AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG027326

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG027326 MtrunA17_Chr5g0420051 96.110 437 17 0 1 437 1 437 0.0 850
MsaG027326 MtrunA17_Chr2g0308321 39.674 368 192 11 1 354 1 352 2.89e-61 207
MsaG027326 MtrunA17_Chr4g0061651 49.315 219 88 8 111 316 56 264 5.74e-51 179
MsaG027326 MtrunA17_Chr3g0132091 46.104 154 78 2 131 279 18 171 2.66e-37 139
MsaG027326 MtrunA17_Chr3g0122411 37.751 249 119 7 121 336 108 353 3.55e-37 140
MsaG027326 MtrunA17_Chr8g0386271 46.405 153 77 3 131 279 45 196 8.66e-36 136
MsaG027326 MtrunA17_Chr4g0046991 60.638 94 34 1 166 259 61 151 6.63e-35 127
MsaG027326 MtrunA17_Chr7g0231911 73.077 78 21 0 181 258 149 226 1.37e-34 130
MsaG027326 MtrunA17_Chr8g0334671 53.488 129 51 4 135 256 136 262 7.67e-34 129
MsaG027326 MtrunA17_Chr2g0282521 66.667 84 28 0 176 259 59 142 8.48e-34 123
MsaG027326 MtrunA17_Chr7g0258471 71.429 77 22 0 179 255 140 216 1.15e-33 130
MsaG027326 MtrunA17_Chr7g0224821 58.000 100 42 0 180 279 76 175 2.21e-33 129
MsaG027326 MtrunA17_Chr2g0302791 62.766 94 34 1 166 258 123 216 1.42e-32 131
MsaG027326 MtrunA17_Chr1g0194121 61.798 89 34 0 166 254 132 220 3.15e-31 127
MsaG027326 MtrunA17_Chr1g0162871 63.441 93 33 1 167 258 89 181 7.24e-31 125
MsaG027326 MtrunA17_Chr8g0360361 67.105 76 25 0 179 254 63 138 1.04e-30 116
MsaG027326 MtrunA17_Chr7g0270541 67.949 78 25 0 181 258 145 222 1.82e-30 124
MsaG027326 MtrunA17_Chr8g0377421 42.857 126 71 1 130 254 80 205 1.67e-28 114
MsaG027326 MtrunA17_Chr8g0377401 59.211 76 31 0 178 253 159 234 3.87e-26 106
MsaG027326 MtrunA17_Chr2g0286661 51.282 78 38 0 181 258 103 180 6.65e-22 98.6
MsaG027326 MtrunA17_Chr2g0317041 64.000 50 18 0 178 227 96 145 7.49e-17 77.4
MsaG027326 MtrunA17_Chr1g0175031 65.306 49 17 0 179 227 72 120 4.43e-16 74.7
MsaG027326 MtrunA17_Chr8g0377431 35.938 128 76 2 107 234 83 204 7.23e-16 76.3
MsaG027326 MtrunA17_Chr1g0175021 61.224 49 18 1 228 275 8 56 1.59e-11 63.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG027326 AT1G69170.1 34.557 463 186 15 1 421 1 388 3.48e-61 204
MsaG027326 AT1G27370.6 50.400 125 61 1 133 256 127 251 8.43e-35 132
MsaG027326 AT2G42200.1 62.887 97 33 1 179 272 72 168 9.80e-35 133
MsaG027326 AT1G27370.1 50.400 125 61 1 133 256 127 251 2.77e-34 132
MsaG027326 AT1G27370.5 50.400 125 61 1 133 256 127 251 2.77e-34 132
MsaG027326 AT1G27370.3 50.400 125 61 1 133 256 127 251 2.77e-34 132
MsaG027326 AT1G27370.2 50.400 125 61 1 133 256 127 251 2.77e-34 132
MsaG027326 AT1G27370.4 50.400 125 61 1 133 256 127 251 2.77e-34 132
MsaG027326 AT1G27370.7 50.400 125 61 1 133 256 127 251 2.77e-34 132
MsaG027326 AT5G50570.1 56.436 101 43 1 179 279 99 198 4.68e-34 130
MsaG027326 AT5G50570.2 56.436 101 43 1 179 279 99 198 4.68e-34 130
MsaG027326 AT5G50670.1 56.436 101 43 1 179 279 99 198 4.68e-34 130
MsaG027326 AT5G50670.2 56.436 101 43 1 179 279 99 198 4.68e-34 130
MsaG027326 AT1G76580.3 60.000 105 41 1 179 283 112 215 2.78e-33 133
MsaG027326 AT1G76580.2 60.000 105 41 1 179 283 112 215 2.92e-33 133
MsaG027326 AT3G57920.1 63.265 98 34 1 181 276 59 156 4.40e-33 128
MsaG027326 AT5G43270.3 70.130 77 23 0 179 255 167 243 4.62e-33 129
MsaG027326 AT5G43270.1 70.130 77 23 0 179 255 167 243 4.62e-33 129
MsaG027326 AT5G43270.2 70.130 77 23 0 179 255 167 243 4.62e-33 129
MsaG027326 AT1G76580.1 60.000 105 41 1 179 283 112 215 8.73e-33 132
MsaG027326 AT1G20980.1 38.798 183 72 3 167 349 106 248 1.22e-32 131
MsaG027326 AT1G27360.2 51.200 125 59 2 133 256 127 250 1.73e-32 127
MsaG027326 AT1G27360.1 51.200 125 59 2 133 256 127 250 1.73e-32 127
MsaG027326 AT1G27360.3 51.200 125 59 2 133 256 127 250 1.73e-32 127
MsaG027326 AT1G27360.4 51.200 125 59 2 133 256 127 250 1.73e-32 127
MsaG027326 AT2G33810.1 65.823 79 27 0 180 258 53 131 3.07e-32 119
MsaG027326 AT3G60030.1 52.586 116 40 1 172 272 118 233 5.66e-32 129
MsaG027326 AT1G02065.1 67.532 77 25 0 178 254 185 261 9.47e-32 124
MsaG027326 AT2G47070.1 72.000 75 21 0 180 254 105 179 5.52e-31 126
MsaG027326 AT1G53160.2 65.333 75 26 0 180 254 53 127 2.28e-29 113
MsaG027326 AT1G53160.1 65.333 75 26 0 180 254 53 127 2.28e-29 113
MsaG027326 AT1G53160.3 65.333 75 26 0 180 254 53 127 2.77e-29 112
MsaG027326 AT3G15270.1 64.000 75 27 0 180 254 62 136 2.90e-29 113
MsaG027326 AT5G18830.2 42.453 106 58 2 165 268 123 227 1.37e-20 95.1
MsaG027326 AT5G18830.3 42.453 106 58 2 165 268 123 227 1.53e-20 95.1
MsaG027326 AT5G18830.1 42.453 106 58 2 165 268 123 227 1.59e-20 95.1
MsaG027326 AT2G47070.2 74.000 50 13 0 205 254 1 50 2.03e-18 88.6
MsaG027326 AT1G02065.2 60.000 60 22 1 178 235 185 244 4.92e-17 80.9

Find 86 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCTCCTGTATGCCAAGTTTA+TGG 0.217464 5:+42423257 MsaT027326.1:CDS
AACAAATAGCTTCTCTCTTC+AGG 0.222642 5:-42422747 None:intergenic
GACGATAACTTTAGCTGTTT+TGG 0.248051 5:-42423345 None:intergenic
GATTTCCTATGGAATCTTCT+AGG 0.252745 5:+42422919 MsaT027326.1:CDS
TCTAGTTGAGGGCTGCAAAT+TGG 0.253374 5:-42426579 None:intergenic
CACTTCTAGCTTACCTGCTT+TGG 0.255243 5:+42423235 MsaT027326.1:CDS
CTAGTTGAGGGCTGCAAATT+GGG 0.324457 5:-42426578 None:intergenic
TAAAGAGGTAGTTAAAAGTA+TGG 0.329448 5:+42422881 MsaT027326.1:CDS
GAAGCAAAGAAATTCTGTTT+TGG 0.338535 5:+42426908 MsaT027326.1:CDS
TTTGCTTCTCCACCCTTTGA+AGG 0.344895 5:-42426893 None:intergenic
TTCTAGGACTGTTCGTGGTT+CGG 0.375535 5:+42422935 MsaT027326.1:CDS
TTCAGATTTAATAATTTCCT+TGG 0.376641 5:-42426832 None:intergenic
AAGTATGGAATTTGTGGACT+TGG 0.383614 5:+42422896 MsaT027326.1:CDS
AATTTGTAGTAATGGAATCT+TGG 0.385979 5:+42422715 None:intergenic
AATTGTCTTCTAACCTTCAA+AGG 0.400965 5:+42426880 MsaT027326.1:CDS
TCATTGATTGATTTGAAGCT+AGG 0.417700 5:+42423110 MsaT027326.1:CDS
ATAGTAGATTGTCAAGGTGT+GGG 0.426117 5:+42423137 MsaT027326.1:CDS
CTGATGGATTTCCTGCTGCT+TGG 0.431062 5:-42426680 None:intergenic
GCTAGAAGTGCGGGATCTCT+TGG 0.433355 5:-42423222 None:intergenic
TTCTTGAATTAGGTTCCATC+TGG 0.434276 5:+42423936 MsaT027326.1:intron
TGTGGACTTGGGATTTCCTA+TGG 0.435441 5:+42422908 MsaT027326.1:CDS
TGGATTTAATTCAGATAAAG+AGG 0.438758 5:+42422866 MsaT027326.1:CDS
GCTAACACGGTTTGATGAAT+CGG 0.439550 5:-42423200 None:intergenic
TATCTTGCGTGCGGATGTCC+TGG 0.441930 5:-42426722 None:intergenic
TAGAAAACCCTTAGTTGAAT+GGG 0.448095 5:+42422812 MsaT027326.1:CDS
AGTTAAAAGTATGGAATTTG+TGG 0.448427 5:+42422890 MsaT027326.1:CDS
GCTGTTTCTCAAACGTGTAA+AGG 0.456116 5:+42426952 MsaT027326.1:CDS
CAACCATAAACTTGGCATAC+AGG 0.459443 5:-42423260 None:intergenic
TTTCCTGCTGCTTGGTGCAA+CGG 0.460688 5:-42426672 None:intergenic
TCAAAGTGGACATATCAAAC+TGG 0.462398 5:+42426548 MsaT027326.1:CDS
CCATGTTACAACCATAAACT+TGG 0.470816 5:-42423268 None:intergenic
GTAGAAAACCCTTAGTTGAA+TGG 0.471526 5:+42422811 MsaT027326.1:CDS
TTTGGTAAAGTGGGAAAATG+AGG 0.478195 5:+42426926 MsaT027326.1:CDS
AGTATGGAATTTGTGGACTT+GGG 0.478417 5:+42422897 MsaT027326.1:CDS
TCAAAGGTGTTTCAGAAACT+TGG 0.479177 5:-42426752 None:intergenic
ACAAATAGCTTCTCTCTTCA+GGG 0.479898 5:-42422746 None:intergenic
AAAAGCAATAACATGGATAG+AGG 0.481057 5:-42423012 None:intergenic
GACATCCGCACGCAAGATAG+AGG 0.481265 5:+42426726 MsaT027326.1:CDS
CGTCGAAAGATTACCACAAA+AGG 0.488426 5:+42423300 MsaT027326.1:CDS
ATTGTCTTCTAACCTTCAAA+GGG 0.489133 5:+42426881 MsaT027326.1:CDS
TCATGTAACTTTGAGCGAGA+TGG 0.496792 5:+42422846 MsaT027326.1:CDS
ACAGCTAAAGTTATCGTCAA+TGG 0.497564 5:+42423350 MsaT027326.1:CDS
AACTCATGTCCATGTGTAGC+GGG 0.498188 5:-42426606 None:intergenic
GAATCTTCTAGGACTGTTCG+TGG 0.500953 5:+42422930 MsaT027326.1:CDS
ACTTTGAAATATGTCTTGAA+AGG 0.507641 5:-42426490 None:intergenic
CATTGATTGATTTGAAGCTA+GGG 0.508340 5:+42423111 MsaT027326.1:CDS
AATCAAACTGAGGTTTCCTT+CGG 0.512482 5:-42424020 None:intergenic
AGCAGGTAAGCTAGAAGTGC+GGG 0.516979 5:-42423231 None:intergenic
ATGGTAAGCGCAGTTGTCGC+AGG 0.518129 5:+42423974 MsaT027326.1:CDS
AATCCGTTGCACCAAGCAGC+AGG 0.520793 5:+42426669 MsaT027326.1:CDS
TAGCGGGTGCTTCTAGTTGA+GGG 0.523814 5:-42426590 None:intergenic
GTAGCGGGTGCTTCTAGTTG+AGG 0.532279 5:-42426591 None:intergenic
AGTTGTCGCAGGCGTCTAGC+TGG 0.532617 5:+42423985 MsaT027326.1:CDS
AAGATTCTTCAATCGTATCA+TGG 0.536192 5:+42424063 MsaT027326.1:CDS
TAGTAGATTGTCAAGGTGTG+GGG 0.537134 5:+42423138 MsaT027326.1:CDS
AGATTTAATAATTTCCTTGG+AGG 0.539297 5:-42426829 None:intergenic
TTAACAGAGCTTGTCATCAA+AGG 0.539575 5:-42426768 None:intergenic
TGGACATATCAAACTGGAAG+AGG 0.540218 5:+42426554 MsaT027326.1:CDS
CCAAGTTTATGGTTGTAACA+TGG 0.549560 5:+42423268 MsaT027326.1:CDS
TCCTTGGAGGTTATCCCACA+TGG 0.550160 5:-42426816 None:intergenic
TCAGACATCTAGCTGTGAGC+GGG 0.561846 5:+42422959 MsaT027326.1:CDS
AATAGTAGATTGTCAAGGTG+TGG 0.566271 5:+42423136 MsaT027326.1:CDS
TTTCAAGACATATTTCAAAG+TGG 0.566498 5:+42426492 MsaT027326.1:CDS
AAAGTACTGGAAGTAGCTGA+TGG 0.566569 5:-42426696 None:intergenic
CTAGAAGCACCCGCTACACA+TGG 0.575740 5:+42426597 MsaT027326.1:CDS
TGGCATACAGGAGCCAAAGC+AGG 0.579602 5:-42423248 None:intergenic
CATGATCAAATCTCTCAAAG+TGG 0.581788 5:+42426534 MsaT027326.1:CDS
CTGACAGAAGAGAGAGAGCA+TGG 0.588418 5:-42426635 None:intergenic
GTCTTCTAACCTTCAAAGGG+TGG 0.588488 5:+42426884 MsaT027326.1:CDS
CTGGACATAATGAGCGCCGA+AGG 0.595997 5:+42424004 MsaT027326.1:CDS
AGAACTTAAATGCTTTGACT+CGG 0.599300 5:-42423060 None:intergenic
CGTCGAACTCAGCTACCAGA+TGG 0.603015 5:-42423951 None:intergenic
GCGGGATCTCTTGGCTAACA+CGG 0.605397 5:-42423213 None:intergenic
TCCATGTGGGATAACCTCCA+AGG 0.613079 5:+42426815 MsaT027326.1:CDS
ATGAATCAAAAGCAATAACA+TGG 0.620760 5:-42423019 None:intergenic
CTAGTCATGTAATCAAACTG+AGG 0.623999 5:-42424030 None:intergenic
TAACTCATGTCCATGTGTAG+CGG 0.633171 5:-42426607 None:intergenic
TCGTCAATGGTGTTGAACAG+AGG 0.637850 5:+42423363 MsaT027326.1:CDS
ACAGTCCTAGAAGATTCCAT+AGG 0.645968 5:-42422924 None:intergenic
TTCAGACATCTAGCTGTGAG+CGG 0.646972 5:+42422958 MsaT027326.1:CDS
CTGGTAGCTGAGTTCGACGA+TGG 0.653984 5:+42423955 MsaT027326.1:CDS
GAAATTATTAAATCTGAACA+TGG 0.656589 5:+42426837 MsaT027326.1:CDS
GGGAGAATAGTAGATTGTCA+AGG 0.666785 5:+42423131 MsaT027326.1:CDS
AAGCAGGTAAGCTAGAAGTG+CGG 0.678203 5:-42423232 None:intergenic
GGTCGCCTCTATCTTGCGTG+CGG 0.683326 5:-42426731 None:intergenic
CAATTGAAACAGATCAACAG+TGG 0.725111 5:-42426862 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 42422726 42426971 42422726 ID=MsaG027326
Chr5 mRNA 42422726 42426971 42422726 ID=MsaT027326.1;Parent=MsaG027326
Chr5 exon 42422726 42423405 42422726 ID=MsaT027326.1.exon1;Parent=MsaT027326.1
Chr5 CDS 42422726 42423405 42422726 ID=cds.MsaT027326.1;Parent=MsaT027326.1
Chr5 exon 42423948 42424084 42423948 ID=MsaT027326.1.exon2;Parent=MsaT027326.1
Chr5 CDS 42423948 42424084 42423948 ID=cds.MsaT027326.1;Parent=MsaT027326.1
Chr5 exon 42426475 42426971 42426475 ID=MsaT027326.1.exon3;Parent=MsaT027326.1
Chr5 CDS 42426475 42426971 42426475 ID=cds.MsaT027326.1;Parent=MsaT027326.1
Gene Sequence

>MsaT027326.1

ATGGAATCTTGGAGTTATATCCCTGAAGAGAGAAGCTATTTGTTTTCTGATGAAATGGATTTTTCACTTGATGCTTTTATGAGAAGTAGAAAACCCTTAGTTGAATGGGAAAACAAATCTTCATGTAACTTTGAGCGAGATGGATTTAATTCAGATAAAGAGGTAGTTAAAAGTATGGAATTTGTGGACTTGGGATTTCCTATGGAATCTTCTAGGACTGTTCGTGGTTCGGTTCAGACATCTAGCTGTGAGCGGGATAGTAATAATTCTAGTAAAAGAGAGAATTCCTCTATCCATGTTATTGCTTTTGATTCATCTTTTGCGGAAGAAGATTCCGAGTCAAAGCATTTAAGTTCTCTAGTTGAGTCGAAAAATCATGATTCTTCATTGATTGATTTGAAGCTAGGGAGAATAGTAGATTGTCAAGGTGTGGGGAGTGATAGAGATGCAAAAACATTCTCTTCTGAATCTATGCCGATTCATCAAACCGTGTTAGCCAAGAGATCCCGCACTTCTAGCTTACCTGCTTTGGCTCCTGTATGCCAAGTTTATGGTTGTAACATGGATCTTAGTTCGTCGAAAGATTACCACAAAAGGCATAAAGTCTGCGATGTTCACTCCAAAACAGCTAAAGTTATCGTCAATGGTGTTGAACAGAGGTTTTGTCAGCAGTGCAGCAGGTTCCATCTGGTAGCTGAGTTCGACGATGGTAAGCGCAGTTGTCGCAGGCGTCTAGCTGGACATAATGAGCGCCGAAGGAAACCTCAGTTTGATTACATGACTAGTAAACAACACAAGATTCTTCAATCGTATCATGGTACTAACAACTTTTCCTTTCAAGACATATTTCAAAGTGGAATCCTTTTCCCAGAAAAGCATGATCAAATCTCTCAAAGTGGACATATCAAACTGGAAGAGGACCCAATTTGCAGCCCTCAACTAGAAGCACCCGCTACACATGGACATGAGTTATCTAGCCATGCTCTCTCTCTTCTGTCAGCTCAGTCACAGAATCCGTTGCACCAAGCAGCAGGAAATCCATCAGCTACTTCCAGTACTTTTTTCCAGGACATCCGCACGCAAGATAGAGGCGACCAAGTTTCTGAAACACCTTTGATGACAAGCTCTGTTAATAAACATGAACGAAACGAGTCTTTTCCATGTGGGATAACCTCCAAGGAAATTATTAAATCTGAACATGGTGCCACTGTTGATCTGTTTCAATTGTCTTCTAACCTTCAAAGGGTGGAGAAGCAAAGAAATTCTGTTTTGGTAAAGTGGGAAAATGAGGATTGCTGTTTCTCAAACGTGTAA
Protein sequence

>MsaT027326.1

MESWSYIPEERSYLFSDEMDFSLDAFMRSRKPLVEWENKSSCNFERDGFNSDKEVVKSMEFVDLGFPMESSRTVRGSVQTSSCERDSNNSSKRENSSIHVIAFDSSFAEEDSESKHLSSLVESKNHDSSLIDLKLGRIVDCQGVGSDRDAKTFSSESMPIHQTVLAKRSRTSSLPALAPVCQVYGCNMDLSSSKDYHKRHKVCDVHSKTAKVIVNGVEQRFCQQCSRFHLVAEFDDGKRSCRRRLAGHNERRRKPQFDYMTSKQHKILQSYHGTNNFSFQDIFQSGILFPEKHDQISQSGHIKLEEDPICSPQLEAPATHGHELSSHALSLLSAQSQNPLHQAAGNPSATSSTFFQDIRTQDRGDQVSETPLMTSSVNKHERNESFPCGITSKEIIKSEHGATVDLFQLSSNLQRVEKQRNSVLVKWENEDCCFSNV*