Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0480018518.01.T01 | AFK45947.1 | 87.755 | 196 | 24 | 0 | 1 | 196 | 1 | 196 | 8.83E-117 | 340 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0480018518.01.T01 | Q9C891 | 61.702 | 188 | 68 | 2 | 9 | 196 | 4 | 187 | 1.81E-80 | 240 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0480018518.01.T01 | I3T0A5 | 87.755 | 196 | 24 | 0 | 1 | 196 | 1 | 196 | 4.22e-117 | 340 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
PPI
| Gene1 | Gene2 | Type |
|---|---|---|
| MsG0480018518.01 | MsG0080048537.01 | PPI |
| MsG0480018518.01 | MsG0480018512.01 | PPI |
| MsG0480018518.01 | MsG0080048537.01 | PPI |
| MsG0480018518.01 | MsG0080048537.01 | PPI |
| MsG0480018518.01 | MsG0480021436.01 | PPI |
| MsG0480018518.01 | MsG0480018519.01 | PPI |
| MsG0480018518.01 | MsG0080048838.01 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0480018518.01.T01 | MTR_4g013345 | 87.755 | 196 | 24 | 0 | 1 | 196 | 1 | 196 | 1.60e-120 | 339 |
| MsG0480018518.01.T01 | MTR_4g013350 | 85.787 | 197 | 27 | 1 | 1 | 196 | 1 | 197 | 4.22e-119 | 336 |
| MsG0480018518.01.T01 | MTR_4g013330 | 78.392 | 199 | 40 | 2 | 1 | 196 | 1 | 199 | 6.20e-109 | 310 |
| MsG0480018518.01.T01 | MTR_4g013335 | 78.571 | 182 | 36 | 2 | 16 | 196 | 17 | 196 | 3.29e-106 | 303 |
| MsG0480018518.01.T01 | MTR_4g013320 | 75.543 | 184 | 42 | 2 | 16 | 196 | 16 | 199 | 2.30e-103 | 296 |
| MsG0480018518.01.T01 | MTR_4g013325 | 73.500 | 200 | 48 | 3 | 1 | 196 | 1 | 199 | 8.28e-90 | 262 |
| MsG0480018518.01.T01 | MTR_4g013310 | 67.337 | 199 | 60 | 3 | 1 | 196 | 1 | 197 | 2.84e-88 | 258 |
| MsG0480018518.01.T01 | MTR_7g070390 | 64.583 | 192 | 66 | 2 | 6 | 196 | 2 | 192 | 4.56e-82 | 242 |
| MsG0480018518.01.T01 | MTR_4g013385 | 58.511 | 188 | 73 | 3 | 9 | 196 | 8 | 190 | 1.48e-76 | 228 |
| MsG0480018518.01.T01 | MTR_0433s0040 | 58.511 | 188 | 73 | 3 | 9 | 196 | 8 | 190 | 1.48e-76 | 228 |
| MsG0480018518.01.T01 | MTR_1g054525 | 57.592 | 191 | 76 | 2 | 9 | 196 | 4 | 192 | 3.21e-71 | 214 |
| MsG0480018518.01.T01 | MTR_4g013770 | 57.647 | 170 | 69 | 2 | 28 | 196 | 24 | 191 | 9.58e-65 | 198 |
| MsG0480018518.01.T01 | MTR_4g013355 | 52.660 | 188 | 75 | 3 | 9 | 196 | 6 | 179 | 5.49e-63 | 193 |
| MsG0480018518.01.T01 | MTR_7g093850 | 49.189 | 185 | 92 | 2 | 13 | 196 | 11 | 194 | 4.90e-59 | 183 |
| MsG0480018518.01.T01 | MTR_7g093820 | 49.189 | 185 | 92 | 2 | 13 | 196 | 11 | 194 | 5.12e-59 | 183 |
| MsG0480018518.01.T01 | MTR_7g093830 | 47.027 | 185 | 96 | 2 | 13 | 196 | 10 | 193 | 1.70e-57 | 179 |
| MsG0480018518.01.T01 | MTR_4g073950 | 52.632 | 152 | 71 | 1 | 46 | 196 | 41 | 192 | 4.05e-56 | 176 |
| MsG0480018518.01.T01 | MTR_7g093870 | 50.581 | 172 | 79 | 3 | 30 | 196 | 23 | 193 | 9.53e-55 | 173 |
| MsG0480018518.01.T01 | MTR_7g093790 | 46.386 | 166 | 87 | 2 | 32 | 196 | 27 | 191 | 3.49e-54 | 171 |
| MsG0480018518.01.T01 | MTR_3g105640 | 47.205 | 161 | 83 | 2 | 38 | 196 | 28 | 188 | 5.77e-46 | 150 |
| MsG0480018518.01.T01 | MTR_1g056370 | 47.682 | 151 | 77 | 2 | 46 | 195 | 36 | 185 | 2.90e-45 | 148 |
| MsG0480018518.01.T01 | MTR_3g105630 | 41.709 | 199 | 103 | 4 | 1 | 196 | 1 | 189 | 4.33e-44 | 145 |
| MsG0480018518.01.T01 | MTR_4g078885 | 45.638 | 149 | 79 | 1 | 48 | 196 | 39 | 185 | 5.73e-44 | 145 |
| MsG0480018518.01.T01 | MTR_3g034030 | 46.309 | 149 | 78 | 1 | 48 | 196 | 39 | 185 | 1.20e-43 | 144 |
| MsG0480018518.01.T01 | MTR_5g096120 | 42.949 | 156 | 77 | 3 | 49 | 196 | 38 | 189 | 6.78e-40 | 134 |
| MsG0480018518.01.T01 | MTR_4g122110 | 34.932 | 146 | 95 | 0 | 51 | 196 | 35 | 180 | 8.21e-28 | 103 |
| MsG0480018518.01.T01 | MTR_4g122130 | 35.211 | 142 | 92 | 0 | 55 | 196 | 39 | 180 | 4.12e-25 | 96.7 |
| MsG0480018518.01.T01 | MTR_4g049570 | 28.671 | 143 | 102 | 0 | 49 | 191 | 31 | 173 | 1.32e-16 | 74.3 |
| MsG0480018518.01.T01 | MTR_4g049550 | 30.709 | 127 | 88 | 0 | 45 | 171 | 27 | 153 | 1.79e-16 | 73.9 |
| MsG0480018518.01.T01 | MTR_8g099115 | 33.824 | 136 | 81 | 3 | 48 | 175 | 34 | 168 | 3.71e-16 | 73.2 |
| MsG0480018518.01.T01 | MTR_8g099135 | 35.821 | 134 | 67 | 5 | 55 | 175 | 37 | 164 | 8.63e-15 | 69.7 |
| MsG0480018518.01.T01 | MTR_1g115510 | 32.787 | 122 | 71 | 4 | 83 | 195 | 234 | 353 | 6.56e-11 | 60.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0480018518.01.T01 | AT1G55210 | 61.702 | 188 | 68 | 2 | 9 | 196 | 4 | 187 | 1.85e-81 | 240 |
| MsG0480018518.01.T01 | AT1G55210 | 61.702 | 188 | 68 | 2 | 9 | 196 | 4 | 187 | 1.85e-81 | 240 |
| MsG0480018518.01.T01 | AT5G49040 | 56.383 | 188 | 82 | 0 | 9 | 196 | 4 | 191 | 7.44e-77 | 229 |
| MsG0480018518.01.T01 | AT1G58170 | 57.447 | 188 | 68 | 2 | 12 | 196 | 7 | 185 | 1.98e-75 | 225 |
| MsG0480018518.01.T01 | AT3G13650 | 53.476 | 187 | 83 | 2 | 10 | 196 | 4 | 186 | 1.61e-70 | 213 |
| MsG0480018518.01.T01 | AT5G49030 | 56.647 | 173 | 75 | 0 | 9 | 181 | 4 | 176 | 2.71e-61 | 206 |
| MsG0480018518.01.T01 | AT3G13662 | 57.432 | 148 | 60 | 1 | 35 | 182 | 27 | 171 | 6.39e-57 | 177 |
| MsG0480018518.01.T01 | AT1G65870 | 50.331 | 151 | 75 | 0 | 45 | 195 | 39 | 189 | 1.85e-54 | 172 |
| MsG0480018518.01.T01 | AT3G13660 | 65.254 | 118 | 41 | 0 | 79 | 196 | 8 | 125 | 5.31e-52 | 163 |
| MsG0480018518.01.T01 | AT2G21100 | 49.664 | 149 | 75 | 0 | 47 | 195 | 39 | 187 | 5.58e-52 | 165 |
| MsG0480018518.01.T01 | AT2G21100 | 49.664 | 149 | 75 | 0 | 47 | 195 | 39 | 187 | 5.58e-52 | 165 |
| MsG0480018518.01.T01 | AT1G22900 | 50.993 | 151 | 72 | 1 | 45 | 195 | 45 | 193 | 5.13e-51 | 163 |
| MsG0480018518.01.T01 | AT5G42500 | 50.667 | 150 | 72 | 1 | 46 | 195 | 38 | 185 | 1.29e-50 | 162 |
| MsG0480018518.01.T01 | AT5G42510 | 48.667 | 150 | 75 | 1 | 46 | 195 | 35 | 182 | 4.91e-49 | 157 |
| MsG0480018518.01.T01 | AT3G58090 | 51.818 | 110 | 53 | 0 | 86 | 195 | 162 | 271 | 1.14e-38 | 134 |
| MsG0480018518.01.T01 | AT4G38700 | 42.308 | 156 | 84 | 3 | 47 | 196 | 35 | 190 | 1.51e-38 | 131 |
| MsG0480018518.01.T01 | AT2G21110 | 38.065 | 155 | 92 | 1 | 46 | 196 | 32 | 186 | 3.77e-35 | 122 |
| MsG0480018518.01.T01 | AT4G11210 | 34.483 | 145 | 86 | 5 | 39 | 179 | 27 | 166 | 1.30e-14 | 69.3 |
| MsG0480018518.01.T01 | AT4G23690 | 33.088 | 136 | 84 | 3 | 44 | 175 | 34 | 166 | 6.62e-14 | 67.4 |
| MsG0480018518.01.T01 | AT1G64160 | 31.967 | 122 | 76 | 3 | 52 | 169 | 37 | 155 | 7.54e-12 | 61.6 |
| MsG0480018518.01.T01 | AT4G11180 | 31.169 | 154 | 97 | 5 | 47 | 195 | 34 | 183 | 1.60e-11 | 60.8 |
| MsG0480018518.01.T01 | AT4G11190 | 27.857 | 140 | 94 | 3 | 44 | 179 | 30 | 166 | 7.25e-11 | 58.9 |
Find 30 sgRNAs with CRISPR-Local
Find 43 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTCACTGAAGGAAAGTATAA+TGG | 0.310992 | 4:-6066879 | MsG0480018518.01.T01:CDS |
| ATTGACAACCCTTTGACTTT+AGG | 0.312948 | 4:-6066999 | MsG0480018518.01.T01:CDS |
| TAAGTCATTTCAAATTATAT+TGG | 0.313865 | 4:-6067118 | MsG0480018518.01.T01:CDS |
| CAACAAGCTTGGAACTCAAC+TGG | 0.322818 | 4:+6066973 | None:intergenic |
| GAACAAAGTGAGAAAATGTT+TGG | 0.361732 | 4:+6067259 | None:intergenic |
| GGGAGTACTATTACTATCTT+GGG | 0.365410 | 4:-6066858 | MsG0480018518.01.T01:CDS |
| TGGGAGTACTATTACTATCT+TGG | 0.368563 | 4:-6066859 | MsG0480018518.01.T01:CDS |
| TCTGCATCACAGGAAGAAAT+AGG | 0.369275 | 4:-6066927 | MsG0480018518.01.T01:CDS |
| ATGCCTGTTGTTGGTGGTAG+TGG | 0.372337 | 4:-6066804 | MsG0480018518.01.T01:CDS |
| CAAATAGATCGCAAGTTGTT+AGG | 0.379691 | 4:-6067161 | MsG0480018518.01.T01:CDS |
| TATTGGCATGACATAATTAG+TGG | 0.408932 | 4:-6067101 | MsG0480018518.01.T01:CDS |
| GGAACAATTGCAACCGAAGT+TGG | 0.428664 | 4:+6067071 | None:intergenic |
| CAGTTGAGTTCCAAGCTTGT+TGG | 0.431032 | 4:-6066972 | MsG0480018518.01.T01:CDS |
| TCACTGAAGGAAAGTATAAT+GGG | 0.445119 | 4:-6066878 | MsG0480018518.01.T01:CDS |
| GTTTGTTGCAAGAGATGAGA+AGG | 0.446684 | 4:+6067231 | None:intergenic |
| AACAAGCTTGGAACTCAACT+GGG | 0.446836 | 4:+6066974 | None:intergenic |
| TCCCTAACCTTATTAAAAGC+AGG | 0.454908 | 4:+6066828 | None:intergenic |
| ATGCTCAAGCTAGTACTCAT+TGG | 0.460522 | 4:-6066758 | MsG0480018518.01.T01:CDS |
| TTTCTATGCATCTGCATCAC+AGG | 0.485104 | 4:-6066937 | MsG0480018518.01.T01:CDS |
| AGTCCACTACCACCAACAAC+AGG | 0.512977 | 4:+6066801 | None:intergenic |
| AGGGAAATGCCTGTTGTTGG+TGG | 0.521357 | 4:-6066810 | MsG0480018518.01.T01:CDS |
| TTGGATTGATGTCAAAGCTC+GGG | 0.528314 | 4:-6066739 | MsG0480018518.01.T01:CDS |
| GTTAGGGAAATGCCTGTTGT+TGG | 0.531572 | 4:-6066813 | MsG0480018518.01.T01:CDS |
| AAGCTTGTTGGAAAAGCTCA+AGG | 0.537211 | 4:-6066960 | MsG0480018518.01.T01:CDS |
| ATTGGATTGATGTCAAAGCT+CGG | 0.560589 | 4:-6066740 | MsG0480018518.01.T01:CDS |
| GTTGTTAGGCCTAAACAAGA+AGG | 0.591926 | 4:-6067147 | MsG0480018518.01.T01:CDS |
| ACAAGCTTGGAACTCAACTG+GGG | 0.651947 | 4:+6066975 | None:intergenic |
| GTACTATTACTATCTTGGGG+AGG | 0.673978 | 4:-6066854 | MsG0480018518.01.T01:CDS |
| CAAGCTTGGAACTCAACTGG+GGG | 0.683629 | 4:+6066976 | None:intergenic |
| GGAGTACTATTACTATCTTG+GGG | 0.700411 | 4:-6066857 | MsG0480018518.01.T01:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TAAGTCATTTCAAATTATAT+TGG | - | Chr4:6066846-6066865 | MsG0480018518.01.T01:CDS | 15.0% |
| !!! | GTAAACTCAACTACTTTTTT+TGG | - | Chr4:6066929-6066948 | MsG0480018518.01.T01:CDS | 25.0% |
| GAACAAAGTGAGAAAATGTT+TGG | + | Chr4:6066708-6066727 | None:intergenic | 30.0% | |
| TAGTGGAAAAAATCCAACTT+CGG | - | Chr4:6066880-6066899 | MsG0480018518.01.T01:CDS | 30.0% | |
| TATTGGCATGACATAATTAG+TGG | - | Chr4:6066863-6066882 | MsG0480018518.01.T01:CDS | 30.0% | |
| ! | ATGAATTTTGCTTTCACTGA+AGG | - | Chr4:6067073-6067092 | MsG0480018518.01.T01:CDS | 30.0% |
| ! | TCACTGAAGGAAAGTATAAT+GGG | - | Chr4:6067086-6067105 | MsG0480018518.01.T01:CDS | 30.0% |
| ! | TTCACTGAAGGAAAGTATAA+TGG | - | Chr4:6067085-6067104 | MsG0480018518.01.T01:CDS | 30.0% |
| !! | ATCCTGCTTTTAATAAGGTT+AGG | - | Chr4:6067134-6067153 | MsG0480018518.01.T01:CDS | 30.0% |
| !! | GTTGAGTTTACTTTTGATGA+TGG | + | Chr4:6066920-6066939 | None:intergenic | 30.0% |
| !! | TCCTGCTTTTAATAAGGTTA+GGG | - | Chr4:6067135-6067154 | MsG0480018518.01.T01:CDS | 30.0% |
| !! | TTAGCTTTTCCTTCTTGTTT+AGG | + | Chr4:6066829-6066848 | None:intergenic | 30.0% |
| ATTGGATTGATGTCAAAGCT+CGG | - | Chr4:6067224-6067243 | MsG0480018518.01.T01:CDS | 35.0% | |
| CAAATAGATCGCAAGTTGTT+AGG | - | Chr4:6066803-6066822 | MsG0480018518.01.T01:CDS | 35.0% | |
| TCCCTAACCTTATTAAAAGC+AGG | + | Chr4:6067139-6067158 | None:intergenic | 35.0% | |
| ! | ATTGACAACCCTTTGACTTT+AGG | - | Chr4:6066965-6066984 | MsG0480018518.01.T01:CDS | 35.0% |
| ! | GGAGTACTATTACTATCTTG+GGG | - | Chr4:6067107-6067126 | MsG0480018518.01.T01:CDS | 35.0% |
| !! | GAGGAATCCTGCTTTTAATA+AGG | - | Chr4:6067129-6067148 | MsG0480018518.01.T01:CDS | 35.0% |
| !! | GGGAGTACTATTACTATCTT+GGG | - | Chr4:6067106-6067125 | MsG0480018518.01.T01:CDS | 35.0% |
| !! | TGGGAGTACTATTACTATCT+TGG | - | Chr4:6067105-6067124 | MsG0480018518.01.T01:CDS | 35.0% |
| !!! | GAGTTTACTTTTGATGATGG+TGG | + | Chr4:6066917-6066936 | None:intergenic | 35.0% |
| !!! | GGACTTTTTAGATTTGCTAG+AGG | - | Chr4:6067181-6067200 | MsG0480018518.01.T01:CDS | 35.0% |
| AACAAGCTTGGAACTCAACT+GGG | + | Chr4:6066993-6067012 | None:intergenic | 40.0% | |
| ATGCTCAAGCTAGTACTCAT+TGG | - | Chr4:6067206-6067225 | MsG0480018518.01.T01:CDS | 40.0% | |
| GTACTATTACTATCTTGGGG+AGG | - | Chr4:6067110-6067129 | MsG0480018518.01.T01:CDS | 40.0% | |
| GTTGTTAGGCCTAAACAAGA+AGG | - | Chr4:6066817-6066836 | MsG0480018518.01.T01:CDS | 40.0% | |
| TCTGCATCACAGGAAGAAAT+AGG | - | Chr4:6067037-6067056 | MsG0480018518.01.T01:CDS | 40.0% | |
| TTGGATTGATGTCAAAGCTC+GGG | - | Chr4:6067225-6067244 | MsG0480018518.01.T01:CDS | 40.0% | |
| TTTCTATGCATCTGCATCAC+AGG | - | Chr4:6067027-6067046 | MsG0480018518.01.T01:CDS | 40.0% | |
| ! | GTTTGTTGCAAGAGATGAGA+AGG | + | Chr4:6066736-6066755 | None:intergenic | 40.0% |
| ! | TTGAGCTTTTCCAACAAGCT+TGG | + | Chr4:6067005-6067024 | None:intergenic | 40.0% |
| !! | AAGCTTGTTGGAAAAGCTCA+AGG | - | Chr4:6067004-6067023 | MsG0480018518.01.T01:CDS | 40.0% |
| ACAAGCTTGGAACTCAACTG+GGG | + | Chr4:6066992-6067011 | None:intergenic | 45.0% | |
| CAACAAGCTTGGAACTCAAC+TGG | + | Chr4:6066994-6067013 | None:intergenic | 45.0% | |
| CAGTTGAGTTCCAAGCTTGT+TGG | - | Chr4:6066992-6067011 | MsG0480018518.01.T01:CDS | 45.0% | |
| GGAACAATTGCAACCGAAGT+TGG | + | Chr4:6066896-6066915 | None:intergenic | 45.0% | |
| GTTAGGGAAATGCCTGTTGT+TGG | - | Chr4:6067151-6067170 | MsG0480018518.01.T01:CDS | 45.0% | |
| AACTGGGGGCCTAAAGTCAA+AGG | + | Chr4:6066977-6066996 | None:intergenic | 50.0% | |
| ACTGGGGGCCTAAAGTCAAA+GGG | + | Chr4:6066976-6066995 | None:intergenic | 50.0% | |
| AGGGAAATGCCTGTTGTTGG+TGG | - | Chr4:6067154-6067173 | MsG0480018518.01.T01:CDS | 50.0% | |
| AGTCCACTACCACCAACAAC+AGG | + | Chr4:6067166-6067185 | None:intergenic | 50.0% | |
| CAAGCTTGGAACTCAACTGG+GGG | + | Chr4:6066991-6067010 | None:intergenic | 50.0% | |
| !! | ATGCCTGTTGTTGGTGGTAG+TGG | - | Chr4:6067160-6067179 | MsG0480018518.01.T01:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| Chr4 | gene | 6066698 | 6067288 | 6066698 | ID=MsG0480018518.01;Name=MsG0480018518.01 |
| Chr4 | mRNA | 6066698 | 6067288 | 6066698 | ID=MsG0480018518.01.T01;Parent=MsG0480018518.01;Name=MsG0480018518.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|196 |
| Chr4 | exon | 6066698 | 6067288 | 6066698 | ID=MsG0480018518.01.T01:exon:2153;Parent=MsG0480018518.01.T01 |
| Chr4 | CDS | 6066698 | 6067288 | 6066698 | ID=MsG0480018518.01.T01:cds;Parent=MsG0480018518.01.T01 |
| Gene Sequence |
| Protein sequence |
