTTCTTTGTTCAATGCAAAGTGCATGCAGATTCCAACAAAAGTGAATGCAATATGTATTGCTTGGACTGTATGAATGGAGCACTTTGTTCTTCTTGTCTAGCTTCTCACAAAGATCACAGAGCTATCCAGATAAGAAGGTCTTCATATCATGATGTGATAAGGGTGTCTGAGATACAGAAATTTTTGGACATAACAGGGGTTCAAACATACGTTATAAACAGTGCAAAGATTGTGTTCTTGAATGAAAGGCCTCAGCCTAAGCCTGGCAAAGGTGTCACCAATATTTGCCATGTCTGTGAACGAAGCCTTCTTGATTCATTCACCTACTGCTCCCTTGGTTGTAAGATAGTTGGAACCTCCAAGAAATTCCAGAAGAAAAAAAAGTTAAGTGAGAGAGATGGGTCAGATGGTGAAGAATCAAATAGTAATGAAAATGACATAAACATAAACAAAATTCAGAGCTTCACACCTTCAACACCGCCACCTTACAAAATTGCTAAGAGGAGGAAGGGAGTTCCACATAGAGCTCCAATAGGGGGAGGCCTTATTTACTAA
Protein sequence

>MsaT024896.1

MGDGEGVVGVRSLNEEEIKWPPWLQPLLQARFFVQCKVHADSNKSECNMYCLDCMNGALCSSCLASHKDHRAIQIRRSSYHDVIRVSEIQKFLDITGVQTYVINSAKIVFLNERPQPKPGKGVTNICHVCERSLLDSFTYCSLGCKIVGTSKKFQKKKKLSERDGSDGEESNSNENDININKIQSFTPSTPPPYKIAKRRKGVPHRAPIGGGLIY*