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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1232730 | XP_013444307.1 | 97.222 | 180 | 5 | 0 | 1 | 180 | 1 | 180 | 1.08e-121 | 351 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1232730 | sp|Q9C889|PR1F2_ARATH | 49.724 | 181 | 88 | 1 | 3 | 180 | 2 | 182 | 1.11e-61 | 192 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1232730 | A0A072TLG1 | 97.222 | 180 | 5 | 0 | 1 | 180 | 1 | 180 | 5.14e-122 | 351 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0739580 | Msa1232730 | 0.806299 | 8.800871e-50 | -8.615850e-47 |
| Msa0828830 | Msa1232730 | 0.803627 | 3.185622e-49 | -8.615850e-47 |
| Msa1232730 | Msa1305510 | 0.810848 | 9.398224e-51 | -8.615850e-47 |
| Msa1232730 | Msa1307190 | 0.802938 | 4.423545e-49 | -8.615850e-47 |
| Msa1232730 | Msa1379970 | 0.815243 | 1.021470e-51 | -8.615850e-47 |
| Msa1232730 | Msa1420060 | 0.801215 | 1.000214e-48 | -8.615850e-47 |
| Msa1232730 | Msa1421550 | 0.823869 | 1.097882e-53 | -8.615850e-47 |
| Msa1232730 | Msa1431850 | 0.803824 | 2.899091e-49 | -8.615850e-47 |
| Msa1232730 | Msa1437710 | 0.812175 | 4.839740e-51 | -8.615850e-47 |
| Msa1232730 | Msa1449940 | 0.809422 | 1.906801e-50 | -8.615850e-47 |
| Msa0406000 | Msa1232730 | 0.811705 | 6.126292e-51 | -8.615850e-47 |
| Msa0451400 | Msa1232730 | 0.818216 | 2.200159e-52 | -8.615850e-47 |
| Msa0999300 | Msa1232730 | 0.807903 | 4.026412e-50 | -8.615850e-47 |
| Msa1037770 | Msa1232730 | 0.822026 | 2.951652e-53 | -8.615850e-47 |
| Msa1037900 | Msa1232730 | 0.816773 | 4.651217e-52 | -8.615850e-47 |
| Msa1037910 | Msa1232730 | 0.807311 | 5.378008e-50 | -8.615850e-47 |
| Msa0329620 | Msa1232730 | 0.813013 | 3.173619e-51 | -8.615850e-47 |
| Msa0359250 | Msa1232730 | 0.809298 | 2.027229e-50 | -8.615850e-47 |
| Msa1129960 | Msa1232730 | 0.800091 | 1.695800e-48 | -8.615850e-47 |
| Msa1129970 | Msa1232730 | 0.800366 | 1.491017e-48 | -8.615850e-47 |
| Msa1176160 | Msa1232730 | 0.819422 | 1.170976e-52 | -8.615850e-47 |
| Msa0867350 | Msa1232730 | 0.806226 | 9.115775e-50 | -8.615850e-47 |
| Msa0898730 | Msa1232730 | 0.816450 | 5.494601e-52 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1232730 | MtrunA17_Chr8g0341921 | 97.222 | 180 | 5 | 0 | 1 | 180 | 1 | 180 | 9.91e-126 | 351 |
| Msa1232730 | MtrunA17_Chr2g0330451 | 60.465 | 172 | 66 | 1 | 3 | 172 | 2 | 173 | 3.56e-60 | 185 |
| Msa1232730 | MtrunA17_Chr2g0330441 | 50.829 | 181 | 82 | 3 | 1 | 175 | 1 | 180 | 1.38e-58 | 181 |
| Msa1232730 | MtrunA17_Chr6g0488551 | 42.938 | 177 | 98 | 1 | 3 | 176 | 2 | 178 | 1.35e-48 | 156 |
| Msa1232730 | MtrunA17_Chr7g0260751 | 45.912 | 159 | 83 | 2 | 14 | 172 | 21 | 176 | 1.15e-46 | 151 |
| Msa1232730 | MtrunA17_Chr1g0184741 | 39.053 | 169 | 95 | 1 | 4 | 172 | 9 | 169 | 5.54e-35 | 121 |
| Msa1232730 | MtrunA17_Chr1g0190601 | 41.477 | 176 | 98 | 2 | 5 | 180 | 10 | 180 | 2.77e-33 | 117 |
| Msa1232730 | MtrunA17_Chr5g0437751 | 35.465 | 172 | 109 | 1 | 3 | 172 | 20 | 191 | 5.91e-33 | 117 |
| Msa1232730 | MtrunA17_Chr4g0005191 | 36.538 | 156 | 97 | 1 | 20 | 173 | 45 | 200 | 3.88e-31 | 112 |
| Msa1232730 | MtrunA17_Chr1g0187861 | 34.343 | 99 | 63 | 1 | 18 | 114 | 6 | 104 | 3.30e-17 | 75.1 |
| Msa1232730 | MtrunA17_Chr3g0106401 | 36.879 | 141 | 87 | 1 | 34 | 172 | 28 | 168 | 1.72e-13 | 65.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1232730 | AT1G55190.1 | 49.724 | 181 | 88 | 1 | 3 | 180 | 2 | 182 | 1.13e-62 | 192 |
| Msa1232730 | AT3G13720.1 | 52.907 | 172 | 78 | 1 | 3 | 171 | 2 | 173 | 2.66e-57 | 178 |
| Msa1232730 | AT3G13710.1 | 49.133 | 173 | 86 | 1 | 1 | 171 | 1 | 173 | 4.54e-56 | 175 |
| Msa1232730 | AT1G17700.1 | 48.315 | 178 | 89 | 2 | 3 | 177 | 2 | 179 | 7.77e-51 | 162 |
| Msa1232730 | AT1G08770.1 | 40.523 | 153 | 89 | 1 | 22 | 172 | 35 | 187 | 2.87e-37 | 128 |
| Msa1232730 | AT2G38360.1 | 36.420 | 162 | 101 | 1 | 13 | 172 | 33 | 194 | 3.22e-36 | 125 |
| Msa1232730 | AT5G01640.1 | 34.969 | 163 | 103 | 2 | 14 | 173 | 33 | 195 | 5.82e-32 | 115 |
| Msa1232730 | AT4G29658.2 | 34.483 | 174 | 111 | 2 | 3 | 173 | 2 | 175 | 2.99e-31 | 112 |
| Msa1232730 | AT3G56110.3 | 33.333 | 162 | 106 | 1 | 13 | 172 | 23 | 184 | 2.61e-29 | 107 |
| Msa1232730 | AT3G56110.1 | 33.333 | 162 | 106 | 1 | 13 | 172 | 23 | 184 | 2.61e-29 | 107 |
| Msa1232730 | AT3G56110.2 | 33.333 | 162 | 106 | 1 | 13 | 172 | 23 | 184 | 2.61e-29 | 107 |
| Msa1232730 | AT3G56110.4 | 33.333 | 162 | 106 | 1 | 13 | 172 | 23 | 184 | 2.61e-29 | 107 |
| Msa1232730 | AT5G56230.1 | 30.286 | 175 | 111 | 2 | 11 | 174 | 2 | 176 | 1.19e-28 | 105 |
| Msa1232730 | AT1G04260.1 | 30.128 | 156 | 109 | 0 | 18 | 173 | 4 | 159 | 2.16e-28 | 104 |
| Msa1232730 | AT2G40380.1 | 36.170 | 141 | 88 | 1 | 34 | 172 | 46 | 186 | 2.32e-28 | 105 |
| Msa1232730 | AT5G07110.1 | 39.437 | 142 | 84 | 1 | 35 | 174 | 45 | 186 | 2.80e-28 | 105 |
| Msa1232730 | AT5G05380.1 | 35.185 | 162 | 103 | 1 | 13 | 172 | 26 | 187 | 4.82e-27 | 102 |
| Msa1232730 | AT5G05380.4 | 35.185 | 162 | 103 | 1 | 13 | 172 | 69 | 230 | 1.50e-26 | 102 |
| Msa1232730 | AT5G05380.3 | 35.185 | 162 | 103 | 1 | 13 | 172 | 77 | 238 | 1.72e-26 | 102 |
| Msa1232730 | AT5G05380.2 | 35.185 | 162 | 103 | 1 | 13 | 172 | 93 | 254 | 2.04e-26 | 102 |
| Msa1232730 | AT1G55640.1 | 27.950 | 161 | 115 | 1 | 18 | 177 | 21 | 181 | 1.65e-22 | 89.7 |
| Msa1232730 | AT4G29658.1 | 35.455 | 110 | 69 | 1 | 66 | 173 | 3 | 112 | 3.74e-16 | 71.2 |
| Msa1232730 | AT4G00005.1 | 34.653 | 101 | 64 | 1 | 56 | 154 | 1 | 101 | 6.21e-12 | 60.1 |
Find 40 sgRNAs with CRISPR-Local
Find 50 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACGAAAACAATGAGTGAATA+AGG | 0.257426 | 8_2:+9312408 | None:intergenic |
| GTGAATAAGGGTGCCATAAA+AGG | 0.298440 | 8_2:+9312421 | None:intergenic |
| CGTGTTATGTATTCAAGTTT+TGG | 0.333581 | 8_2:+9312621 | None:intergenic |
| TTTGGTGGCGTTGGTGAGGT+TGG | 0.357966 | 8_2:+9312639 | None:intergenic |
| CAACGAATCAAAGCCGGATT+AGG | 0.364781 | 8_2:-9312591 | Msa1232730:CDS |
| TTGGTGGCGTTGGTGAGGTT+GGG | 0.397666 | 8_2:+9312640 | None:intergenic |
| GACAGAGGATTTGTTCTTTG+AGG | 0.406735 | 8_2:-9312178 | Msa1232730:CDS |
| TGGCGGCACATGCTGTGTTT+AGG | 0.424545 | 8_2:-9312203 | Msa1232730:CDS |
| GGAAAACAATGTTCGATATC+CGG | 0.464592 | 8_2:-9312554 | Msa1232730:CDS |
| TACTGTTAATATTGTTGTTG+CGG | 0.469310 | 8_2:-9312247 | Msa1232730:CDS |
| TGTTCTCATGGCGTTTGTTA+CGG | 0.474724 | 8_2:-9312295 | Msa1232730:CDS |
| CGAAAACAATGAGTGAATAA+GGG | 0.479724 | 8_2:+9312409 | None:intergenic |
| TAGTGTTGCTATTGTGGTTG+TGG | 0.489877 | 8_2:-9312223 | Msa1232730:CDS |
| ACCATAATGGCAACAACCTA+CGG | 0.506383 | 8_2:-9312669 | None:intergenic |
| CGAACTCGAGATATTGCTTC+CGG | 0.509227 | 8_2:+9312507 | None:intergenic |
| GATTAGGAACTCGTCGGCCA+TGG | 0.509353 | 8_2:-9312575 | Msa1232730:CDS |
| CTACTTTCTTCGTGATCAGC+CGG | 0.512744 | 8_2:-9312358 | Msa1232730:CDS |
| TCGAATTGTGGTTGTTCTCA+TGG | 0.526841 | 8_2:-9312307 | Msa1232730:CDS |
| TGCGGTTAGTGTTGCTATTG+TGG | 0.530137 | 8_2:-9312229 | Msa1232730:CDS |
| TGAGGTTGGGATTGTGCCGT+AGG | 0.531965 | 8_2:+9312653 | None:intergenic |
| ATGTTCGATATCCGGTCACT+AGG | 0.539740 | 8_2:-9312546 | Msa1232730:CDS |
| TGGCCGACGAGTTCCTAATC+CGG | 0.541046 | 8_2:+9312578 | None:intergenic |
| AGGTATCCCCACCGGTGTAC+CGG | 0.543272 | 8_2:-9312526 | Msa1232730:CDS |
| ACTTGTTGATGATCGAATTG+TGG | 0.583908 | 8_2:-9312319 | Msa1232730:CDS |
| AGATATTGCTTCCGGTACAC+CGG | 0.587596 | 8_2:+9312515 | None:intergenic |
| TCTCATGGCGTTTGTTACGG+TGG | 0.590864 | 8_2:-9312292 | Msa1232730:CDS |
| GGCAAACAACGAATCAAAGC+CGG | 0.593585 | 8_2:-9312597 | Msa1232730:CDS |
| ATTGCTTCCGGTACACCGGT+GGG | 0.597015 | 8_2:+9312519 | None:intergenic |
| TATTGCTTCCGGTACACCGG+TGG | 0.601039 | 8_2:+9312518 | None:intergenic |
| TCGTTATCCTCATGGCGGCG+TGG | 0.601265 | 8_2:-9312389 | Msa1232730:CDS |
| AGTCGACCCCATAAAATCAC+CGG | 0.615391 | 8_2:+9312339 | None:intergenic |
| TGTTGCTATTGTGGTTGTGG+CGG | 0.651466 | 8_2:-9312220 | Msa1232730:CDS |
| TCACCATTGTGTAGTTCATG+CGG | 0.653293 | 8_2:+9312466 | None:intergenic |
| AAGCCGGATTAGGAACTCGT+CGG | 0.672621 | 8_2:-9312581 | Msa1232730:CDS |
| AGAACAACCACGCCGCCATG+AGG | 0.675722 | 8_2:+9312382 | None:intergenic |
| TGCTGTGTTTAGGAAGACAG+AGG | 0.677357 | 8_2:-9312193 | Msa1232730:CDS |
| CGGTCACTAGGTATCCCCAC+CGG | 0.689635 | 8_2:-9312534 | Msa1232730:CDS |
| CTTCCGCATGAACTACACAA+TGG | 0.694491 | 8_2:-9312469 | Msa1232730:CDS |
| TTGCTTCCGGTACACCGGTG+GGG | 0.696070 | 8_2:+9312520 | None:intergenic |
| AAACTTGAATACATAACACG+TGG | 0.716753 | 8_2:-9312618 | Msa1232730:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TACTGTTAATATTGTTGTTG+CGG | - | chr8_2:9312559-9312578 | Msa1232730:CDS | 25.0% |
| !! | GTTATGTATTCAAGTTTTGG+TGG | + | chr8_2:9312185-9312204 | None:intergenic | 30.0% |
| !! | CGTGTTATGTATTCAAGTTT+TGG | + | chr8_2:9312188-9312207 | None:intergenic | 30.0% |
| AAACTTGAATACATAACACG+TGG | - | chr8_2:9312188-9312207 | Msa1232730:CDS | 30.0% | |
| ! | ATATCGAACATTGTTTTCCA+TGG | + | chr8_2:9312251-9312270 | None:intergenic | 30.0% |
| !!! | TTTTGTTTCTGAGCCTTTTA+TGG | - | chr8_2:9312372-9312391 | Msa1232730:CDS | 30.0% |
| CGAAAACAATGAGTGAATAA+GGG | + | chr8_2:9312400-9312419 | None:intergenic | 30.0% | |
| ACGAAAACAATGAGTGAATA+AGG | + | chr8_2:9312401-9312420 | None:intergenic | 30.0% | |
| GGAAAACAATGTTCGATATC+CGG | - | chr8_2:9312252-9312271 | Msa1232730:CDS | 35.0% | |
| ! | CATTGTTTTCGTTATCCTCA+TGG | - | chr8_2:9312409-9312428 | Msa1232730:CDS | 35.0% |
| !! | ACTTGTTGATGATCGAATTG+TGG | - | chr8_2:9312487-9312506 | Msa1232730:CDS | 35.0% |
| !!! | TATTCAAGTTTTGGTGGCGT+TGG | + | chr8_2:9312179-9312198 | None:intergenic | 40.0% |
| TCACCATTGTGTAGTTCATG+CGG | + | chr8_2:9312343-9312362 | None:intergenic | 40.0% | |
| !! | GTGAATAAGGGTGCCATAAA+AGG | + | chr8_2:9312388-9312407 | None:intergenic | 40.0% |
| ! | TGTTTTCGTTATCCTCATGG+CGG | - | chr8_2:9312412-9312431 | Msa1232730:CDS | 40.0% |
| ! | TGATCAGCCGGTGATTTTAT+GGG | - | chr8_2:9312460-9312479 | Msa1232730:CDS | 40.0% |
| TCGAATTGTGGTTGTTCTCA+TGG | - | chr8_2:9312499-9312518 | Msa1232730:CDS | 40.0% | |
| ! | TGTTCTCATGGCGTTTGTTA+CGG | - | chr8_2:9312511-9312530 | Msa1232730:CDS | 40.0% |
| ! | TAGTGTTGCTATTGTGGTTG+TGG | - | chr8_2:9312583-9312602 | Msa1232730:CDS | 40.0% |
| ! | GACAGAGGATTTGTTCTTTG+AGG | - | chr8_2:9312628-9312647 | Msa1232730:CDS | 40.0% |
| GGCAAACAACGAATCAAAGC+CGG | - | chr8_2:9312209-9312228 | Msa1232730:CDS | 45.0% | |
| CAACGAATCAAAGCCGGATT+AGG | - | chr8_2:9312215-9312234 | Msa1232730:CDS | 45.0% | |
| ATGTTCGATATCCGGTCACT+AGG | - | chr8_2:9312260-9312279 | Msa1232730:CDS | 45.0% | |
| AGATATTGCTTCCGGTACAC+CGG | + | chr8_2:9312294-9312313 | None:intergenic | 45.0% | |
| CGAACTCGAGATATTGCTTC+CGG | + | chr8_2:9312302-9312321 | None:intergenic | 45.0% | |
| CTTCCGCATGAACTACACAA+TGG | - | chr8_2:9312337-9312356 | Msa1232730:CDS | 45.0% | |
| CTACTTTCTTCGTGATCAGC+CGG | - | chr8_2:9312448-9312467 | Msa1232730:CDS | 45.0% | |
| ! | GTGATCAGCCGGTGATTTTA+TGG | - | chr8_2:9312459-9312478 | Msa1232730:CDS | 45.0% |
| ! | GATCAGCCGGTGATTTTATG+GGG | - | chr8_2:9312461-9312480 | Msa1232730:CDS | 45.0% |
| AGTCGACCCCATAAAATCAC+CGG | + | chr8_2:9312470-9312489 | None:intergenic | 45.0% | |
| ! | TGCGGTTAGTGTTGCTATTG+TGG | - | chr8_2:9312577-9312596 | Msa1232730:CDS | 45.0% |
| ! | TGTTGCTATTGTGGTTGTGG+CGG | - | chr8_2:9312586-9312605 | Msa1232730:CDS | 45.0% |
| TGCTGTGTTTAGGAAGACAG+AGG | - | chr8_2:9312613-9312632 | Msa1232730:CDS | 45.0% | |
| !!! | AAGTTTTGGTGGCGTTGGTG+AGG | + | chr8_2:9312174-9312193 | None:intergenic | 50.0% |
| ! | AAGCCGGATTAGGAACTCGT+CGG | - | chr8_2:9312225-9312244 | Msa1232730:CDS | 50.0% |
| ! | TCTCATGGCGTTTGTTACGG+TGG | - | chr8_2:9312514-9312533 | Msa1232730:CDS | 50.0% |
| TGAGGTTGGGATTGTGCCGT+AGG | + | chr8_2:9312156-9312175 | None:intergenic | 55.0% | |
| !! | TTGGTGGCGTTGGTGAGGTT+GGG | + | chr8_2:9312169-9312188 | None:intergenic | 55.0% |
| !! | TTTGGTGGCGTTGGTGAGGT+TGG | + | chr8_2:9312170-9312189 | None:intergenic | 55.0% |
| TGGCCGACGAGTTCCTAATC+CGG | + | chr8_2:9312231-9312250 | None:intergenic | 55.0% | |
| GATTAGGAACTCGTCGGCCA+TGG | - | chr8_2:9312231-9312250 | Msa1232730:CDS | 55.0% | |
| ATTGCTTCCGGTACACCGGT+GGG | + | chr8_2:9312290-9312309 | None:intergenic | 55.0% | |
| TATTGCTTCCGGTACACCGG+TGG | + | chr8_2:9312291-9312310 | None:intergenic | 55.0% | |
| TGGCGGCACATGCTGTGTTT+AGG | - | chr8_2:9312603-9312622 | Msa1232730:CDS | 55.0% | |
| CGGTGGGGATACCTAGTGAC+CGG | + | chr8_2:9312274-9312293 | None:intergenic | 60.0% | |
| CGGTCACTAGGTATCCCCAC+CGG | - | chr8_2:9312272-9312291 | Msa1232730:CDS | 60.0% | |
| AGGTATCCCCACCGGTGTAC+CGG | - | chr8_2:9312280-9312299 | Msa1232730:CDS | 60.0% | |
| TTGCTTCCGGTACACCGGTG+GGG | + | chr8_2:9312289-9312308 | None:intergenic | 60.0% | |
| TCGTTATCCTCATGGCGGCG+TGG | - | chr8_2:9312417-9312436 | Msa1232730:CDS | 60.0% | |
| AGAACAACCACGCCGCCATG+AGG | + | chr8_2:9312427-9312446 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_2 | gene | 9312143 | 9312685 | 9312143 | ID=Msa1232730;Name=Msa1232730 |
| chr8_2 | mRNA | 9312143 | 9312685 | 9312143 | ID=Msa1232730-mRNA-1;Parent=Msa1232730;Name=Msa1232730-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|180 |
| chr8_2 | exon | 9312143 | 9312685 | 9312143 | ID=Msa1232730-mRNA-1:exon:3696;Parent=Msa1232730-mRNA-1 |
| chr8_2 | CDS | 9312143 | 9312685 | 9312143 | ID=Msa1232730-mRNA-1:cds;Parent=Msa1232730-mRNA-1 |
| Gene Sequence |
| Protein sequence |
