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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0232920 | XP_003593362.1 | 83.436 | 163 | 27 | 0 | 1 | 163 | 1 | 163 | 5.47e-95 | 282 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0232920 | sp|P11670|PRB1_TOBAC | 50.318 | 157 | 70 | 4 | 8 | 163 | 10 | 159 | 3.62e-49 | 159 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0232920 | G7IFD5 | 83.436 | 163 | 27 | 0 | 1 | 163 | 1 | 163 | 2.61e-95 | 282 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0212150 | Msa0232920 | 0.803383 | 3.578941e-49 | -8.615850e-47 |
| Msa0232920 | Msa0451400 | 0.806088 | 9.750009e-50 | -8.615850e-47 |
| Msa0232920 | Msa0538220 | 0.801077 | 1.067299e-48 | -8.615850e-47 |
| Msa0232920 | Msa0641250 | 0.801889 | 7.275769e-49 | -8.615850e-47 |
| Msa0232920 | Msa0669840 | 0.822035 | 2.937881e-53 | -8.615850e-47 |
| Msa0232920 | Msa1037890 | 0.804911 | 1.720879e-49 | -8.615850e-47 |
| Msa0232920 | Msa1201110 | 0.800371 | 1.486877e-48 | -8.615850e-47 |
| Msa0232920 | Msa1201160 | 0.805148 | 1.535472e-49 | -8.615850e-47 |
| Msa0232920 | Msa1394890 | 0.805756 | 1.144532e-49 | -8.615850e-47 |
PPI
| Gene1 | Gene2 | Type |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0232920 | MtrunA17_Chr2g0280321 | 83.436 | 163 | 27 | 0 | 1 | 163 | 1 | 163 | 5.03e-99 | 282 |
| Msa0232920 | MtrunA17_Chr2g0280351 | 75.595 | 168 | 36 | 2 | 1 | 163 | 1 | 168 | 4.25e-90 | 259 |
| Msa0232920 | MtrunA17_Chr2g0280341 | 73.585 | 159 | 41 | 1 | 6 | 163 | 179 | 337 | 8.29e-83 | 247 |
| Msa0232920 | MtrunA17_Chr2g0280341 | 74.286 | 140 | 35 | 1 | 1 | 139 | 1 | 140 | 3.37e-68 | 210 |
| Msa0232920 | MtrunA17_Chr2g0280331 | 69.277 | 166 | 47 | 4 | 1 | 163 | 1 | 165 | 4.78e-78 | 229 |
| Msa0232920 | MtrunA17_Chr2g0280311 | 69.737 | 152 | 44 | 2 | 14 | 163 | 14 | 165 | 2.62e-74 | 219 |
| Msa0232920 | MtrunA17_Chr2g0280291 | 60.843 | 166 | 58 | 5 | 1 | 163 | 274 | 435 | 1.56e-61 | 196 |
| Msa0232920 | MtrunA17_Chr2g0280291 | 55.696 | 158 | 62 | 5 | 1 | 156 | 1 | 152 | 8.38e-55 | 178 |
| Msa0232920 | MtrunA17_Chr2g0281271 | 58.503 | 147 | 55 | 4 | 20 | 163 | 1 | 144 | 3.66e-54 | 168 |
| Msa0232920 | MtrunA17_Chr4g0049151 | 50.000 | 164 | 74 | 5 | 3 | 163 | 6 | 164 | 5.61e-50 | 158 |
| Msa0232920 | MtrunA17_Chr2g0280281 | 43.125 | 160 | 81 | 4 | 9 | 163 | 4 | 158 | 1.16e-43 | 142 |
| Msa0232920 | MtrunA17_Chr2g0295371 | 46.584 | 161 | 78 | 5 | 6 | 163 | 9 | 164 | 2.16e-43 | 142 |
| Msa0232920 | MtrunA17_Chr2g0280301 | 52.121 | 165 | 47 | 6 | 1 | 163 | 1 | 135 | 2.27e-40 | 132 |
| Msa0232920 | MtrunA17_Chr4g0049191 | 40.994 | 161 | 88 | 4 | 5 | 163 | 4 | 159 | 7.80e-38 | 127 |
| Msa0232920 | MtrunA17_Chr4g0072791 | 41.429 | 140 | 74 | 6 | 29 | 163 | 70 | 206 | 6.35e-29 | 105 |
| Msa0232920 | MtrunA17_Chr4g0072781 | 45.652 | 138 | 66 | 7 | 30 | 163 | 41 | 173 | 3.37e-28 | 102 |
| Msa0232920 | MtrunA17_Chr8g0373921 | 30.714 | 140 | 89 | 4 | 29 | 163 | 36 | 172 | 1.48e-18 | 77.8 |
| Msa0232920 | MtrunA17_Chr5g0403201 | 32.168 | 143 | 85 | 6 | 29 | 163 | 47 | 185 | 2.21e-17 | 75.1 |
| Msa0232920 | MtrunA17_Chr1g0181941 | 32.857 | 140 | 83 | 6 | 29 | 162 | 73 | 207 | 5.85e-17 | 74.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0232920 | AT4G33720.1 | 49.693 | 163 | 74 | 5 | 3 | 163 | 7 | 163 | 3.95e-48 | 153 |
| Msa0232920 | AT2G14580.1 | 50.000 | 166 | 73 | 6 | 1 | 163 | 3 | 161 | 5.67e-46 | 148 |
| Msa0232920 | AT3G19690.1 | 47.239 | 163 | 74 | 6 | 5 | 163 | 7 | 161 | 1.05e-45 | 147 |
| Msa0232920 | AT5G26130.1 | 48.750 | 160 | 76 | 4 | 6 | 163 | 11 | 166 | 1.23e-45 | 147 |
| Msa0232920 | AT4G33710.1 | 51.389 | 144 | 65 | 3 | 22 | 163 | 26 | 166 | 1.67e-45 | 147 |
| Msa0232920 | AT2G14610.1 | 46.626 | 163 | 77 | 6 | 4 | 163 | 6 | 161 | 1.22e-43 | 142 |
| Msa0232920 | AT1G50060.1 | 45.963 | 161 | 76 | 6 | 6 | 163 | 9 | 161 | 2.32e-40 | 134 |
| Msa0232920 | AT4G33730.1 | 45.890 | 146 | 76 | 1 | 18 | 163 | 30 | 172 | 3.73e-39 | 131 |
| Msa0232920 | AT1G50050.2 | 43.478 | 161 | 82 | 6 | 6 | 163 | 8 | 162 | 2.05e-35 | 121 |
| Msa0232920 | AT1G50050.1 | 44.521 | 146 | 71 | 6 | 12 | 151 | 9 | 150 | 9.13e-31 | 111 |
| Msa0232920 | AT4G31470.1 | 39.610 | 154 | 84 | 6 | 14 | 163 | 37 | 185 | 1.59e-30 | 109 |
| Msa0232920 | AT4G25790.1 | 43.165 | 139 | 70 | 6 | 29 | 163 | 77 | 210 | 1.83e-30 | 110 |
| Msa0232920 | AT5G57625.1 | 44.203 | 138 | 68 | 6 | 30 | 163 | 75 | 207 | 1.74e-29 | 107 |
| Msa0232920 | AT4G25780.1 | 41.429 | 140 | 74 | 5 | 29 | 163 | 54 | 190 | 3.02e-29 | 106 |
| Msa0232920 | AT2G19990.1 | 41.429 | 140 | 74 | 5 | 27 | 163 | 42 | 176 | 7.94e-29 | 105 |
| Msa0232920 | AT4G07820.1 | 39.161 | 143 | 80 | 5 | 22 | 163 | 24 | 160 | 2.69e-28 | 103 |
| Msa0232920 | AT3G09590.1 | 43.571 | 140 | 69 | 7 | 29 | 163 | 52 | 186 | 4.30e-28 | 103 |
| Msa0232920 | AT4G30320.1 | 36.774 | 155 | 87 | 6 | 12 | 163 | 15 | 161 | 1.11e-26 | 99.0 |
| Msa0232920 | AT5G02730.1 | 42.553 | 141 | 71 | 7 | 28 | 163 | 58 | 193 | 2.93e-26 | 99.4 |
| Msa0232920 | AT1G01310.1 | 38.406 | 138 | 77 | 5 | 29 | 163 | 87 | 219 | 2.58e-25 | 97.4 |
| Msa0232920 | AT2G19970.1 | 39.416 | 137 | 70 | 7 | 26 | 153 | 34 | 166 | 1.40e-20 | 83.6 |
| Msa0232920 | AT2G19980.1 | 35.625 | 160 | 82 | 6 | 3 | 153 | 7 | 154 | 2.82e-20 | 82.8 |
| Msa0232920 | AT5G66590.1 | 33.571 | 140 | 84 | 5 | 30 | 163 | 49 | 185 | 1.19e-19 | 81.6 |
Find 44 sgRNAs with CRISPR-Local
Find 49 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTGTTATCCCAAACAATATT+TGG | 0.174562 | 2_2:-5248474 | None:intergenic |
| ATACTCTCTATTGTGTGTTT+TGG | 0.213365 | 2_2:+5248344 | Msa0232920:CDS |
| GAATCACTTAGTACGGTAAT+TGG | 0.291626 | 2_2:-5248812 | None:intergenic |
| TTCATTATACCCAGGTGGTT+TGG | 0.293162 | 2_2:+5248694 | Msa0232920:CDS |
| GTAAAATTCCAAATATTGTT+TGG | 0.296141 | 2_2:+5248466 | Msa0232920:CDS |
| CATCTGTGCCACTCATCTTC+CGG | 0.297769 | 2_2:-5248599 | None:intergenic |
| TCATTATACCCAGGTGGTTT+GGG | 0.309787 | 2_2:+5248695 | Msa0232920:CDS |
| ATCTGTGCCACTCATCTTCC+GGG | 0.310167 | 2_2:-5248598 | None:intergenic |
| TAAAATTCCAAATATTGTTT+GGG | 0.357402 | 2_2:+5248467 | Msa0232920:CDS |
| CACGGATCTTGCTGCGTTGT+GGG | 0.367928 | 2_2:-5248433 | None:intergenic |
| CATAGTCTGCTGGTGAGTCT+TGG | 0.371474 | 2_2:-5248404 | None:intergenic |
| ATAGTCTGCTGGTGAGTCTT+GGG | 0.390190 | 2_2:-5248403 | None:intergenic |
| CTGCGATATTGTCGCTGTAA+TGG | 0.444912 | 2_2:-5248569 | None:intergenic |
| GCTGTAATGGCCACCACTAC+CGG | 0.452504 | 2_2:-5248556 | None:intergenic |
| GGCAAAGTGAAATGTGATAA+TGG | 0.455441 | 2_2:+5248741 | Msa0232920:CDS |
| CCACCACTACCGGATGAGAT+TGG | 0.468727 | 2_2:-5248546 | None:intergenic |
| TCACGGATCTTGCTGCGTTG+TGG | 0.481808 | 2_2:-5248434 | None:intergenic |
| TTGGGATTAATACTCATTGT+TGG | 0.503648 | 2_2:+5248363 | Msa0232920:CDS |
| AATTGGCCAGGAATGTTACC+AGG | 0.518547 | 2_2:-5248795 | None:intergenic |
| GATTGTAAACCAATCTCATC+CGG | 0.526662 | 2_2:+5248537 | Msa0232920:CDS |
| TTGATATGAATCACTTAGTA+CGG | 0.533015 | 2_2:-5248819 | None:intergenic |
| ACTTAGTACGGTAATTGGCC+AGG | 0.536839 | 2_2:-5248807 | None:intergenic |
| ACAATATCGCAGTGAGCACC+CGG | 0.551564 | 2_2:+5248580 | Msa0232920:CDS |
| AGTGAAGATGTGGGTGGAGG+AGG | 0.554291 | 2_2:+5248623 | Msa0232920:CDS |
| AAATCACTACGTCTTGGATG+TGG | 0.558222 | 2_2:+5248720 | Msa0232920:CDS |
| TGGGCGTTCACATAGTCTGC+TGG | 0.563434 | 2_2:-5248414 | None:intergenic |
| TATAATAACTCATGTGTTGG+TGG | 0.563532 | 2_2:+5248663 | Msa0232920:CDS |
| AAACCAATCTCATCCGGTAG+TGG | 0.564800 | 2_2:+5248543 | Msa0232920:CDS |
| CCAATCTCATCCGGTAGTGG+TGG | 0.570196 | 2_2:+5248546 | Msa0232920:CDS |
| CACTATAATAACTCATGTGT+TGG | 0.578687 | 2_2:+5248660 | Msa0232920:CDS |
| GCACAGATGCAGTGAAGATG+TGG | 0.590336 | 2_2:+5248613 | Msa0232920:CDS |
| TGCAGTGAAGATGTGGGTGG+AGG | 0.615195 | 2_2:+5248620 | Msa0232920:CDS |
| GTGAGCACCCGGAAGATGAG+TGG | 0.616035 | 2_2:+5248591 | Msa0232920:CDS |
| AAACTATGCTAATCAACGCA+AGG | 0.625421 | 2_2:+5248515 | Msa0232920:CDS |
| ATGTCTTCATTATACCCAGG+TGG | 0.655480 | 2_2:+5248689 | Msa0232920:CDS |
| CACAGATGCAGTGAAGATGT+GGG | 0.675484 | 2_2:+5248614 | Msa0232920:CDS |
| TTATTATAGTGATCATAGTG+TGG | 0.680075 | 2_2:-5248648 | None:intergenic |
| GCAAGATCCGTGATTACCAG+TGG | 0.685732 | 2_2:+5248444 | Msa0232920:CDS |
| TGAATGTCTTCATTATACCC+AGG | 0.694273 | 2_2:+5248686 | Msa0232920:CDS |
| ATTGGCCAGGAATGTTACCA+GGG | 0.703546 | 2_2:-5248794 | None:intergenic |
| AGATGCAGTGAAGATGTGGG+TGG | 0.705925 | 2_2:+5248617 | Msa0232920:CDS |
| TTGGCCAGGAATGTTACCAG+GGG | 0.710519 | 2_2:-5248793 | None:intergenic |
| TGGCCAGGAATGTTACCAGG+GGG | 0.750471 | 2_2:-5248792 | None:intergenic |
| AAAGTGAAATGTGATAATGG+TGG | 0.767769 | 2_2:+5248744 | Msa0232920:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TAAAATTCCAAATATTGTTT+GGG | + | chr2_2:5248467-5248486 | Msa0232920:CDS | 15.0% |
| !! | GTAAAATTCCAAATATTGTT+TGG | + | chr2_2:5248466-5248485 | Msa0232920:CDS | 20.0% |
| !!! | AATATTTGGAATTTTACCAC+TGG | - | chr2_2:5248463-5248482 | None:intergenic | 25.0% |
| ! | TTGTTATCCCAAACAATATT+TGG | - | chr2_2:5248477-5248496 | None:intergenic | 25.0% |
| ! | TTATTATAGTGATCATAGTG+TGG | - | chr2_2:5248651-5248670 | None:intergenic | 25.0% |
| ! | ATACTCTCTATTGTGTGTTT+TGG | + | chr2_2:5248344-5248363 | Msa0232920:CDS | 30.0% |
| ! | TACTCTCTATTGTGTGTTTT+GGG | + | chr2_2:5248345-5248364 | Msa0232920:CDS | 30.0% |
| TTGGGATTAATACTCATTGT+TGG | + | chr2_2:5248363-5248382 | Msa0232920:CDS | 30.0% | |
| ! | AATTTTACCACTGGTAATCA+CGG | - | chr2_2:5248454-5248473 | None:intergenic | 30.0% |
| CACTATAATAACTCATGTGT+TGG | + | chr2_2:5248660-5248679 | Msa0232920:CDS | 30.0% | |
| TATAATAACTCATGTGTTGG+TGG | + | chr2_2:5248663-5248682 | Msa0232920:CDS | 30.0% | |
| !! | AAAGTGAAATGTGATAATGG+TGG | + | chr2_2:5248744-5248763 | Msa0232920:CDS | 30.0% |
| AAACTATGCTAATCAACGCA+AGG | + | chr2_2:5248515-5248534 | Msa0232920:CDS | 35.0% | |
| GATTGTAAACCAATCTCATC+CGG | + | chr2_2:5248537-5248556 | Msa0232920:CDS | 35.0% | |
| TGAATGTCTTCATTATACCC+AGG | + | chr2_2:5248686-5248705 | Msa0232920:CDS | 35.0% | |
| GGCAAAGTGAAATGTGATAA+TGG | + | chr2_2:5248741-5248760 | Msa0232920:CDS | 35.0% | |
| ATGTCTTCATTATACCCAGG+TGG | + | chr2_2:5248689-5248708 | Msa0232920:CDS | 40.0% | |
| TTCATTATACCCAGGTGGTT+TGG | + | chr2_2:5248694-5248713 | Msa0232920:CDS | 40.0% | |
| TCATTATACCCAGGTGGTTT+GGG | + | chr2_2:5248695-5248714 | Msa0232920:CDS | 40.0% | |
| ! | TGATTTTTCCCAAACCACCT+GGG | - | chr2_2:5248706-5248725 | None:intergenic | 40.0% |
| TGGGAAAAATCACTACGTCT+TGG | + | chr2_2:5248714-5248733 | Msa0232920:CDS | 40.0% | |
| AAATCACTACGTCTTGGATG+TGG | + | chr2_2:5248720-5248739 | Msa0232920:CDS | 40.0% | |
| ACTTGCAATTATTATCCCCC+TGG | + | chr2_2:5248777-5248796 | Msa0232920:CDS | 40.0% | |
| ATAGTCTGCTGGTGAGTCTT+GGG | - | chr2_2:5248406-5248425 | None:intergenic | 45.0% | |
| AAACCAATCTCATCCGGTAG+TGG | + | chr2_2:5248543-5248562 | Msa0232920:CDS | 45.0% | |
| CTGCGATATTGTCGCTGTAA+TGG | - | chr2_2:5248572-5248591 | None:intergenic | 45.0% | |
| CACAGATGCAGTGAAGATGT+GGG | + | chr2_2:5248614-5248633 | Msa0232920:CDS | 45.0% | |
| ! | GTGATTTTTCCCAAACCACC+TGG | - | chr2_2:5248707-5248726 | None:intergenic | 45.0% |
| ATTGGCCAGGAATGTTACCA+GGG | - | chr2_2:5248797-5248816 | None:intergenic | 45.0% | |
| AATTGGCCAGGAATGTTACC+AGG | - | chr2_2:5248798-5248817 | None:intergenic | 45.0% | |
| CATAGTCTGCTGGTGAGTCT+TGG | - | chr2_2:5248407-5248426 | None:intergenic | 50.0% | |
| GCAAGATCCGTGATTACCAG+TGG | + | chr2_2:5248444-5248463 | Msa0232920:CDS | 50.0% | |
| ACAATATCGCAGTGAGCACC+CGG | + | chr2_2:5248580-5248599 | Msa0232920:CDS | 50.0% | |
| ! | ATCTGTGCCACTCATCTTCC+GGG | - | chr2_2:5248601-5248620 | None:intergenic | 50.0% |
| ! | CATCTGTGCCACTCATCTTC+CGG | - | chr2_2:5248602-5248621 | None:intergenic | 50.0% |
| GCACAGATGCAGTGAAGATG+TGG | + | chr2_2:5248613-5248632 | Msa0232920:CDS | 50.0% | |
| AGATGCAGTGAAGATGTGGG+TGG | + | chr2_2:5248617-5248636 | Msa0232920:CDS | 50.0% | |
| TATCCCCCTGGTAACATTCC+TGG | + | chr2_2:5248789-5248808 | Msa0232920:CDS | 50.0% | |
| TTGGCCAGGAATGTTACCAG+GGG | - | chr2_2:5248796-5248815 | None:intergenic | 50.0% | |
| TGGGCGTTCACATAGTCTGC+TGG | - | chr2_2:5248417-5248436 | None:intergenic | 55.0% | |
| CACGGATCTTGCTGCGTTGT+GGG | - | chr2_2:5248436-5248455 | None:intergenic | 55.0% | |
| TCACGGATCTTGCTGCGTTG+TGG | - | chr2_2:5248437-5248456 | None:intergenic | 55.0% | |
| CCACCACTACCGGATGAGAT+TGG | - | chr2_2:5248549-5248568 | None:intergenic | 55.0% | |
| ! | CCAATCTCATCCGGTAGTGG+TGG | + | chr2_2:5248546-5248565 | Msa0232920:CDS | 55.0% |
| GCTGTAATGGCCACCACTAC+CGG | - | chr2_2:5248559-5248578 | None:intergenic | 55.0% | |
| TGCAGTGAAGATGTGGGTGG+AGG | + | chr2_2:5248620-5248639 | Msa0232920:CDS | 55.0% | |
| AGTGAAGATGTGGGTGGAGG+AGG | + | chr2_2:5248623-5248642 | Msa0232920:CDS | 55.0% | |
| TGGCCAGGAATGTTACCAGG+GGG | - | chr2_2:5248795-5248814 | None:intergenic | 55.0% | |
| GTGAGCACCCGGAAGATGAG+TGG | + | chr2_2:5248591-5248610 | Msa0232920:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_2 | gene | 5248336 | 5248827 | 5248336 | ID=Msa0232920;Name=Msa0232920 |
| chr2_2 | mRNA | 5248336 | 5248827 | 5248336 | ID=Msa0232920-mRNA-1;Parent=Msa0232920;Name=Msa0232920-mRNA-1;_AED=0.46;_eAED=0.46;_QI=0|-1|0|1|-1|1|1|0|163 |
| chr2_2 | exon | 5248336 | 5248827 | 5248336 | ID=Msa0232920-mRNA-1:exon:2286;Parent=Msa0232920-mRNA-1 |
| chr2_2 | CDS | 5248336 | 5248827 | 5248336 | ID=Msa0232920-mRNA-1:cds;Parent=Msa0232920-mRNA-1 |
| Gene Sequence |
| Protein sequence |
