AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG026183

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026183 MtrunA17_Chr5g0411151 98.312 237 4 0 1 237 1 237 7.94e-179 490
MsaG026183 MtrunA17_Chr8g0366581 84.874 238 32 3 1 237 1 235 2.74e-140 392
MsaG026183 MtrunA17_Chr4g0040071 73.000 200 52 1 33 232 13 210 5.04e-108 310
MsaG026183 MtrunA17_Chr5g0395181 69.811 212 55 3 21 232 7 209 2.05e-106 306
MsaG026183 MtrunA17_Chr1g0179781 54.680 203 79 4 35 231 7 202 7.16e-72 218
MsaG026183 MtrunA17_Chr7g0265291 58.000 200 78 3 35 231 7 203 2.32e-70 214
MsaG026183 MtrunA17_Chr2g0308401 50.735 136 57 4 36 161 5 140 5.64e-42 140
MsaG026183 MtrunA17_Chr4g0020811 48.227 141 63 3 31 161 2 142 5.80e-42 140
MsaG026183 MtrunA17_Chr2g0320521 35.622 233 104 6 36 230 7 231 1.30e-40 139
MsaG026183 MtrunA17_Chr7g0230511 34.979 243 112 5 32 230 6 246 2.86e-38 133
MsaG026183 MtrunA17_Chr2g0297251 35.088 228 109 5 35 230 37 257 7.60e-37 130
MsaG026183 MtrunA17_Chr4g0065041 45.185 135 73 1 35 169 8 141 1.21e-35 127
MsaG026183 MtrunA17_Chr2g0320561 47.183 142 65 4 36 167 5 146 2.11e-35 125
MsaG026183 MtrunA17_Chr2g0320551 44.853 136 65 3 36 161 5 140 3.42e-34 120
MsaG026183 MtrunA17_Chr4g0052451 43.902 82 40 1 87 162 11 92 1.26e-19 80.5
MsaG026183 MtrunA17_Chr8g0392151 35.616 146 71 5 37 161 15 158 1.01e-17 79.3
MsaG026183 MtrunA17_Chr8g0386511 30.247 162 96 4 74 230 4 153 1.85e-15 71.2
MsaG026183 MtrunA17_Chr5g0434331 26.238 202 105 9 35 230 43 206 3.39e-13 66.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026183 AT4G17900.1 74.678 233 51 4 1 231 1 227 2.07e-127 360
MsaG026183 AT4G17900.2 74.257 202 45 3 32 231 17 213 4.37e-108 310
MsaG026183 AT1G32700.1 72.093 215 55 2 25 237 2 213 1.25e-104 301
MsaG026183 AT1G32700.2 73.446 177 42 2 63 237 1 174 4.47e-82 243
MsaG026183 AT5G46710.1 53.191 235 95 6 1 230 1 225 3.21e-80 240
MsaG026183 AT1G21000.1 48.750 240 84 4 28 230 9 246 3.07e-75 228
MsaG026183 AT1G21000.2 48.750 240 84 4 28 230 6 243 3.28e-75 228
MsaG026183 AT5G46710.3 52.404 208 91 4 28 230 5 209 1.82e-72 220
MsaG026183 AT1G76590.1 49.130 230 81 2 35 230 18 245 6.14e-71 217
MsaG026183 AT5G46710.2 60.494 162 56 3 1 161 1 155 5.49e-68 207
MsaG026183 AT1G43000.2 47.442 215 101 2 28 230 9 223 4.61e-66 204
MsaG026183 AT1G43000.1 47.442 215 101 2 28 230 2 216 4.85e-66 204
MsaG026183 AT2G27930.1 45.673 208 81 5 35 232 4 189 4.26e-52 167
MsaG026183 AT2G27930.4 45.673 208 81 5 35 232 4 189 4.26e-52 167
MsaG026183 AT2G27930.3 54.745 137 52 2 35 161 4 140 2.93e-47 154
MsaG026183 AT2G27930.2 54.745 137 52 2 35 161 4 140 2.93e-47 154
MsaG026183 AT2G12646.3 46.667 135 71 1 35 169 3 136 1.69e-36 129
MsaG026183 AT2G12646.1 46.667 135 71 1 35 169 6 139 1.91e-36 129
MsaG026183 AT2G12646.2 46.667 135 71 1 35 169 6 139 1.91e-36 129
MsaG026183 AT1G31040.1 35.398 226 114 4 35 230 19 242 2.46e-36 129
MsaG026183 AT3G60670.1 45.455 132 71 1 30 161 2 132 1.56e-34 124
MsaG026183 AT2G27930.5 47.403 154 50 4 88 232 61 192 3.91e-34 121
MsaG026183 AT2G27930.6 47.403 154 50 4 88 232 61 192 3.91e-34 121
MsaG026183 AT2G01818.1 33.488 215 116 8 37 230 13 221 1.26e-20 87.0

Find 52 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACCATGATTCTCCTGTTCTT+TGG 0.256621 5:+18193931 None:intergenic
TGGTATTCCCTTTCTTCTCT+TGG 0.322835 5:+18192305 None:intergenic
TGGTTTGATTTCTCTGACAC+TGG 0.330907 5:+18193951 None:intergenic
TCCTTCCGGTTCTGTTCTCT+TGG 0.350274 5:-18193032 MsaT026183.1:CDS
CAAAGACCACCGTTACATTC+AGG 0.356801 5:-18193599 MsaT026183.1:intron
TTCTGCAATTAACTGAAGTT+GGG 0.369679 5:+18192331 None:intergenic
GTAGCCTTCTTGATTCCTTC+CGG 0.377067 5:-18193046 MsaT026183.1:CDS
CAGAAACACTTGGACATTGC+TGG 0.382483 5:-18193173 MsaT026183.1:CDS
GTTCTGCAATTAACTGAAGT+TGG 0.404594 5:+18192330 None:intergenic
CTTCATACCATGATGTGATA+AGG 0.416229 5:-18193208 MsaT026183.1:CDS
TGAATGTAATATGTATTGTT+TGG 0.429253 5:-18193665 MsaT026183.1:CDS
CCTTGCACTGTTGATAATGT+AGG 0.430360 5:+18193142 None:intergenic
TATTGTTTGGATTGTATGAA+TGG 0.430470 5:-18193652 MsaT026183.1:CDS
CTAAGAACTTCCAGAAGAAA+AGG 0.442353 5:-18192464 MsaT026183.1:CDS
GAGAAATCAAACCAAAGAAC+AGG 0.443596 5:-18193942 MsaT026183.1:CDS
ATACCACATAGAGCCCCATT+GGG 0.447453 5:-18192288 MsaT026183.1:CDS
TTCATACCATGATGTGATAA+GGG 0.458976 5:-18193207 MsaT026183.1:CDS
TGCAACCAAGAGAACAGAAC+CGG 0.486127 5:+18193027 None:intergenic
GAATGTAACGGTGGTCTTTG+TGG 0.500381 5:+18193602 None:intergenic
CAGAACAGCCAAGAGAAGAA+AGG 0.504865 5:-18192313 MsaT026183.1:CDS
GTTCTGTTCTCTTGGTTGCA+AGG 0.507358 5:-18193024 MsaT026183.1:intron
AGAACAGCCAAGAGAAGAAA+GGG 0.515726 5:-18192312 MsaT026183.1:CDS
CATCTGTTATCATCATCATC+AGG 0.523367 5:+18193763 None:intergenic
CCTCAACCAAGGCCAGGAAA+AGG 0.529589 5:-18193098 MsaT026183.1:CDS
AATACCACATAGAGCCCCAT+TGG 0.536612 5:-18192289 MsaT026183.1:CDS
TTCAACAATGGTTTCAACCA+TGG 0.537430 5:+18193736 None:intergenic
AAGAAAGCTTCTTTCAACAA+TGG 0.545716 5:+18193724 None:intergenic
CATTCACCCTTATCACATCA+TGG 0.546598 5:+18193201 None:intergenic
ACCAAAGAACAGGAGAATCA+TGG 0.546667 5:-18193932 MsaT026183.1:intron
TATGGTTTGAACAGATTAGG+AGG 0.550366 5:-18193232 MsaT026183.1:intron
GAATGTGAATTGCAGATTGT+GGG 0.552420 5:-18192492 MsaT026183.1:intron
GAAAGGCCTCAACCAAGGCC+AGG 0.557056 5:-18193104 MsaT026183.1:CDS
CCTACATTATCAACAGTGCA+AGG 0.564703 5:-18193142 MsaT026183.1:CDS
AAGGAGACAATTAACAGCAA+TGG 0.585369 5:-18192445 MsaT026183.1:CDS
AGCAATGGCATCAGATTCTG+AGG 0.610535 5:-18192430 MsaT026183.1:CDS
TGAATGAAAGGCCTCAACCA+AGG 0.613108 5:-18193109 MsaT026183.1:CDS
AACAATGGTTTCAACCATGG+TGG 0.622605 5:+18193739 None:intergenic
GAATGAGATTCAGAAACACT+TGG 0.628209 5:-18193183 MsaT026183.1:CDS
TCTGCAATTAACTGAAGTTG+GGG 0.651804 5:+18192332 None:intergenic
GAAGACAAACCTGAATGTAA+CGG 0.653422 5:+18193590 None:intergenic
AGAACCGGAAGGAATCAAGA+AGG 0.656588 5:+18193042 None:intergenic
CTACATTATCAACAGTGCAA+GGG 0.657965 5:-18193141 MsaT026183.1:CDS
ACCACATAGAGCCCCATTGG+GGG 0.661326 5:-18192286 MsaT026183.1:CDS
TACCACATAGAGCCCCATTG+GGG 0.680294 5:-18192287 MsaT026183.1:CDS
CCACATAGAGCCCCATTGGG+GGG 0.682285 5:-18192285 MsaT026183.1:CDS
ATGATAACAGATGGCCACCA+TGG 0.683499 5:-18193753 MsaT026183.1:CDS
ACCAAGAGAACAGAACCGGA+AGG 0.684862 5:+18193031 None:intergenic
AATGTGAATTGCAGATTGTG+GGG 0.690938 5:-18192491 MsaT026183.1:intron
CTGATGATGATGATAACAGA+TGG 0.692210 5:-18193762 MsaT026183.1:CDS
GACAAACCTGAATGTAACGG+TGG 0.716496 5:+18193593 None:intergenic
GCAAGACAGAGAGAACAGAG+AGG 0.742658 5:+18193628 None:intergenic
CTGCAATTAACTGAAGTTGG+GGG 0.746847 5:+18192333 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 18192266 18193998 18192266 ID=MsaG026183
Chr5 mRNA 18192266 18193998 18192266 ID=MsaT026183.1;Parent=MsaG026183
Chr5 exon 18192266 18192499 18192266 ID=MsaT026183.1.exon4;Parent=MsaT026183.1
Chr5 CDS 18192266 18192499 18192266 ID=cds.MsaT026183.1;Parent=MsaT026183.1
Chr5 exon 18193025 18193240 18193025 ID=MsaT026183.1.exon3;Parent=MsaT026183.1
Chr5 CDS 18193025 18193240 18193025 ID=cds.MsaT026183.1;Parent=MsaT026183.1
Chr5 exon 18193600 18193797 18193600 ID=MsaT026183.1.exon2;Parent=MsaT026183.1
Chr5 CDS 18193600 18193797 18193600 ID=cds.MsaT026183.1;Parent=MsaT026183.1
Chr5 exon 18193933 18193998 18193933 ID=MsaT026183.1.exon1;Parent=MsaT026183.1
Chr5 CDS 18193933 18193998 18193933 ID=cds.MsaT026183.1;Parent=MsaT026183.1
Gene Sequence

>MsaT026183.1

ATGGCAATTGAAAATCAAGAAAACACCAGTGTCAGAGAAATCAAACCAAAGAACAGGAGAATCATGGGTGCTGGAGGACCTGATGATGATGATAACAGATGGCCACCATGGTTGAAACCATTGTTGAAAGAAGCTTTCTTTGTTCAATGCAAGATACATGCTGATTCTCACAAGAGTGAATGTAATATGTATTGTTTGGATTGTATGAATGGTCCTCTCTGTTCTCTCTGTCTTGCTTACCACAAAGACCACCGTTACATTCAGATTAGGAGGTCTTCATACCATGATGTGATAAGGGTGAATGAGATTCAGAAACACTTGGACATTGCTGGTGTTCAAACCTACATTATCAACAGTGCAAGGGTTGTGTTTTTGAATGAAAGGCCTCAACCAAGGCCAGGAAAAGGTGTCACAAACACTTGTGAAGTTTGTGAGCGTAGCCTTCTTGATTCCTTCCGGTTCTGTTCTCTTGGTTGCAAGATTGTGGGGACATCTAAGAACTTCCAGAAGAAAAGGAGACAATTAACAGCAATGGCATCAGATTCTGAGGAGTCATACAGTAGCAACAACATTCATAGCCGTCAGAAGAAAATCAAAGTTCAAAGCTTTACACCATCTACACCACCCCCAACTTCAGTTAATTGCAGAACAGCCAAGAGAAGAAAGGGAATACCACATAGAGCCCCATTGGGGGGACTTGATCTAGATTATTAG
Protein sequence

>MsaT026183.1

MAIENQENTSVREIKPKNRRIMGAGGPDDDDNRWPPWLKPLLKEAFFVQCKIHADSHKSECNMYCLDCMNGPLCSLCLAYHKDHRYIQIRRSSYHDVIRVNEIQKHLDIAGVQTYIINSARVVFLNERPQPRPGKGVTNTCEVCERSLLDSFRFCSLGCKIVGTSKNFQKKRRQLTAMASDSEESYSSNNIHSRQKKIKVQSFTPSTPPPTSVNCRTAKRRKGIPHRAPLGGLDLDY*