AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG040171

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040171 MtrunA17_Chr7g0266821 91.176 306 19 5 1 302 1 302 1.83e-179 497
MsaG040171 MtrunA17_Chr1g0178071 62.937 286 65 12 42 302 59 328 6.10e-103 304
MsaG040171 MtrunA17_Chr8g0345771 65.414 133 43 2 35 164 148 280 6.13e-52 178
MsaG040171 MtrunA17_Chr7g0276471 73.585 106 25 2 58 160 117 222 8.06e-48 166
MsaG040171 MtrunA17_Chr5g0422501 60.484 124 40 1 50 164 227 350 6.46e-45 157
MsaG040171 MtrunA17_Chr1g0198661 57.143 126 40 1 49 160 182 307 2.85e-41 147
MsaG040171 MtrunA17_Chr1g0213701 45.802 131 53 4 56 182 159 275 8.59e-29 112
MsaG040171 MtrunA17_Chr4g0012861 40.541 111 59 5 58 165 314 420 1.65e-15 77.0
MsaG040171 MtrunA17_Chr5g0432721 41.121 107 53 5 58 160 321 421 3.19e-15 76.3
MsaG040171 MtrunA17_Chr2g0281191 37.190 121 69 5 42 159 336 452 4.39e-15 75.9
MsaG040171 MtrunA17_Chr7g0244871 44.318 88 45 3 58 143 12 97 1.26e-14 68.6
MsaG040171 MtrunA17_Chr3g0107701 36.170 141 78 6 58 190 338 474 4.22e-14 72.8
MsaG040171 MtrunA17_Chr8g0389081 34.848 132 77 4 30 159 112 236 6.16e-14 72.4
MsaG040171 MtrunA17_Chr1g0199681 40.000 95 55 2 53 145 187 281 1.12e-12 68.6
MsaG040171 MtrunA17_Chr2g0282961 33.803 142 82 3 16 155 125 256 1.53e-12 67.8
MsaG040171 MtrunA17_Chr3g0115271 33.083 133 78 5 50 178 108 233 3.05e-12 67.0
MsaG040171 MtrunA17_Chr2g0326761 36.842 114 68 3 48 159 97 208 3.52e-12 67.0
MsaG040171 MtrunA17_Chr4g0070181 34.884 129 75 4 33 159 105 226 8.99e-12 65.9
MsaG040171 MtrunA17_Chr2g0301251 34.884 129 75 4 33 159 105 226 1.81e-11 64.7
MsaG040171 MtrunA17_Chr4g0046371 36.937 111 68 2 47 155 136 246 5.10e-11 63.2
MsaG040171 MtrunA17_Chr5g0417281 34.615 104 66 2 44 145 98 201 8.53e-11 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040171 AT5G06250.5 45.675 289 108 9 1 267 1 262 5.67e-69 215
MsaG040171 AT5G06250.4 46.154 286 105 9 1 264 1 259 3.35e-68 214
MsaG040171 AT5G06250.2 46.154 286 105 9 1 264 1 259 3.55e-68 214
MsaG040171 AT5G06250.3 44.983 289 89 8 1 264 1 244 1.95e-64 204
MsaG040171 AT5G06250.1 44.983 289 89 8 1 264 1 244 2.04e-64 204
MsaG040171 AT3G11580.1 51.923 208 80 4 54 247 24 225 3.25e-62 198
MsaG040171 AT2G36080.3 57.711 201 46 6 53 249 32 197 7.49e-62 196
MsaG040171 AT2G36080.1 57.711 201 46 6 53 249 32 197 7.61e-62 196
MsaG040171 AT3G11580.3 51.923 208 80 4 54 247 24 225 1.52e-61 200
MsaG040171 AT2G36080.4 80.357 112 18 1 53 160 32 143 2.41e-57 182
MsaG040171 AT2G36080.2 80.357 112 18 1 53 160 32 143 2.41e-57 182
MsaG040171 AT3G11580.4 73.109 119 20 1 54 160 24 142 4.56e-57 184
MsaG040171 AT3G11580.2 73.109 119 20 1 54 160 24 142 4.56e-57 184
MsaG040171 AT3G11580.5 73.109 119 20 1 54 160 24 142 4.56e-57 184
MsaG040171 AT3G61970.1 71.795 117 29 1 48 160 12 128 9.59e-54 177
MsaG040171 AT2G46870.1 66.929 127 37 3 39 160 14 140 6.93e-50 168
MsaG040171 AT1G13260.1 68.468 111 33 1 56 164 185 295 1.05e-47 163
MsaG040171 AT1G01030.2 46.018 226 91 7 54 249 51 275 1.67e-47 162
MsaG040171 AT1G01030.1 69.369 111 30 2 54 160 51 161 2.54e-46 160
MsaG040171 AT1G68840.2 60.630 127 47 1 55 178 184 310 5.79e-46 159
MsaG040171 AT1G68840.1 60.630 127 47 1 55 178 184 310 5.79e-46 159
MsaG040171 AT3G25730.1 63.063 111 37 1 56 162 180 290 1.36e-44 154
MsaG040171 AT4G01500.1 39.918 243 95 5 51 243 28 269 3.65e-42 148
MsaG040171 AT1G25560.1 57.812 128 41 2 55 173 191 314 4.80e-42 149
MsaG040171 AT1G51120.1 47.368 95 41 1 58 143 177 271 2.44e-24 101
MsaG040171 AT1G50680.1 45.918 98 41 1 58 143 156 253 1.93e-23 98.6
MsaG040171 AT4G32010.1 40.179 112 60 5 58 166 285 392 4.19e-15 76.3
MsaG040171 AT4G32010.2 40.179 112 60 5 58 166 281 388 4.26e-15 76.3
MsaG040171 AT2G30470.1 40.952 105 56 4 58 160 294 394 1.06e-14 75.1
MsaG040171 AT1G77850.2 35.455 110 67 2 52 159 112 219 6.56e-13 69.3
MsaG040171 AT1G77850.1 35.455 110 67 2 52 159 112 219 6.62e-13 69.3
MsaG040171 AT1G35240.1 37.931 116 69 3 59 172 126 240 2.38e-12 67.8
MsaG040171 AT2G28350.1 32.624 141 92 3 27 165 84 223 6.37e-12 66.6
MsaG040171 AT2G28350.2 32.624 141 92 3 27 165 84 223 6.51e-12 66.6
MsaG040171 AT1G35520.1 37.069 116 70 3 59 172 126 240 1.58e-11 65.1
MsaG040171 AT1G34310.1 36.207 116 71 3 59 172 126 240 2.01e-11 65.1
MsaG040171 AT1G34410.1 33.884 121 67 4 59 172 126 240 1.00e-10 62.8

Find 78 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTACGTCGCTTGGTGTTAA+TGG 0.127068 7:+97401088 None:intergenic
TTGATTGAATCTAGCTAATA+TGG 0.221602 7:+97399543 None:intergenic
AGCAATCTGGTGACAAAGTT+TGG 0.259112 7:+97399670 None:intergenic
GAAATAGTTCGAGTACTTTC+AGG 0.260940 7:-97399767 MsaT040171.1:CDS
TATCTCTCAGCATGTTGTTT+TGG 0.292618 7:+97401043 None:intergenic
TTCAGGGTGCTGAGGCTGTT+TGG 0.322617 7:-97399750 MsaT040171.1:CDS
GGAGGTTCCGGTATTCATAT+TGG 0.328744 7:-97400952 MsaT040171.1:CDS
TTAATATTAATATTATTATC+AGG 0.333871 7:+97399708 None:intergenic
CAGGTAAGTGTTGGAGGTTC+CGG 0.351251 7:-97400964 MsaT040171.1:CDS
TGTGGTTGTGTTCTGACTTT+GGG 0.369690 7:+97399797 None:intergenic
CAAAGCTATGTTCTTACAAA+AGG 0.401403 7:-97400920 MsaT040171.1:CDS
GAGGTTGACGGTGGAGGTGG+TGG 0.410580 7:+97399601 None:intergenic
TTCAACTTCCCTACGTCGCT+TGG 0.425371 7:+97401079 None:intergenic
TTGAAGGAGGTTGACGGTGG+AGG 0.432392 7:+97399595 None:intergenic
GCAATCTGGTGACAAAGTTT+GGG 0.439412 7:+97399671 None:intergenic
AAGGAGGTTGACGGTGGAGG+TGG 0.440000 7:+97399598 None:intergenic
TGGAGGTGGTGGTAGAATTG+TGG 0.441638 7:+97399612 None:intergenic
TACAAGAAACAACATCACTA+TGG 0.450273 7:-97401252 MsaT040171.1:CDS
GGATGATGATGAGTAGGATA+AGG 0.453506 7:+97400674 None:intergenic
GTGTGGTTGTGTTCTGACTT+TGG 0.459825 7:+97399796 None:intergenic
AGGATGAGTCAGGTAAGTGT+TGG 0.475422 7:-97400973 MsaT040171.1:CDS
GCTATGTTCTTACAAAAGGT+TGG 0.477263 7:-97400916 MsaT040171.1:CDS
GAGGATTTGAAGGAGGTTGA+CGG 0.478467 7:+97399589 None:intergenic
GGAGGTGGTGGTAGAATTGT+GGG 0.483601 7:+97399613 None:intergenic
TATTAATATTATTATCAGGT+TGG 0.493103 7:+97399712 None:intergenic
TACTGTTCCAATATGAATAC+CGG 0.505382 7:+97400945 None:intergenic
CCATCTGTAGTGATGGCAAT+GGG 0.515422 7:-97400751 MsaT040171.1:CDS
GACATATTATAAGAGCAATC+TGG 0.517703 7:+97399657 None:intergenic
ATGCGCAGGATAGAGTTCTC+TGG 0.519337 7:+97400697 None:intergenic
ATCTCGTGGAGGCGCCGCCA+TGG 0.519364 7:-97400809 MsaT040171.1:CDS
CCCATTGCCATCACTACAGA+TGG 0.522140 7:+97400751 None:intergenic
TGTAGTGATGGCAATGGGAA+TGG 0.522719 7:-97400746 MsaT040171.1:CDS
TTGATTTCTTCTGAGTCTAG+TGG 0.523246 7:+97401016 None:intergenic
ATGAGTCAGGTAAGTGTTGG+AGG 0.531766 7:-97400970 MsaT040171.1:CDS
TGATTTCTTCTGAGTCTAGT+GGG 0.531823 7:+97401017 None:intergenic
AAATAGTTCGAGTACTTTCA+GGG 0.533392 7:-97399766 MsaT040171.1:CDS
ATGTGATGGTGAGGATTTGA+AGG 0.538757 7:+97399579 None:intergenic
TGGGAATAGCACTGTTCCTG+TGG 0.547485 7:-97400726 MsaT040171.1:CDS
CCATTAACACCAAGCGACGT+AGG 0.548021 7:-97401088 MsaT040171.1:CDS
CATCCCTTGTCATACCATGC+AGG 0.555918 7:-97400656 MsaT040171.1:intron
AGCAGATCCATCTGTAGTGA+TGG 0.561002 7:-97400758 MsaT040171.1:CDS
CGAGTACTTTCAGGGTGCTG+AGG 0.563729 7:-97399758 MsaT040171.1:CDS
CATTAACACCAAGCGACGTA+GGG 0.563833 7:-97401087 MsaT040171.1:CDS
ATAGCACTGTTCCTGTGGGG+TGG 0.568873 7:-97400721 MsaT040171.1:CDS
AGTTCTCTGGACCACCCCAC+AGG 0.570942 7:+97400710 None:intergenic
AAAGATAAACGTCTTGATGC+TGG 0.575473 7:-97400881 MsaT040171.1:CDS
ATGTTGTTTCTTGTATTGTG+TGG 0.576167 7:+97401260 None:intergenic
GTAGTGATGGCAATGGGAAT+GGG 0.579455 7:-97400745 MsaT040171.1:CDS
GATTTGAAGGAGGTTGACGG+TGG 0.580120 7:+97399592 None:intergenic
TGAGTAGGATAAGGATGCGC+AGG 0.580460 7:+97400683 None:intergenic
ATGGATCTGCTAACATGAGC+CGG 0.583256 7:+97400770 None:intergenic
TGGTAGTAACTCTACTCCAC+CGG 0.584083 7:-97400789 MsaT040171.1:CDS
GACAAGGGATGATGATGAGT+AGG 0.585445 7:+97400668 None:intergenic
CTCAACGGTTGTTTATCTCG+TGG 0.587033 7:-97400823 MsaT040171.1:CDS
GAGGCTGTTTGGAGTGAACA+TGG 0.594809 7:-97399739 MsaT040171.1:CDS
TCCATCTGTAGTGATGGCAA+TGG 0.596273 7:-97400752 MsaT040171.1:CDS
GGGAATAGCACTGTTCCTGT+GGG 0.597826 7:-97400725 MsaT040171.1:CDS
CGAACTATTTCCACAAGGTG+TGG 0.598711 7:+97399779 None:intergenic
AGCTGAACTAGAAGATGATG+TGG 0.605647 7:-97401185 MsaT040171.1:CDS
AAGAAACAACATCACTATGG+TGG 0.609594 7:-97401249 MsaT040171.1:CDS
CTAGACTCAGAAGAAATCAA+AGG 0.611927 7:-97401013 MsaT040171.1:CDS
AACGGTTGTTTATCTCGTGG+AGG 0.625722 7:-97400820 MsaT040171.1:CDS
CAGAACACAACCACACCTTG+TGG 0.630986 7:-97399789 MsaT040171.1:CDS
GTTGTTGACGTAGCATGTGA+TGG 0.636988 7:+97399565 None:intergenic
AAAACCTGCATGGTATGACA+AGG 0.637700 7:+97400652 None:intergenic
TGATGGTGAGGATTTGAAGG+AGG 0.642677 7:+97399582 None:intergenic
GTTGTAATGTGACAGGTGAA+GGG 0.678694 7:-97399821 MsaT040171.1:intron
TGACGTAGCATGTGATGGTG+AGG 0.679050 7:+97399570 None:intergenic
AAACCTGCATGGTATGACAA+GGG 0.685749 7:+97400653 None:intergenic
CACGAGATAAACAACCGTTG+AGG 0.688403 7:+97400824 None:intergenic
GACACCGTGTACATCCTCAA+CGG 0.690188 7:-97400838 MsaT040171.1:CDS
TATAATATGTCATCAACACA+AGG 0.697764 7:-97399645 MsaT040171.1:CDS
ACAACCGTTGAGGATGTACA+CGG 0.701448 7:+97400834 None:intergenic
GATCTGCTAACATGAGCCGG+TGG 0.708271 7:+97400773 None:intergenic
GGAATAGCACTGTTCCTGTG+GGG 0.714296 7:-97400724 MsaT040171.1:CDS
GTACTCGAACTATTTCCACA+AGG 0.725974 7:+97399774 None:intergenic
GTGGAGTAGAGTTACTACCA+TGG 0.729540 7:+97400792 None:intergenic
GAGTAGAGTTACTACCATGG+CGG 0.790463 7:+97400795 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 97399557 97401293 97399557 ID=MsaG040171
Chr7 mRNA 97399557 97401293 97399557 ID=MsaT040171.1;Parent=MsaG040171
Chr7 exon 97399557 97399828 97399557 ID=MsaT040171.1.exon2;Parent=MsaT040171.1
Chr7 CDS 97399557 97399828 97399557 ID=cds.MsaT040171.1;Parent=MsaT040171.1
Chr7 exon 97400657 97401293 97400657 ID=MsaT040171.1.exon1;Parent=MsaT040171.1
Chr7 CDS 97400657 97401293 97400657 ID=cds.MsaT040171.1;Parent=MsaT040171.1
Gene Sequence

>MsaT040171.1

ATGTCAATAAACCACACAATACAAGAAACAACATCACTATGGTGGAATCAACAACAACAACAAAGAACTCAACAAGATGCAGAAGAAGCTGAACTAGAAGATGATGTGGTTTTAGAATCAATAATGAAACTAAAAACAACAGAAGCATCATCAGAAGAAGAGAAAGAAGCTATGTTCGAGAAACCATTAACACCAAGCGACGTAGGGAAGTTGAACCGACTCGTTATTCCAAAACAACATGCTGAGAGATATTTCCCACTAGACTCAGAAGAAATCAAAGGTTTGTTACTAAGTTTTGAGGATGAGTCAGGTAAGTGTTGGAGGTTCCGGTATTCATATTGGAACAGTAGTCAAAGCTATGTTCTTACAAAAGGTTGGAGTCGTTATGTTAAAGATAAACGTCTTGATGCTGGTGATGTTGTTTTGTTTCAAAGACACCGTGTACATCCTCAACGGTTGTTTATCTCGTGGAGGCGCCGCCATGGTAGTAACTCTACTCCACCGGCTCATGTTAGCAGATCCATCTGTAGTGATGGCAATGGGAATGGGAATAGCACTGTTCCTGTGGGGTGGTCCAGAGAACTCTATCCTGCGCATCCTTATCCTACTCATCATCATCCCTTGTCATACCATGCAGGTGAAGGGTCCCAAAGTCAGAACACAACCACACCTTGTGGAAATAGTTCGAGTACTTTCAGGGTGCTGAGGCTGTTTGGAGTGAACATGGAATGCCAACCTGATAATAATATTAATATTAACAATATTAATGATTCCCAAACTTTGTCACCAGATTGCTCTTATAATATGTCATCAACACAAGGCACAGCTATCCCACAATTCTACCACCACCTCCACCGTCAACCTCCTTCAAATCCTCACCATCACATGCTACGTCAACAACCATATTAG
Protein sequence

>MsaT040171.1

MSINHTIQETTSLWWNQQQQQRTQQDAEEAELEDDVVLESIMKLKTTEASSEEEKEAMFEKPLTPSDVGKLNRLVIPKQHAERYFPLDSEEIKGLLLSFEDESGKCWRFRYSYWNSSQSYVLTKGWSRYVKDKRLDAGDVVLFQRHRVHPQRLFISWRRRHGSNSTPPAHVSRSICSDGNGNGNSTVPVGWSRELYPAHPYPTHHHPLSYHAGEGSQSQNTTTPCGNSSSTFRVLRLFGVNMECQPDNNININNINDSQTLSPDCSYNMSSTQGTAIPQFYHHLHRQPPSNPHHHMLRQQPY*