AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG033180

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG033180 MtrunA17_Chr6g0472421 93.255 341 23 0 1 341 1 341 0.0 575
MsaG033180 MtrunA17_Chr1g0203601 53.623 345 112 10 1 340 1 302 1.25e-104 309
MsaG033180 MtrunA17_Chr5g0397881 46.584 322 107 7 7 286 5 303 9.79e-81 250
MsaG033180 MtrunA17_Chr3g0134031 46.119 219 100 3 23 227 14 228 3.40e-60 197
MsaG033180 MtrunA17_Chr5g0441531 38.519 270 125 7 23 286 15 249 1.21e-53 177
MsaG033180 MtrunA17_Chr5g0402291 44.091 220 81 4 26 230 2 194 5.62e-51 171
MsaG033180 MtrunA17_Chr7g0257331 42.500 200 79 2 27 226 16 179 5.01e-44 151
MsaG033180 MtrunA17_Chr5g0410881 61.111 108 42 0 17 124 16 123 1.89e-41 151
MsaG033180 MtrunA17_Chr7g0260331 51.220 123 59 1 3 124 18 140 8.29e-41 146
MsaG033180 MtrunA17_Chr6g0467041 49.606 127 64 0 32 158 21 147 8.07e-40 143
MsaG033180 MtrunA17_Chr1g0185131 54.955 111 50 0 31 141 30 140 4.55e-39 141
MsaG033180 MtrunA17_Chr8g0375041 38.500 200 92 2 26 225 2 170 7.59e-39 138
MsaG033180 MtrunA17_Chr4g0039891 65.217 92 32 0 33 124 12 103 2.62e-38 142
MsaG033180 MtrunA17_Chr1g0204741 61.702 94 36 0 31 124 38 131 4.41e-37 135
MsaG033180 MtrunA17_Chr8g0378061 49.612 129 65 0 34 162 23 151 6.82e-37 138
MsaG033180 MtrunA17_Chr8g0379701 59.596 99 39 1 26 124 6 103 1.12e-36 136
MsaG033180 MtrunA17_Chr4g0047421 37.073 205 91 5 31 231 31 201 2.34e-36 130
MsaG033180 MtrunA17_Chr3g0135831 58.511 94 39 0 31 124 44 137 6.97e-35 131
MsaG033180 MtrunA17_Chr6g0485571 57.143 98 42 0 27 124 5 102 4.01e-34 128
MsaG033180 MtrunA17_Chr4g0071051 59.140 93 38 0 31 123 99 191 9.86e-34 129
MsaG033180 MtrunA17_Chr2g0284481 48.739 119 61 0 33 151 15 133 2.32e-33 127
MsaG033180 MtrunA17_Chr2g0330821 52.830 106 49 1 31 135 77 182 1.75e-32 124
MsaG033180 MtrunA17_Chr8g0392001 59.574 94 37 1 32 124 21 114 2.11e-31 121
MsaG033180 MtrunA17_Chr1g0179321 56.757 74 32 0 19 92 35 108 4.39e-23 92.4
MsaG033180 MtrunA17_Chr4g0023771 57.377 61 25 1 33 92 15 75 1.21e-18 80.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG033180 AT5G62020.1 47.917 336 101 9 26 340 16 298 3.95e-87 265
MsaG033180 AT4G11660.1 46.532 346 121 8 25 329 51 373 2.42e-79 247
MsaG033180 AT1G46264.1 48.276 203 101 2 28 227 29 230 4.96e-57 189
MsaG033180 AT4G36990.1 43.318 217 83 3 21 226 2 189 3.96e-52 174
MsaG033180 AT2G41690.1 43.434 198 94 3 31 228 38 217 6.54e-44 151
MsaG033180 AT4G17750.1 63.725 102 37 0 23 124 42 143 1.81e-40 148
MsaG033180 AT1G32330.1 67.021 94 31 0 31 124 35 128 8.43e-40 146
MsaG033180 AT1G32330.2 67.021 94 31 0 31 124 35 128 8.85e-40 146
MsaG033180 AT3G22830.1 60.000 110 44 0 15 124 43 152 1.60e-39 144
MsaG033180 AT3G02990.1 66.667 96 31 1 29 124 20 114 7.63e-39 144
MsaG033180 AT5G43840.1 59.223 103 42 0 31 133 17 119 9.61e-39 139
MsaG033180 AT3G51910.1 55.340 103 46 0 31 133 27 129 3.65e-38 137
MsaG033180 AT5G16820.1 65.625 96 32 1 29 124 24 118 6.04e-37 139
MsaG033180 AT5G16820.2 65.625 96 32 1 29 124 24 118 6.04e-37 139
MsaG033180 AT2G26150.1 59.574 94 38 0 31 124 42 135 2.90e-36 134
MsaG033180 AT2G26150.4 59.574 94 38 0 31 124 42 135 2.90e-36 134
MsaG033180 AT5G03720.2 40.984 183 61 2 33 215 55 190 4.93e-36 135
MsaG033180 AT5G03720.1 40.984 183 61 2 33 215 55 190 4.93e-36 135
MsaG033180 AT3G63350.1 56.701 97 42 0 27 123 22 118 5.24e-36 132
MsaG033180 AT5G54070.1 55.660 106 43 1 30 131 68 173 3.45e-35 131
MsaG033180 AT4G13980.1 57.843 102 42 1 34 134 24 125 7.30e-35 133
MsaG033180 AT3G24520.1 61.053 95 37 0 30 124 14 108 1.52e-34 129
MsaG033180 AT1G67970.1 58.065 93 38 1 33 124 19 111 9.07e-32 122
MsaG033180 AT5G45710.3 56.757 111 44 2 29 139 10 116 2.31e-29 115
MsaG033180 AT5G45710.1 56.757 111 44 2 29 139 10 116 2.31e-29 115
MsaG033180 AT4G18880.1 59.596 99 39 1 26 124 9 106 3.86e-28 113
MsaG033180 AT4G18870.1 45.055 91 45 3 32 120 12 99 5.51e-19 86.3
MsaG033180 AT4G18870.1 42.391 92 50 1 29 117 139 230 1.02e-18 85.5
MsaG033180 AT1G77570.1 39.773 88 48 3 34 117 27 113 4.13e-11 60.8

Find 79 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCAAATCAAGCGGCGGATT+TGG 0.255860 6:-78874605 None:intergenic
TTATTGTGTTTGAAATATTT+AGG 0.302478 6:-78873924 None:intergenic
TCGAAGAAAACGAGAGATTA+AGG 0.323201 6:+78874432 MsaT033180.1:CDS
ATGGATCCACGTTTATTGTT+TGG 0.338781 6:+78873871 MsaT033180.1:CDS
AGAGAAAACGGTTGTGGAAA+TGG 0.407338 6:+78874707 MsaT033180.1:CDS
GAAATGAATCCGAAGCTATT+CGG 0.407926 6:+78874659 MsaT033180.1:CDS
GTTATTTCGTGGAACGAAGA+TGG 0.410793 6:+78873852 MsaT033180.1:CDS
AAGCTATTCGGTGTGGCGAT+TGG 0.421551 6:+78874671 MsaT033180.1:CDS
TTCAAACTCCGGTGAAGAAC+AGG 0.428986 6:+78874364 MsaT033180.1:CDS
CATGGCTCCTTCACCAGCTC+CGG 0.458186 6:+78873704 None:intergenic
TTTGAAAATTCCCACCGGTC+AGG 0.467906 6:-78874146 None:intergenic
TGGATTCACCGCCGTCATAC+CGG 0.469995 6:-78874585 None:intergenic
TCCTTCACCGGTACTGTTGA+CGG 0.472445 6:+78874310 MsaT033180.1:CDS
GCTTGATTTGATGCCGGCGG+TGG 0.475803 6:+78874616 MsaT033180.1:CDS
TGTTCTTCACCGGAGTTTGA+AGG 0.481179 6:-78874362 None:intergenic
GGGTGTTGCAACGATGGTTG+TGG 0.483511 6:-78873748 None:intergenic
ACAAAACGAGTAAGAGAAAA+CGG 0.506801 6:+78874695 MsaT033180.1:CDS
TGATGCCGGCGGTGGCAAAA+CGG 0.508254 6:+78874624 MsaT033180.1:CDS
AAATTACTAGCAAAGACAGT+AGG 0.509112 6:-78873897 None:intergenic
TGTCAGAAACGGTGTAGGAA+TGG 0.509225 6:-78873790 None:intergenic
ATTGAGTTGACGAACAAAGC+TGG 0.509850 6:-78873952 None:intergenic
GCTACATCAACCTGGTTCTA+CGG 0.510688 6:+78874757 MsaT033180.1:CDS
ATCGCCACACCGAATAGCTT+CGG 0.514928 6:-78874668 None:intergenic
GGCTCCTTCACCAGCTCCGG+TGG 0.518505 6:+78873707 MsaT033180.1:CDS
AGCTCCGCTGGAGCTCGTGC+CGG 0.521687 6:-78874407 None:intergenic
GCTCAAGGAAGTAGAGAATC+CGG 0.523566 6:+78874566 MsaT033180.1:CDS
GGACGTGAAATCTGAACCGT+TGG 0.523870 6:+78874778 MsaT033180.1:CDS
GATTTCACGTCCGTAGAACC+AGG 0.525961 6:-78874767 None:intergenic
GAAATCATCGGCATCGCCGT+TGG 0.531406 6:-78874338 None:intergenic
GGTATTACCGTCAACAGTAC+CGG 0.536641 6:-78874317 None:intergenic
GACGGTTGCAGTTCCTTCAC+CGG 0.537577 6:+78874298 MsaT033180.1:CDS
GCGGTGGCAAAACGGAGCTC+CGG 0.538825 6:+78874632 MsaT033180.1:CDS
GGCTTCTATGTGAGATTCAA+CGG 0.547067 6:+78874195 MsaT033180.1:CDS
TCCGCCGCTTGATTTGATGC+CGG 0.547623 6:+78874610 MsaT033180.1:CDS
AAGTAGAGAATCCGGTATGA+CGG 0.547644 6:+78874574 MsaT033180.1:CDS
CGAGTAAGAGAAAACGGTTG+TGG 0.561701 6:+78874701 MsaT033180.1:CDS
GATATCATCGAGTTCTTCAC+CGG 0.561771 6:+78874388 MsaT033180.1:CDS
CAAACAGACGGTGGTGCTCA+AGG 0.562268 6:+78874551 MsaT033180.1:CDS
TCAAATGAGTATTTCCGAAG+AGG 0.564250 6:+78874164 MsaT033180.1:CDS
TTCACCGGCACGAGCTCCAG+CGG 0.565601 6:+78874403 MsaT033180.1:CDS
CTTCGGATTCATTTCCTCGC+CGG 0.573414 6:-78874651 None:intergenic
AATTACTAGCAAAGACAGTA+GGG 0.574678 6:-78873896 None:intergenic
GAATGGATCTCTGAGACTCA+AGG 0.576240 6:-78873773 None:intergenic
CTATCGACGAGGTTATTTCG+TGG 0.578836 6:+78873841 MsaT033180.1:CDS
ATGATTTCACCTTCAAACTC+CGG 0.578998 6:+78874353 MsaT033180.1:CDS
ACAGACGACGGTGAAGGTGT+TGG 0.580465 6:-78874233 None:intergenic
AATGGATCTCTGAGACTCAA+GGG 0.581386 6:-78873772 None:intergenic
TGATATCACCTGTTCTTCAC+CGG 0.582429 6:-78874372 None:intergenic
CTGTTGCGGCTACATCAACC+TGG 0.585040 6:+78874749 MsaT033180.1:CDS
AACAATAACACTCAAACAGA+CGG 0.595180 6:+78874539 MsaT033180.1:CDS
ACCGTCAACAGTACCGGTGA+AGG 0.597630 6:-78874311 None:intergenic
TCATGTTCTTGACAATCCAA+CGG 0.598951 6:-78874794 None:intergenic
GAGTTTGAAGGTGAAATCAT+CGG 0.602935 6:-78874350 None:intergenic
TTAGAAAAGTAGTACCTGAC+CGG 0.612069 6:+78874132 MsaT033180.1:CDS
ACCGCCGGCATCAAATCAAG+CGG 0.614650 6:-78874614 None:intergenic
GATCTCTGAGACTCAAGGGT+GGG 0.626662 6:-78873768 None:intergenic
GCCGCTTGATTTGATGCCGG+CGG 0.632055 6:+78874613 MsaT033180.1:CDS
ACAGACACAGACGACGGTGA+AGG 0.632232 6:-78874239 None:intergenic
AAAAGTAGTACCTGACCGGT+GGG 0.635759 6:+78874136 MsaT033180.1:CDS
AGCAGAAACTACAACAGCGA+CGG 0.641238 6:+78874280 MsaT033180.1:CDS
ACTCATTTGAAAATTCCCAC+CGG 0.642486 6:-78874151 None:intergenic
AAGGGTGGGTGTTGCAACGA+TGG 0.643473 6:-78873754 None:intergenic
GCCGGCATCAAATCAAGCGG+CGG 0.648795 6:-78874611 None:intergenic
GAAAAGTAGTACCTGACCGG+TGG 0.652133 6:+78874135 MsaT033180.1:CDS
TAGAGAATCCGGTATGACGG+CGG 0.661957 6:+78874577 MsaT033180.1:CDS
GGATCTCTGAGACTCAAGGG+TGG 0.663453 6:-78873769 None:intergenic
GGCAAAACGGAGCTCCGGCG+AGG 0.665647 6:+78874637 MsaT033180.1:CDS
GAGAAGATGATACACTGTTG+CGG 0.665700 6:+78874735 MsaT033180.1:CDS
CGATAGATTTATCATCGACG+AGG 0.666770 6:-78873824 None:intergenic
ATTTCCGAAGAGGAGAAAAG+CGG 0.674735 6:+78874174 MsaT033180.1:CDS
CCAGCTCCGGTGGAAAACAA+CGG 0.682827 6:+78873717 MsaT033180.1:CDS
ACTGTTGACGGTAATACCAA+CGG 0.686195 6:+78874322 MsaT033180.1:CDS
AGGGTTCCAAACAATAAACG+TGG 0.693378 6:-78873877 None:intergenic
CGATGATAAATCTATCGACG+AGG 0.705066 6:+78873830 MsaT033180.1:CDS
GAATCCGAAGCTATTCGGTG+TGG 0.707189 6:+78874664 MsaT033180.1:CDS
ATGATAATGATCGAACAGCG+TGG 0.724654 6:+78874813 MsaT033180.1:CDS
GCAGAAACAGACACAGACGA+CGG 0.733840 6:-78874245 None:intergenic
AATAACACTCAAACAGACGG+TGG 0.734578 6:+78874542 MsaT033180.1:CDS
TTCTATGTGAGATTCAACGG+AGG 0.744234 6:+78874198 MsaT033180.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 78873705 78874877 78873705 ID=MsaG033180
Chr6 mRNA 78873705 78874877 78873705 ID=MsaT033180.1;Parent=MsaG033180
Chr6 exon 78873705 78873980 78873705 ID=MsaT033180.1.exon1;Parent=MsaT033180.1
Chr6 CDS 78873705 78873980 78873705 ID=cds.MsaT033180.1;Parent=MsaT033180.1
Chr6 exon 78874128 78874877 78874128 ID=MsaT033180.1.exon2;Parent=MsaT033180.1
Chr6 CDS 78874128 78874877 78874128 ID=cds.MsaT033180.1;Parent=MsaT033180.1
Gene Sequence

>MsaT033180.1

ATGGCTCCTTCACCAGCTCCGGTGGAAAACAACGGAGAAACAACCACAACCATCGTTGCAACACCCACCCTTGAGTCTCAGAGATCCATTCCTACACCGTTTCTGACAAAAACATATAACCTCGTCGATGATAAATCTATCGACGAGGTTATTTCGTGGAACGAAGATGGATCCACGTTTATTGTTTGGAACCCTACTGTCTTTGCTAGTAATTTGCTTCCTAAATATTTCAAACACAATAATTTCTCCAGCTTTGTTCGTCAACTCAATACTTATGGATTTAGAAAAGTAGTACCTGACCGGTGGGAATTTTCAAATGAGTATTTCCGAAGAGGAGAAAAGCGGCTTCTATGTGAGATTCAACGGAGGAAGATCTGTTCTCCAACACCTTCACCGTCGTCTGTGTCTGTTTCTGCTGCTGTAACAGCAGCAGAAACTACAACAGCGACGGTTGCAGTTCCTTCACCGGTACTGTTGACGGTAATACCAACGGCGATGCCGATGATTTCACCTTCAAACTCCGGTGAAGAACAGGTGATATCATCGAGTTCTTCACCGGCACGAGCTCCAGCGGAGCTTCTCGAAGAAAACGAGAGATTAAGGAAAGAGAACAATTTATTGAATAAAGAGCTTGCTGAGATGAGATTGCTTTGTAACAATATATACTCTCTAATGTCAAATTTTGCAAACAATAACACTCAAACAGACGGTGGTGCTCAAGGAAGTAGAGAATCCGGTATGACGGCGGTGAATCCAAATCCGCCGCTTGATTTGATGCCGGCGGTGGCAAAACGGAGCTCCGGCGAGGAAATGAATCCGAAGCTATTCGGTGTGGCGATTGGAACAAAACGAGTAAGAGAAAACGGTTGTGGAAATGGTGAAAGAGAAGATGATACACTGTTGCGGCTACATCAACCTGGTTCTACGGACGTGAAATCTGAACCGTTGGATTGTCAAGAACATGATAATGATCGAACAGCGTGGTTGAATCAGAGTCGTAGAAAGAATCAGAATTTGTGTAAATGA
Protein sequence

>MsaT033180.1

MAPSPAPVENNGETTTTIVATPTLESQRSIPTPFLTKTYNLVDDKSIDEVISWNEDGSTFIVWNPTVFASNLLPKYFKHNNFSSFVRQLNTYGFRKVVPDRWEFSNEYFRRGEKRLLCEIQRRKICSPTPSPSSVSVSAAVTAAETTTATVAVPSPVLLTVIPTAMPMISPSNSGEEQVISSSSSPARAPAELLEENERLRKENNLLNKELAEMRLLCNNIYSLMSNFANNNTQTDGGAQGSRESGMTAVNPNPPLDLMPAVAKRSSGEEMNPKLFGVAIGTKRVRENGCGNGEREDDTLLRLHQPGSTDVKSEPLDCQEHDNDRTAWLNQSRRKNQNLCK*