AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG023605

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG023605 MtrunA17_Chr8g0379701 91.584 404 18 2 1 391 1 401 0.0 752
MsaG023605 MtrunA17_Chr2g0284481 39.302 430 155 9 1 373 2 382 6.91e-86 266
MsaG023605 MtrunA17_Chr6g0467041 36.963 349 178 8 6 348 16 328 2.17e-64 208
MsaG023605 MtrunA17_Chr5g0410881 51.087 184 83 1 11 187 31 214 1.31e-60 203
MsaG023605 MtrunA17_Chr8g0378061 52.239 201 84 4 13 207 23 217 1.58e-60 203
MsaG023605 MtrunA17_Chr2g0330821 49.744 195 86 2 1 187 60 250 4.55e-54 182
MsaG023605 MtrunA17_Chr1g0204741 38.346 266 150 3 11 263 39 303 1.37e-52 178
MsaG023605 MtrunA17_Chr4g0039891 44.865 185 94 2 10 187 10 193 9.99e-52 180
MsaG023605 MtrunA17_Chr4g0071051 47.486 179 87 1 11 189 100 271 3.54e-51 177
MsaG023605 MtrunA17_Chr7g0260331 39.130 230 126 3 11 226 48 277 1.28e-48 168
MsaG023605 MtrunA17_Chr3g0135831 41.089 202 115 1 11 208 45 246 2.71e-46 162
MsaG023605 MtrunA17_Chr8g0392001 46.875 192 91 3 12 194 22 211 6.60e-46 161
MsaG023605 MtrunA17_Chr1g0185131 42.541 181 87 3 12 189 32 198 1.69e-43 154
MsaG023605 MtrunA17_Chr6g0485571 38.424 203 117 2 10 208 9 207 2.81e-41 148
MsaG023605 MtrunA17_Chr5g0397881 64.356 101 35 1 4 103 15 115 7.67e-41 147
MsaG023605 MtrunA17_Chr3g0134031 64.646 99 34 1 6 103 17 115 2.34e-39 144
MsaG023605 MtrunA17_Chr5g0402291 36.449 214 99 2 8 184 5 218 5.19e-39 141
MsaG023605 MtrunA17_Chr5g0441531 66.667 99 32 1 6 103 18 116 6.47e-39 140
MsaG023605 MtrunA17_Chr8g0375041 41.139 158 93 0 12 169 9 166 2.05e-36 133
MsaG023605 MtrunA17_Chr1g0203601 40.854 164 70 2 8 144 14 177 3.55e-36 134
MsaG023605 MtrunA17_Chr6g0472421 59.596 99 39 1 6 103 26 124 6.77e-36 134
MsaG023605 MtrunA17_Chr7g0257331 49.123 114 58 0 3 116 13 126 2.00e-34 127
MsaG023605 MtrunA17_Chr4g0047421 37.714 175 91 5 12 176 33 199 4.88e-30 115
MsaG023605 MtrunA17_Chr1g0179321 65.217 69 24 0 3 71 40 108 1.82e-26 102
MsaG023605 MtrunA17_Chr2g0301521 44.286 140 74 2 96 232 1 139 2.51e-25 101
MsaG023605 MtrunA17_Chr2g0330841 39.716 141 76 2 72 207 41 177 9.66e-23 99.0
MsaG023605 MtrunA17_Chr4g0023771 63.492 63 22 1 10 71 13 75 2.83e-22 90.9
MsaG023605 MtrunA17_Chr1g0179311 27.869 122 86 1 72 193 14 133 9.71e-11 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG023605 AT4G18880.1 49.758 414 170 12 1 390 1 400 3.42e-108 323
MsaG023605 AT5G45710.3 48.831 385 151 7 1 381 1 343 1.65e-106 317
MsaG023605 AT5G45710.1 48.831 385 151 7 1 381 1 343 1.65e-106 317
MsaG023605 AT4G13980.1 48.500 200 94 2 13 207 24 219 3.91e-59 199
MsaG023605 AT1G32330.2 41.949 236 118 2 6 222 31 266 2.03e-58 197
MsaG023605 AT1G32330.1 41.949 236 118 2 6 222 31 266 2.17e-58 197
MsaG023605 AT5G16820.1 43.192 213 108 2 8 207 23 235 2.19e-54 187
MsaG023605 AT5G16820.2 43.192 213 108 2 8 207 23 235 2.19e-54 187
MsaG023605 AT4G17750.1 45.026 191 91 1 11 187 51 241 9.65e-54 186
MsaG023605 AT3G22830.1 41.256 223 117 2 8 216 57 279 4.21e-53 182
MsaG023605 AT3G02990.1 46.739 184 94 1 8 187 19 202 4.91e-53 183
MsaG023605 AT5G45710.4 39.792 289 129 7 96 381 1 247 6.66e-52 174
MsaG023605 AT5G45710.2 39.792 289 129 7 96 381 1 247 6.66e-52 174
MsaG023605 AT2G26150.1 41.748 206 112 1 11 208 43 248 1.11e-50 174
MsaG023605 AT2G26150.4 41.748 206 112 1 11 208 43 248 1.11e-50 174
MsaG023605 AT5G03720.2 45.198 177 93 2 10 185 53 226 1.07e-48 170
MsaG023605 AT5G03720.1 45.198 177 93 2 10 185 53 226 1.07e-48 170
MsaG023605 AT5G43840.1 40.517 232 111 4 11 236 16 226 7.91e-47 162
MsaG023605 AT1G67970.1 43.386 189 100 3 10 194 17 202 1.68e-45 160
MsaG023605 AT3G51910.1 45.652 184 85 3 11 194 28 196 5.28e-44 154
MsaG023605 AT5G54070.1 42.012 169 89 1 10 178 69 228 5.80e-41 147
MsaG023605 AT3G24520.1 39.247 186 86 4 10 195 15 173 2.54e-40 146
MsaG023605 AT1G46264.1 63.000 100 36 1 5 103 26 125 2.11e-39 144
MsaG023605 AT3G63350.1 38.725 204 111 3 1 204 21 210 3.48e-39 141
MsaG023605 AT5G62020.1 51.181 127 57 2 3 128 13 135 2.79e-38 139
MsaG023605 AT4G36990.1 63.265 98 35 1 9 105 10 107 1.01e-37 138
MsaG023605 AT4G11660.1 59.596 99 39 1 6 103 52 150 1.96e-36 137
MsaG023605 AT2G41690.1 58.491 106 43 1 11 115 39 144 2.22e-36 133
MsaG023605 AT4G18870.1 54.639 97 39 2 5 99 6 99 6.40e-27 108
MsaG023605 AT4G18870.1 52.174 92 44 0 8 99 142 233 2.60e-26 107
MsaG023605 AT1G77570.1 43.333 90 48 2 13 99 27 116 1.45e-17 79.3
MsaG023605 AT2G26150.3 31.034 145 92 1 72 208 49 193 5.46e-17 81.3
MsaG023605 AT2G26150.2 31.034 145 92 1 72 208 49 193 5.46e-17 81.3
MsaG023605 AT4G19630.1 38.947 95 55 1 8 99 7 101 4.07e-16 74.7

Find 84 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGAGGCATCCGTGGCATTT+TGG 0.204494 4:-90471941 MsaT023605.1:CDS
TCAACGTTCATGTCAATTTC+AGG 0.245219 4:+90471784 None:intergenic
ATATGTATGTGCAGGGATTT+AGG 0.272285 4:-90472490 MsaT023605.1:intron
AGCAAAACCCTTGCGAATTC+CGG 0.278319 4:+90472676 None:intergenic
CTGGGGTTAATGATGTATTC+TGG 0.294292 4:-90471693 MsaT023605.1:CDS
CTAACATGCCCCATCTGTTC+TGG 0.312124 4:+90471526 None:intergenic
CGAAGAGATACCAGCATGAT+TGG 0.339945 4:-90472256 MsaT023605.1:CDS
CTAGTGATCATGGTAGATTT+TGG 0.344391 4:-90471576 MsaT023605.1:CDS
CACTCATTCAAACATGGATT+TGG 0.347539 4:-90471881 MsaT023605.1:CDS
AGAATCACCACTGCAGCAAC+TGG 0.356379 4:-90471712 MsaT023605.1:CDS
AAGAGATTTACAGCAATCAT+AGG 0.368528 4:+90472131 None:intergenic
GACGTTAAACACCGAGAGAT+TGG 0.369357 4:-90471970 MsaT023605.1:CDS
TGCCTTTCAGACTCCGTTAG+AGG 0.391700 4:+90472338 None:intergenic
ATTCAGCTGCCTGATAAAAC+TGG 0.407135 4:+90472624 None:intergenic
CTCTCCATGGCTTCTGCCAG+TGG 0.418903 4:+90472107 None:intergenic
TCATAAGTCTTTGCCAGAAA+AGG 0.419332 4:+90472775 None:intergenic
GCCTCAAGAGCAGCAGCAGC+TGG 0.427478 4:+90471760 None:intergenic
TCTGGCAAAGACTTATGAAA+TGG 0.438206 4:-90472770 MsaT023605.1:CDS
TTAAAGCAACCACTTCTACT+TGG 0.438959 4:+90472071 None:intergenic
TGAAATAGAGAAGCTGAAAC+AGG 0.448407 4:-90472303 MsaT023605.1:CDS
GATGCACTCCACGAAACAAT+AGG 0.454683 4:+90472727 None:intergenic
TGGGGTTAATGATGTATTCT+GGG 0.456218 4:-90471692 MsaT023605.1:CDS
ACCAGCTGCTGCTGCTCTTG+AGG 0.466489 4:-90471761 MsaT023605.1:CDS
GCCTTTCAGACTCCGTTAGA+GGG 0.473627 4:+90472339 None:intergenic
ATGTCAATTTCAGGTGACTT+AGG 0.477806 4:+90471793 None:intergenic
TGCAGAGAATGACTATGAAC+GGG 0.482637 4:+90472380 None:intergenic
TCCTGGTGCATCGGAAGCAC+AGG 0.486616 4:-90471650 MsaT023605.1:CDS
GAGACTCTTGCACATGAAGT+TGG 0.497289 4:-90471918 MsaT023605.1:CDS
GAAGGAAAACCTAGTGATCA+TGG 0.502730 4:-90471586 MsaT023605.1:CDS
TTGGCAAATTCCCACTGCTC+CGG 0.502904 4:+90472458 None:intergenic
GGGATTTAGGAAAGTTGATC+CGG 0.507404 4:-90472477 MsaT023605.1:CDS
CTTGCCACTGGCAGAAGCCA+TGG 0.509175 4:-90472111 MsaT023605.1:CDS
TTTCGTTGTGTGGAATCCTC+CGG 0.511600 4:-90472695 MsaT023605.1:CDS
TCCTGTGCTTCCGATGCACC+AGG 0.511617 4:+90471649 None:intergenic
GAAGAGATACCAGCATGATT+GGG 0.512133 4:-90472255 MsaT023605.1:CDS
TGCTGTAAATCTCTTGCCAC+TGG 0.515181 4:-90472123 MsaT023605.1:CDS
GGAAAGTTGATCCGGAGCAG+TGG 0.515618 4:-90472469 MsaT023605.1:CDS
CAGTTCTTGACAGAGGATCC+TGG 0.516203 4:-90471667 MsaT023605.1:CDS
AGACTTCTGTAGCTTTGCCC+AGG 0.516910 4:-90472019 MsaT023605.1:CDS
AAACAATCATCCAGAACAGA+TGG 0.518388 4:-90471536 MsaT023605.1:CDS
CCTCGGATCCTATTGTTTCG+TGG 0.527360 4:-90472735 MsaT023605.1:CDS
TTATTGTGCTTAAAGAATCT+CGG 0.532647 4:+90472652 None:intergenic
CGAACAAAAGTTTCGTTGTG+TGG 0.533195 4:-90472705 MsaT023605.1:CDS
GCATTGTTCGAAAGATCAGT+TGG 0.538254 4:-90472213 MsaT023605.1:CDS
GTCAAAGTAGAGTTATCCTC+TGG 0.546841 4:+90471990 None:intergenic
AGCTAGTGTTGAAGATGCTA+TGG 0.547413 4:-90472042 MsaT023605.1:CDS
CTCAAGTTGATCCAATCTCT+CGG 0.553126 4:+90471959 None:intergenic
GACAGAGGATCCTGGTGCAT+CGG 0.553354 4:-90471659 MsaT023605.1:CDS
ATTAACCCCAGTTGCTGCAG+TGG 0.553513 4:+90471705 None:intergenic
CCCCTCTAACGGAGTCTGAA+AGG 0.554429 4:-90472340 MsaT023605.1:CDS
ATGCAGAGAATGACTATGAA+CGG 0.560960 4:+90472379 None:intergenic
CGAAGGTTGCCAAGTAGAAG+TGG 0.568818 4:-90472080 MsaT023605.1:CDS
GCTGCAGTGGTGATTCTCGC+AGG 0.569378 4:+90471718 None:intergenic
TAAGTCTTTGCCAGAAAAGG+AGG 0.570699 4:+90472778 None:intergenic
CAAAATCTACCATGATCACT+AGG 0.571873 4:+90471577 None:intergenic
AACAATCATCCAGAACAGAT+GGG 0.574845 4:-90471535 MsaT023605.1:CDS
GGAATCCTCCGGAATTCGCA+AGG 0.575730 4:-90472684 MsaT023605.1:CDS
GAAAGTTGATCCGGAGCAGT+GGG 0.578322 4:-90472468 MsaT023605.1:CDS
CATGCCTTTCCCAATCATGC+TGG 0.579073 4:+90472246 None:intergenic
GAATCACCACTGCAGCAACT+GGG 0.580374 4:-90471711 MsaT023605.1:CDS
CCTTTCAGACTCCGTTAGAG+GGG 0.598591 4:+90472340 None:intergenic
TGAATATTCTTCATCAGATG+CGG 0.602613 4:+90472413 None:intergenic
GACTTCTGTAGCTTTGCCCA+GGG 0.603526 4:-90472018 MsaT023605.1:CDS
GATACCAGCATGATTGGGAA+AGG 0.606022 4:-90472250 MsaT023605.1:CDS
AAAACCCTTGCGAATTCCGG+AGG 0.607238 4:+90472679 None:intergenic
TCGTCACACTCATTCAAACA+TGG 0.610622 4:-90471887 MsaT023605.1:CDS
TCAAGCACAAGCCCCTCTAA+CGG 0.613167 4:-90472351 MsaT023605.1:CDS
GGCAAAGACTTATGAAATGG+TGG 0.613237 4:-90472767 MsaT023605.1:CDS
GGATCAACTTGAGGCATCCG+TGG 0.615719 4:-90471949 MsaT023605.1:CDS
CGAGAGATTGGATCAACTTG+AGG 0.627773 4:-90471958 MsaT023605.1:CDS
AATGGTGGATGATCGATCCT+CGG 0.628991 4:-90472752 MsaT023605.1:CDS
GAATCCTCCGGAATTCGCAA+GGG 0.629052 4:-90472683 MsaT023605.1:CDS
TGATGAAGAATATTCATAGA+CGG 0.629516 4:-90472406 MsaT023605.1:CDS
CTGCAATGCTTCAGAAACAG+AGG 0.634333 4:+90472157 None:intergenic
ATATCTTGTCAGCAACTAGA+CGG 0.636770 4:-90471826 MsaT023605.1:intron
ACAATCATCCAGAACAGATG+GGG 0.647372 4:-90471534 MsaT023605.1:CDS
CTGGGAACAGTTCTTGACAG+AGG 0.655854 4:-90471674 MsaT023605.1:CDS
AAGAGTCTCCCAAAATGCCA+CGG 0.657362 4:+90471932 None:intergenic
AATCACCACTGCAGCAACTG+GGG 0.658502 4:-90471710 MsaT023605.1:CDS
GGATAGAGAACAACTCCTCG+TGG 0.661247 4:-90472282 MsaT023605.1:CDS
CCACGAAACAATAGGATCCG+AGG 0.666703 4:+90472735 None:intergenic
GGTATCTCTTCGTCTCCACG+AGG 0.715796 4:+90472267 None:intergenic
TTTGCCCAGGGAAAATCCAG+AGG 0.715905 4:-90472006 MsaT023605.1:CDS
AAGCCATGGAGAGAAAACGA+AGG 0.761326 4:-90472097 MsaT023605.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 90471507 90472830 90471507 ID=MsaG023605
Chr4 mRNA 90471507 90472830 90471507 ID=MsaT023605.1;Parent=MsaG023605
Chr4 exon 90471507 90471836 90471507 ID=MsaT023605.1.exon3;Parent=MsaT023605.1
Chr4 CDS 90471507 90471836 90471507 ID=cds.MsaT023605.1;Parent=MsaT023605.1
Chr4 exon 90471866 90472498 90471866 ID=MsaT023605.1.exon2;Parent=MsaT023605.1
Chr4 CDS 90471866 90472498 90471866 ID=cds.MsaT023605.1;Parent=MsaT023605.1
Chr4 exon 90472618 90472830 90472618 ID=MsaT023605.1.exon1;Parent=MsaT023605.1
Chr4 CDS 90472618 90472830 90472618 ID=cds.MsaT023605.1;Parent=MsaT023605.1
Gene Sequence

>MsaT023605.1

ATGGATGAAGCTGGAAGTTCAAGTTCTCTGCCTCCTTTTCTGGCAAAGACTTATGAAATGGTGGATGATCGATCCTCGGATCCTATTGTTTCGTGGAGTGCATCGAACAAAAGTTTCGTTGTGTGGAATCCTCCGGAATTCGCAAGGGTTTTGCTTCCGAGATTCTTTAAGCACAATAACTTCTCCAGTTTTATCAGGCAGCTGAATACATATGGATTTAGGAAAGTTGATCCGGAGCAGTGGGAATTTGCCAATGATGATTTTATAAGGGGGCAACCGCATCTGATGAAGAATATTCATAGACGGAAGCCCGTTCATAGTCATTCTCTGCATAATCTTCAAGCACAAGCCCCTCTAACGGAGTCTGAAAGGCAGAGTATGATTGATGAAATAGAGAAGCTGAAACAGGATAGAGAACAACTCCTCGTGGAGACGAAGAGATACCAGCATGATTGGGAAAGGCATGAGATTCAAATGCATTGTTCGAAAGATCAGTTGGAAAAATTGGAACATAAACAACAAAAGATGTTGTCCTCTGTTTCTGAAGCATTGCAGAAACCTATGATTGCTGTAAATCTCTTGCCACTGGCAGAAGCCATGGAGAGAAAACGAAGGTTGCCAAGTAGAAGTGGTTGCTTTAATAATGAAGCTAGTGTTGAAGATGCTATGGAGACTTCTGTAGCTTTGCCCAGGGAAAATCCAGAGGATAACTCTACTTTGACGTTAAACACCGAGAGATTGGATCAACTTGAGGCATCCGTGGCATTTTGGGAGACTCTTGCACATGAAGTTGGCGACAATTTCGTCACACTCATTCAAACATGGATTTGGATGAATCTACATGCTCAACTAGACGGTGAAGTTCGACCTAAGTCACCTGAAATTGACATGAACGTTGAACCAGCTGCTGCTGCTCTTGAGGCTGTTGCAGTAAAAGAACAACCTGCGAGAATCACCACTGCAGCAACTGGGGTTAATGATGTATTCTGGGAACAGTTCTTGACAGAGGATCCTGGTGCATCGGAAGCACAGGAAGTGCAATCAGAAAGAAAAGATAATAGTAGCAGAAAAAATGAAGGAAAACCTAGTGATCATGGTAGATTTTGGTGGAACATGCGGAAATCAAACAATCATCCAGAACAGATGGGGCATGTTAGTCAAGTAGAGAAAATTTAG
Protein sequence

>MsaT023605.1

MDEAGSSSSLPPFLAKTYEMVDDRSSDPIVSWSASNKSFVVWNPPEFARVLLPRFFKHNNFSSFIRQLNTYGFRKVDPEQWEFANDDFIRGQPHLMKNIHRRKPVHSHSLHNLQAQAPLTESERQSMIDEIEKLKQDREQLLVETKRYQHDWERHEIQMHCSKDQLEKLEHKQQKMLSSVSEALQKPMIAVNLLPLAEAMERKRRLPSRSGCFNNEASVEDAMETSVALPRENPEDNSTLTLNTERLDQLEASVAFWETLAHEVGDNFVTLIQTWIWMNLHAQLDGEVRPKSPEIDMNVEPAAAALEAVAVKEQPARITTAATGVNDVFWEQFLTEDPGASEAQEVQSERKDNSSRKNEGKPSDHGRFWWNMRKSNNHPEQMGHVSQVEKI*