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 |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1184790 | A0A072TZI9 | 91.803 | 183 | 15 | 0 | 1 | 183 | 1 | 183 | 2.66e-121 | 349 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0001380 | Msa1184790 | 0.806937 | 6.454455e-50 | -8.615850e-47 |
| Msa0002250 | Msa1184790 | 0.815204 | 1.041894e-51 | -8.615850e-47 |
| Msa0092410 | Msa1184790 | 0.812825 | 3.488276e-51 | -8.615850e-47 |
| Msa0613340 | Msa1184790 | 0.805624 | 1.220052e-49 | -8.615850e-47 |
| Msa0641340 | Msa1184790 | 0.806150 | 9.459297e-50 | -8.615850e-47 |
| Msa0675860 | Msa1184790 | 0.800720 | 1.262341e-48 | -8.615850e-47 |
| Msa0689780 | Msa1184790 | 0.814193 | 1.745301e-51 | -8.615850e-47 |
| Msa0714990 | Msa1184790 | 0.800028 | 1.746734e-48 | -8.615850e-47 |
| Msa0721340 | Msa1184790 | 0.806139 | 9.510502e-50 | -8.615850e-47 |
| Msa0750810 | Msa1184790 | 0.802308 | 5.967091e-49 | -8.615850e-47 |
| Msa0779260 | Msa1184790 | 0.802988 | 4.319941e-49 | -8.615850e-47 |
| Msa0836650 | Msa1184790 | 0.803107 | 4.080991e-49 | -8.615850e-47 |
| Msa0136630 | Msa1184790 | 0.807520 | 4.855224e-50 | -8.615850e-47 |
| Msa0152560 | Msa1184790 | 0.805712 | 1.169470e-49 | -8.615850e-47 |
| Msa0187310 | Msa1184790 | 0.819215 | 1.305581e-52 | -8.615850e-47 |
| Msa0187830 | Msa1184790 | 0.820776 | 5.736233e-53 | -8.615850e-47 |
| Msa0201570 | Msa1184790 | 0.802518 | 5.402195e-49 | -8.615850e-47 |
| Msa1042660 | Msa1184790 | 0.805717 | 1.166578e-49 | -8.615850e-47 |
| Msa1043120 | Msa1184790 | 0.800275 | 1.556003e-48 | -8.615850e-47 |
| Msa0240270 | Msa1184790 | 0.817314 | 3.517391e-52 | -8.615850e-47 |
| Msa0244140 | Msa1184790 | 0.815660 | 8.248749e-52 | -8.615850e-47 |
| Msa0244190 | Msa1184790 | 0.822950 | 1.800923e-53 | -8.615850e-47 |
| Msa0269560 | Msa1184790 | 0.806158 | 9.424170e-50 | -8.615850e-47 |
| Msa0271550 | Msa1184790 | 0.802505 | 5.433368e-49 | -8.615850e-47 |
| Msa0314000 | Msa1184790 | 0.804140 | 2.491405e-49 | -8.615850e-47 |
| Msa0319290 | Msa1184790 | 0.817844 | 2.670775e-52 | -8.615850e-47 |
| Msa0347750 | Msa1184790 | 0.841303 | 5.157748e-58 | -8.615850e-47 |
| Msa1184780 | Msa1184790 | 0.809993 | 1.437667e-50 | -8.615850e-47 |
| Msa1184790 | Msa1225100 | 0.810746 | 9.887865e-51 | -8.615850e-47 |
| Msa1184790 | Msa1238690 | 0.803469 | 3.435493e-49 | -8.615850e-47 |
| Msa1184790 | Msa1270660 | 0.805883 | 1.076446e-49 | -8.615850e-47 |
| Msa1184790 | Msa1270730 | 0.811149 | 8.089563e-51 | -8.615850e-47 |
| Msa1184790 | Msa1280150 | 0.821573 | 3.758474e-53 | -8.615850e-47 |
| Msa1184790 | Msa1280170 | 0.842545 | 2.421883e-58 | -8.615850e-47 |
| Msa1184790 | Msa1329870 | 0.809257 | 2.069207e-50 | -8.615850e-47 |
| Msa1184790 | Msa1335230 | 0.805936 | 1.049231e-49 | -8.615850e-47 |
| Msa1184790 | Msa1338400 | 0.807371 | 5.222542e-50 | -8.615850e-47 |
| Msa1184790 | Msa1367530 | 0.800124 | 1.669656e-48 | -8.615850e-47 |
| Msa1184790 | Msa1376450 | 0.809386 | 1.941258e-50 | -8.615850e-47 |
| Msa1184790 | Msa1405220 | 0.805328 | 1.407490e-49 | -8.615850e-47 |
| Msa1184790 | Msa1420270 | 0.819078 | 1.402872e-52 | -8.615850e-47 |
| Msa1184790 | Msa1424630 | 0.823333 | 1.465509e-53 | -8.615850e-47 |
| Msa1184790 | Msa1434040 | 0.818606 | 1.795623e-52 | -8.615850e-47 |
| Msa0902830 | Msa1184790 | 0.803575 | 3.265210e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1184790 | MtrunA17_Chr8g0350291 | 91.803 | 183 | 15 | 0 | 1 | 183 | 1 | 183 | 5.12e-125 | 349 |
| Msa1184790 | MtrunA17_Chr8g0350241 | 87.978 | 183 | 22 | 0 | 1 | 183 | 1 | 183 | 1.94e-120 | 338 |
| Msa1184790 | MtrunA17_Chr3g0109941 | 83.607 | 183 | 30 | 0 | 1 | 183 | 1 | 183 | 1.44e-113 | 320 |
| Msa1184790 | MtrunA17_Chr8g0350221 | 83.696 | 184 | 29 | 1 | 1 | 183 | 1 | 184 | 4.92e-112 | 317 |
| Msa1184790 | MtrunA17_Chr8g0350271 | 81.522 | 184 | 33 | 1 | 1 | 183 | 1 | 184 | 2.01e-108 | 307 |
| Msa1184790 | MtrunA17_Chr8g0350231 | 82.486 | 177 | 29 | 2 | 1 | 175 | 1 | 177 | 1.07e-102 | 293 |
| Msa1184790 | MtrunA17_Chr8g0350281 | 51.705 | 176 | 63 | 5 | 5 | 174 | 7 | 166 | 5.91e-48 | 154 |
| Msa1184790 | MtrunA17_Chr7g0246561 | 35.000 | 180 | 85 | 8 | 4 | 174 | 1 | 157 | 4.06e-24 | 92.8 |
| Msa1184790 | MtrunA17_Chr8g0350211 | 34.783 | 184 | 103 | 6 | 4 | 179 | 1 | 175 | 1.95e-20 | 83.6 |
| Msa1184790 | MtrunA17_Chr8g0350191 | 33.152 | 184 | 106 | 6 | 4 | 179 | 1 | 175 | 1.04e-18 | 79.3 |
| Msa1184790 | MtrunA17_Chr8g0350201 | 33.152 | 184 | 106 | 6 | 4 | 179 | 1 | 175 | 4.43e-18 | 77.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 51 sgRNAs with CRISPR-Local
Find 59 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CAAAATGGAGTTATTCATTT+TGG | 0.202103 | 8_1:+20916144 | Msa1184790:CDS |
| AACTCTAATGGTGGTGTTAT+TGG | 0.227722 | 8_1:+20916279 | Msa1184790:CDS |
| AACACCACCATTAGAGTTCT+TGG | 0.255915 | 8_1:-20916274 | None:intergenic |
| CCTGGGTAATTCCACCTAAA+AGG | 0.262534 | 8_1:-20916306 | None:intergenic |
| TTCAAAAGTGTTCGTCCTAT+TGG | 0.279263 | 8_1:+20916024 | Msa1184790:CDS |
| AAAACTCGAGTTTCCTTTCA+TGG | 0.292723 | 8_1:+20915932 | Msa1184790:CDS |
| TCAAAAGTGTTCGTCCTATT+GGG | 0.298427 | 8_1:+20916025 | Msa1184790:CDS |
| GATTGGGAAGGGAGGCAAAA+TGG | 0.319629 | 8_1:+20916129 | Msa1184790:CDS |
| AGTTATGGTGATCGGTTAAC+AGG | 0.361407 | 8_1:+20916237 | Msa1184790:CDS |
| TGAGCTATAAATTGAGGGAT+TGG | 0.377003 | 8_1:+20916112 | Msa1184790:CDS |
| ATCGGTTATGGTGGCGGAAA+AGG | 0.379729 | 8_1:+20916194 | Msa1184790:CDS |
| GCGATTCTTGCCACCCCAAT+AGG | 0.384463 | 8_1:-20916039 | None:intergenic |
| GCCATTTCGGATATTCTAAA+CGG | 0.399199 | 8_1:+20916060 | Msa1184790:CDS |
| ATCATTATCTTTCACCGTCT+TGG | 0.400762 | 8_1:-20915899 | None:intergenic |
| ACAAATCTTTAAACAATGCC+TGG | 0.408723 | 8_1:-20916324 | None:intergenic |
| CCATTTCGGATATTCTAAAC+GGG | 0.419512 | 8_1:+20916061 | Msa1184790:CDS |
| GGTGGCAAGAATCGCCATTT+CGG | 0.422875 | 8_1:+20916047 | Msa1184790:CDS |
| TATTCTAAACGGGGATGAAT+CGG | 0.438967 | 8_1:+20916071 | Msa1184790:CDS |
| CCCGTTTAGAATATCCGAAA+TGG | 0.458083 | 8_1:-20916061 | None:intergenic |
| GAGCTATAAATTGAGGGATT+GGG | 0.461893 | 8_1:+20916113 | Msa1184790:CDS |
| GCCGGAGAAAACATCGGTTA+TGG | 0.476602 | 8_1:+20916182 | Msa1184790:CDS |
| CGGTTAACAGGAATTGATGT+TGG | 0.481111 | 8_1:+20916249 | Msa1184790:CDS |
| AAAATTTCTCATTCCATGAA+AGG | 0.495676 | 8_1:-20915945 | None:intergenic |
| CTCACGCACATTAGAAATAA+CGG | 0.501464 | 8_1:+20915798 | Msa1184790:CDS |
| TGGTGTAAGGGTGGTTGTGC+CGG | 0.517255 | 8_1:+20916164 | Msa1184790:CDS |
| GTGAAAGATAATGATGATTG+TGG | 0.518541 | 8_1:+20915907 | Msa1184790:CDS |
| TTAGAAATAACGGTTATATC+CGG | 0.522816 | 8_1:+20915808 | Msa1184790:CDS |
| TGCAAGGTCAATCACGTTTG+AGG | 0.523501 | 8_1:+20915987 | Msa1184790:CDS |
| ATGGCGGATGGAAAGAGTTA+TGG | 0.523652 | 8_1:+20916222 | Msa1184790:CDS |
| GTTGGTACCAAGAACTCTAA+TGG | 0.534197 | 8_1:+20916267 | Msa1184790:CDS |
| GATGCATACGTTGTTGTTCG+AGG | 0.534726 | 8_1:+20915853 | Msa1184790:CDS |
| GAAAACATCGGTTATGGTGG+CGG | 0.556876 | 8_1:+20916188 | Msa1184790:CDS |
| CAAATCTTTAAACAATGCCT+GGG | 0.558166 | 8_1:-20916323 | None:intergenic |
| TGAAAGATAATGATGATTGT+GGG | 0.561848 | 8_1:+20915908 | Msa1184790:CDS |
| CAAAAGTGTTCGTCCTATTG+GGG | 0.562181 | 8_1:+20916026 | Msa1184790:CDS |
| TGAACATGCCATTGCATGCA+AGG | 0.566598 | 8_1:+20915971 | Msa1184790:CDS |
| AATTGAGGGATTGGGAAGGG+AGG | 0.569326 | 8_1:+20916121 | Msa1184790:CDS |
| TATAAATTGAGGGATTGGGA+AGG | 0.574296 | 8_1:+20916117 | Msa1184790:CDS |
| ATAAATTGAGGGATTGGGAA+GGG | 0.579919 | 8_1:+20916118 | Msa1184790:CDS |
| ATGGAAAGAGTTATGGTGAT+CGG | 0.595704 | 8_1:+20916229 | Msa1184790:CDS |
| GAAAAGGAAACAATGGCGGA+TGG | 0.603995 | 8_1:+20916210 | Msa1184790:CDS |
| GGAGAAAACATCGGTTATGG+TGG | 0.616574 | 8_1:+20916185 | Msa1184790:CDS |
| GTGATTGACCTTGCATGCAA+TGG | 0.618595 | 8_1:-20915979 | None:intergenic |
| TGAAAATATTCATGTAACTG+AGG | 0.625588 | 8_1:+20915831 | Msa1184790:CDS |
| AAGTGTTCGTCCTATTGGGG+TGG | 0.646267 | 8_1:+20916029 | Msa1184790:CDS |
| GGTGGCGGAAAAGGAAACAA+TGG | 0.648381 | 8_1:+20916203 | Msa1184790:CDS |
| GGTTGTGCCGGAGAAAACAT+CGG | 0.667699 | 8_1:+20916176 | Msa1184790:CDS |
| CATTTCGGATATTCTAAACG+GGG | 0.670844 | 8_1:+20916062 | Msa1184790:CDS |
| GGCGGAAAAGGAAACAATGG+CGG | 0.684895 | 8_1:+20916206 | Msa1184790:CDS |
| TACTTGTTACACGACCAAGA+CGG | 0.705041 | 8_1:+20915885 | Msa1184790:CDS |
| GGTACCAAGAACTCTAATGG+TGG | 0.759836 | 8_1:+20916270 | Msa1184790:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AATTTTGAGCTATAAATTGA+GGG | + | chr8_1:20916107-20916126 | Msa1184790:CDS | 20.0% |
| ! | TTAGAAATAACGGTTATATC+CGG | + | chr8_1:20915808-20915827 | Msa1184790:CDS | 25.0% |
| !! | AGTTACATGAATATTTTCAC+CGG | - | chr8_1:20915830-20915849 | None:intergenic | 25.0% |
| ! | TGAAAATATTCATGTAACTG+AGG | + | chr8_1:20915831-20915850 | Msa1184790:CDS | 25.0% |
| ! | TGAAAGATAATGATGATTGT+GGG | + | chr8_1:20915908-20915927 | Msa1184790:CDS | 25.0% |
| ! | AAAATTTCTCATTCCATGAA+AGG | - | chr8_1:20915948-20915967 | None:intergenic | 25.0% |
| !! | GAATTTTGAGCTATAAATTG+AGG | + | chr8_1:20916106-20916125 | Msa1184790:CDS | 25.0% |
| !! | CAAAATGGAGTTATTCATTT+TGG | + | chr8_1:20916144-20916163 | Msa1184790:CDS | 25.0% |
| !!! | AGTTATTCATTTTGGTGTAA+GGG | + | chr8_1:20916152-20916171 | Msa1184790:CDS | 25.0% |
| GTGAAAGATAATGATGATTG+TGG | + | chr8_1:20915907-20915926 | Msa1184790:CDS | 30.0% | |
| !! | GAGTTATTCATTTTGGTGTA+AGG | + | chr8_1:20916151-20916170 | Msa1184790:CDS | 30.0% |
| !! | GTGTTATTGGTATTCCTTTT+AGG | + | chr8_1:20916292-20916311 | Msa1184790:CDS | 30.0% |
| ! | TTATTGGTATTCCTTTTAGG+TGG | + | chr8_1:20916295-20916314 | Msa1184790:CDS | 30.0% |
| CTCACGCACATTAGAAATAA+CGG | + | chr8_1:20915798-20915817 | Msa1184790:CDS | 35.0% | |
| ATCATTATCTTTCACCGTCT+TGG | - | chr8_1:20915902-20915921 | None:intergenic | 35.0% | |
| AAAACTCGAGTTTCCTTTCA+TGG | + | chr8_1:20915932-20915951 | Msa1184790:CDS | 35.0% | |
| !! | TTCAAAAGTGTTCGTCCTAT+TGG | + | chr8_1:20916024-20916043 | Msa1184790:CDS | 35.0% |
| !! | TCAAAAGTGTTCGTCCTATT+GGG | + | chr8_1:20916025-20916044 | Msa1184790:CDS | 35.0% |
| GCCATTTCGGATATTCTAAA+CGG | + | chr8_1:20916060-20916079 | Msa1184790:CDS | 35.0% | |
| CCATTTCGGATATTCTAAAC+GGG | + | chr8_1:20916061-20916080 | Msa1184790:CDS | 35.0% | |
| CATTTCGGATATTCTAAACG+GGG | + | chr8_1:20916062-20916081 | Msa1184790:CDS | 35.0% | |
| TATTCTAAACGGGGATGAAT+CGG | + | chr8_1:20916071-20916090 | Msa1184790:CDS | 35.0% | |
| TGAGCTATAAATTGAGGGAT+TGG | + | chr8_1:20916112-20916131 | Msa1184790:CDS | 35.0% | |
| GAGCTATAAATTGAGGGATT+GGG | + | chr8_1:20916113-20916132 | Msa1184790:CDS | 35.0% | |
| TATAAATTGAGGGATTGGGA+AGG | + | chr8_1:20916117-20916136 | Msa1184790:CDS | 35.0% | |
| ATAAATTGAGGGATTGGGAA+GGG | + | chr8_1:20916118-20916137 | Msa1184790:CDS | 35.0% | |
| !! | TATTCATTTTGGTGTAAGGG+TGG | + | chr8_1:20916155-20916174 | Msa1184790:CDS | 35.0% |
| ATGGAAAGAGTTATGGTGAT+CGG | + | chr8_1:20916229-20916248 | Msa1184790:CDS | 35.0% | |
| !! | AACTCTAATGGTGGTGTTAT+TGG | + | chr8_1:20916279-20916298 | Msa1184790:CDS | 35.0% |
| ! | TACTTGTTACACGACCAAGA+CGG | + | chr8_1:20915885-20915904 | Msa1184790:CDS | 40.0% |
| !! | CAAAAGTGTTCGTCCTATTG+GGG | + | chr8_1:20916026-20916045 | Msa1184790:CDS | 40.0% |
| ! | CCCGTTTAGAATATCCGAAA+TGG | - | chr8_1:20916064-20916083 | None:intergenic | 40.0% |
| ! | ACCATAACCGATGTTTTCTC+CGG | - | chr8_1:20916186-20916205 | None:intergenic | 40.0% |
| AGTTATGGTGATCGGTTAAC+AGG | + | chr8_1:20916237-20916256 | Msa1184790:CDS | 40.0% | |
| CGGTTAACAGGAATTGATGT+TGG | + | chr8_1:20916249-20916268 | Msa1184790:CDS | 40.0% | |
| GTTGGTACCAAGAACTCTAA+TGG | + | chr8_1:20916267-20916286 | Msa1184790:CDS | 40.0% | |
| AACACCACCATTAGAGTTCT+TGG | - | chr8_1:20916277-20916296 | None:intergenic | 40.0% | |
| ! | GATGCATACGTTGTTGTTCG+AGG | + | chr8_1:20915853-20915872 | Msa1184790:CDS | 45.0% |
| TGAACATGCCATTGCATGCA+AGG | + | chr8_1:20915971-20915990 | Msa1184790:CDS | 45.0% | |
| GTGATTGACCTTGCATGCAA+TGG | - | chr8_1:20915982-20916001 | None:intergenic | 45.0% | |
| TGCAAGGTCAATCACGTTTG+AGG | + | chr8_1:20915987-20916006 | Msa1184790:CDS | 45.0% | |
| ! | GGAGAAAACATCGGTTATGG+TGG | + | chr8_1:20916185-20916204 | Msa1184790:CDS | 45.0% |
| ! | GAAAACATCGGTTATGGTGG+CGG | + | chr8_1:20916188-20916207 | Msa1184790:CDS | 45.0% |
| ! | GAAAAGGAAACAATGGCGGA+TGG | + | chr8_1:20916210-20916229 | Msa1184790:CDS | 45.0% |
| !! | ATGGCGGATGGAAAGAGTTA+TGG | + | chr8_1:20916222-20916241 | Msa1184790:CDS | 45.0% |
| GGTACCAAGAACTCTAATGG+TGG | + | chr8_1:20916270-20916289 | Msa1184790:CDS | 45.0% | |
| CCTGGGTAATTCCACCTAAA+AGG | - | chr8_1:20916309-20916328 | None:intergenic | 45.0% | |
| !! | CCTTTTAGGTGGAATTACCC+AGG | + | chr8_1:20916306-20916325 | Msa1184790:CDS | 45.0% |
| AAGTGTTCGTCCTATTGGGG+TGG | + | chr8_1:20916029-20916048 | Msa1184790:CDS | 50.0% | |
| GGTGGCAAGAATCGCCATTT+CGG | + | chr8_1:20916047-20916066 | Msa1184790:CDS | 50.0% | |
| AATTGAGGGATTGGGAAGGG+AGG | + | chr8_1:20916121-20916140 | Msa1184790:CDS | 50.0% | |
| GATTGGGAAGGGAGGCAAAA+TGG | + | chr8_1:20916129-20916148 | Msa1184790:CDS | 50.0% | |
| GGTTGTGCCGGAGAAAACAT+CGG | + | chr8_1:20916176-20916195 | Msa1184790:CDS | 50.0% | |
| ! | GCCGGAGAAAACATCGGTTA+TGG | + | chr8_1:20916182-20916201 | Msa1184790:CDS | 50.0% |
| !! | ATCGGTTATGGTGGCGGAAA+AGG | + | chr8_1:20916194-20916213 | Msa1184790:CDS | 50.0% |
| !! | GGTGGCGGAAAAGGAAACAA+TGG | + | chr8_1:20916203-20916222 | Msa1184790:CDS | 50.0% |
| GGCGGAAAAGGAAACAATGG+CGG | + | chr8_1:20916206-20916225 | Msa1184790:CDS | 50.0% | |
| GCGATTCTTGCCACCCCAAT+AGG | - | chr8_1:20916042-20916061 | None:intergenic | 55.0% | |
| TGGTGTAAGGGTGGTTGTGC+CGG | + | chr8_1:20916164-20916183 | Msa1184790:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_1 | gene | 20915787 | 20916338 | 20915787 | ID=Msa1184790;Name=Msa1184790 |
| chr8_1 | mRNA | 20915787 | 20916338 | 20915787 | ID=Msa1184790-mRNA-1;Parent=Msa1184790;Name=Msa1184790-mRNA-1;_AED=0.35;_eAED=0.36;_QI=0|-1|0|1|-1|1|1|0|183 |
| chr8_1 | exon | 20915787 | 20916338 | 20915787 | ID=Msa1184790-mRNA-1:exon:7964;Parent=Msa1184790-mRNA-1 |
| chr8_1 | CDS | 20915787 | 20916338 | 20915787 | ID=Msa1184790-mRNA-1:cds;Parent=Msa1184790-mRNA-1 |
| Gene Sequence |
| Protein sequence |
