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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0712440 | XP_003611029.1 | 98.355 | 304 | 5 | 0 | 1 | 304 | 1 | 304 | 0.0 | 620 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0712440 | sp|Q40784|AAPC_CENCI | 65.753 | 292 | 98 | 1 | 15 | 304 | 24 | 315 | 2.17e-148 | 422 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000220 | Msa0712440 | 0.866528 | 2.669427e-65 | -8.615850e-47 |
| Msa0001460 | Msa0712440 | 0.814790 | 1.287358e-51 | -8.615850e-47 |
| Msa0005690 | Msa0712440 | 0.810282 | 1.245619e-50 | -8.615850e-47 |
| Msa0006050 | Msa0712440 | 0.807496 | 4.912382e-50 | -8.615850e-47 |
| Msa0006700 | Msa0712440 | 0.812324 | 4.490107e-51 | -8.615850e-47 |
| Msa0008250 | Msa0712440 | 0.812581 | 3.944635e-51 | -8.615850e-47 |
| Msa0012460 | Msa0712440 | 0.803608 | 3.214824e-49 | -8.615850e-47 |
| Msa0014790 | Msa0712440 | 0.831497 | 1.614411e-55 | -8.615850e-47 |
| Msa0015370 | Msa0712440 | 0.827012 | 1.978417e-54 | -8.615850e-47 |
| Msa0017420 | Msa0712440 | 0.804933 | 1.702930e-49 | -8.615850e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0712440 | MtrunA17_Chr5g0396951 | 98.355 | 304 | 5 | 0 | 1 | 304 | 1 | 304 | 0.0 | 620 |
| Msa0712440 | MtrunA17_Chr4g0049381 | 71.475 | 305 | 85 | 2 | 1 | 304 | 1 | 304 | 6.05e-165 | 461 |
| Msa0712440 | MtrunA17_Chr7g0275331 | 69.508 | 305 | 91 | 2 | 1 | 304 | 1 | 304 | 7.37e-165 | 461 |
| Msa0712440 | MtrunA17_Chr2g0298101 | 66.897 | 290 | 94 | 1 | 17 | 304 | 14 | 303 | 6.77e-152 | 428 |
| Msa0712440 | MtrunA17_Chr6g0449291 | 53.793 | 290 | 131 | 3 | 15 | 304 | 3 | 289 | 1.17e-114 | 333 |
| Msa0712440 | MtrunA17_Chr4g0000451 | 65.294 | 170 | 57 | 1 | 137 | 304 | 6 | 175 | 1.92e-79 | 239 |
| Msa0712440 | MtrunA17_Chr4g0000441 | 68.421 | 114 | 36 | 0 | 22 | 135 | 33 | 146 | 1.78e-55 | 177 |
| Msa0712440 | MtrunA17_Chr5g0404381 | 33.564 | 289 | 173 | 7 | 15 | 301 | 41 | 312 | 3.17e-43 | 150 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0712440 | AT4G23730.1 | 69.608 | 306 | 91 | 2 | 1 | 304 | 1 | 306 | 2.03e-165 | 462 |
| Msa0712440 | AT3G61610.1 | 74.138 | 290 | 74 | 1 | 16 | 304 | 15 | 304 | 3.51e-164 | 459 |
| Msa0712440 | AT3G61610.2 | 74.138 | 290 | 74 | 1 | 16 | 304 | 9 | 298 | 4.53e-164 | 459 |
| Msa0712440 | AT4G23730.3 | 68.269 | 312 | 91 | 3 | 1 | 304 | 1 | 312 | 9.86e-163 | 455 |
| Msa0712440 | AT4G23730.2 | 73.881 | 268 | 68 | 2 | 39 | 304 | 4 | 271 | 2.61e-154 | 432 |
| Msa0712440 | AT5G57330.1 | 67.354 | 291 | 93 | 1 | 16 | 304 | 9 | 299 | 1.57e-153 | 432 |
| Msa0712440 | AT3G01590.1 | 60.000 | 285 | 112 | 2 | 20 | 304 | 8 | 290 | 8.26e-130 | 372 |
| Msa0712440 | AT3G01590.2 | 60.000 | 285 | 112 | 2 | 20 | 304 | 8 | 290 | 8.26e-130 | 372 |
| Msa0712440 | AT5G14500.1 | 57.586 | 290 | 121 | 2 | 15 | 304 | 3 | 290 | 1.13e-129 | 371 |
| Msa0712440 | AT5G14500.2 | 53.016 | 315 | 121 | 3 | 15 | 304 | 3 | 315 | 1.68e-123 | 357 |
Find 131 sgRNAs with CRISPR-Local
Find 220 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAACAATAACCAATGCTTGA+TGG | 0.340522 | 5_1:+4282332 | None:intergenic |
| AAACAGTCACATAATAATGA+AGG | 0.533995 | 5_1:+4285040 | None:intergenic |
| AAACCGGGAGAAGAATGGAC+CGG | 0.609197 | 5_1:-4282435 | Msa0712440:CDS |
| AAAGGAGTATTTGTAGGAGT+TGG | 0.357575 | 5_1:+4282042 | None:intergenic |
| AAATCCGATAACCTTAAAAC+CGG | 0.461715 | 5_1:-4282451 | Msa0712440:CDS |
| AAATCCTCCACCACTGCCCA+CGG | 0.590093 | 5_1:-4283713 | Msa0712440:CDS |
| AACAGAAAGCTCCAAGCGGC+CGG | 0.541122 | 5_1:+4282416 | None:intergenic |
| AACATCAGTTGAAGTTATCA+AGG | 0.479030 | 5_1:-4284412 | Msa0712440:CDS |
| AACCTTAATAAAGCTTTAAA+TGG | 0.190531 | 5_1:+4285387 | None:intergenic |
| AACTGAATTATTAGGCCTAA+CGG | 0.567176 | 5_1:-4284812 | Msa0712440:five_prime_UTR |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AATCTGTAAACCGTTAGTTA+GGG | + | chr5_1:4282074-4282093 | None:intergenic | 30.0% | |
| TAATCTGTAAACCGTTAGTT+AGG | + | chr5_1:4282075-4282094 | None:intergenic | 30.0% | |
| AACTGAATTATTAGGCCTAA+CGG | - | chr5_1:4282757-4282776 | Msa0712440:CDS | 30.0% | |
| CACATATAGTTGGAAGAAAT+TGG | - | chr5_1:4282860-4282879 | Msa0712440:intron | 30.0% | |
| TCGTGAAGATTGAAAATGAA+AGG | + | chr5_1:4282886-4282905 | None:intergenic | 30.0% | |
| AACATCAGTTGAAGTTATCA+AGG | - | chr5_1:4283157-4283176 | Msa0712440:intron | 30.0% | |
| GAAGTTATCAAGGACAAAAA+TGG | - | chr5_1:4283167-4283186 | Msa0712440:intron | 30.0% | |
| AGCACCAATCAAATTCAAAA+GGG | + | chr5_1:4283287-4283306 | None:intergenic | 30.0% | |
| TAGCACCAATCAAATTCAAA+AGG | + | chr5_1:4283288-4283307 | None:intergenic | 30.0% | |
| CAAAAAAACCTCATTTACCT+TGG | + | chr5_1:4283405-4283424 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_1 | gene | 4282047 | 4285544 | 4282047 | ID=Msa0712440;Name=Msa0712440 |
| chr5_1 | mRNA | 4282047 | 4285544 | 4282047 | ID=Msa0712440-mRNA-1;Parent=Msa0712440;Name=Msa0712440-mRNA-1;_AED=0.14;_eAED=0.14;_QI=1075|1|1|1|1|1|8|354|304 |
| chr5_1 | exon | 4282047 | 4282570 | 4282047 | ID=Msa0712440-mRNA-1:exon:1696;Parent=Msa0712440-mRNA-1 |
| chr5_1 | exon | 4282712 | 4282811 | 4282712 | ID=Msa0712440-mRNA-1:exon:1695;Parent=Msa0712440-mRNA-1 |
| chr5_1 | exon | 4282920 | 4283022 | 4282920 | ID=Msa0712440-mRNA-1:exon:1694;Parent=Msa0712440-mRNA-1 |
| chr5_1 | exon | 4283208 | 4283342 | 4283208 | ID=Msa0712440-mRNA-1:exon:1693;Parent=Msa0712440-mRNA-1 |
| chr5_1 | exon | 4283640 | 4283800 | 4283640 | ID=Msa0712440-mRNA-1:exon:1692;Parent=Msa0712440-mRNA-1 |
| chr5_1 | exon | 4283898 | 4283954 | 4283898 | ID=Msa0712440-mRNA-1:exon:1691;Parent=Msa0712440-mRNA-1 |
| chr5_1 | exon | 4284185 | 4284259 | 4284185 | ID=Msa0712440-mRNA-1:exon:1690;Parent=Msa0712440-mRNA-1 |
| chr5_1 | exon | 4284356 | 4285544 | 4284356 | ID=Msa0712440-mRNA-1:exon:1689;Parent=Msa0712440-mRNA-1 |
| chr5_1 | five_prime_UTR | 4284470 | 4285544 | 4284470 | ID=Msa0712440-mRNA-1:five_prime_utr;Parent=Msa0712440-mRNA-1 |
| chr5_1 | CDS | 4284356 | 4284469 | 4284356 | ID=Msa0712440-mRNA-1:cds;Parent=Msa0712440-mRNA-1 |
| chr5_1 | CDS | 4284185 | 4284259 | 4284185 | ID=Msa0712440-mRNA-1:cds;Parent=Msa0712440-mRNA-1 |
| chr5_1 | CDS | 4283898 | 4283954 | 4283898 | ID=Msa0712440-mRNA-1:cds;Parent=Msa0712440-mRNA-1 |
| chr5_1 | CDS | 4283640 | 4283800 | 4283640 | ID=Msa0712440-mRNA-1:cds;Parent=Msa0712440-mRNA-1 |
| chr5_1 | CDS | 4283208 | 4283342 | 4283208 | ID=Msa0712440-mRNA-1:cds;Parent=Msa0712440-mRNA-1 |
| chr5_1 | CDS | 4282920 | 4283022 | 4282920 | ID=Msa0712440-mRNA-1:cds;Parent=Msa0712440-mRNA-1 |
| chr5_1 | CDS | 4282712 | 4282811 | 4282712 | ID=Msa0712440-mRNA-1:cds;Parent=Msa0712440-mRNA-1 |
| chr5_1 | CDS | 4282401 | 4282570 | 4282401 | ID=Msa0712440-mRNA-1:cds;Parent=Msa0712440-mRNA-1 |
| chr5_1 | three_prime_UTR | 4282047 | 4282400 | 4282047 | ID=Msa0712440-mRNA-1:three_prime_utr;Parent=Msa0712440-mRNA-1 |
| Gene Sequence |
>Msa0712440 ATGAATCATTCTGGAGCTGAAAGTGATCATAAAATAACATCAGTTGAAGTTATCAAGGACAAAAATGGAATAGAACAAGTTGTTCTTCGAAACGTTCGAGGAGCTTCAGCAACGGTTAGCTTGCACGGAGGGCAAGTTCTTTCATGGAAAACAGAACGCGGTGAAGAGTTATTGTTCACTAGTACCAAGGCCGTCTATACTCCTCCAAAACCAGTACGAGGAGGAATCCCAATCTGTTTTCCACAGTTTGGAAACCGTGGAACACTAGAGCAACATGGATTTGCAAGGAATAAGATATGGGTTATCGATCAAAATCCTCCACCACTGCCCACGGATTCAAATGGAAAAGCTTGCATCGACTTGCTGCTCAAACCATCTGAAGACGATATGAAGATATGGCCACATAGCTTCGAGTTTCGCCTAAGTGTCTGTTTGGCAGCAGATGGCCGTCTGAATATGATATCTCGCATCCGGAATGTCAATGGCAAGCCTTTCAGTTTCTCCTTTGCATTTCATACATATTTCTCCATATCAGATATCAGTGAAGTGAGGGTAGAAGGGTTGGAGACTCTTGACTACCTGGATAACCTATACCAGAAGGAACGCTTCACAGAACAAGGAGATGCTTTAACATTTGAATCTGAGGTGGATCGAGTTTATCTCAATTCTAGCAGTATGGTAGCCGTTCTAGATCATGAGAAGAAACGAACATTTGTGATACGAAAGGAAGGTCTTCCAGATGTTGTTGTTTGGAATCCCTGGGAGAAAAAATCAAAGTCAATAGTGGATTTTGGGGATGAAGAGTACAAGCAAATGCTCTGCGTGGATGGTGCAGCAGTTGGAAATCCGATAACCTTAAAACCGGGAGAAGAATGGACCGGCCGCTTGGAGCTTTCTGTTGTACCTTCTACTTGA |
| Protein sequence |
>Msa0712440 MNHSGAESDHKITSVEVIKDKNGIEQVVLRNVRGASATVSLHGGQVLSWKTERGEELLFTSTKAVYTPPKPVRGGIPICFPQFGNRGTLEQHGFARNKIWVIDQNPPPLPTDSNGKACIDLLLKPSEDDMKIWPHSFEFRLSVCLAADGRLNMISRIRNVNGKPFSFSFAFHTYFSISDISEVRVEGLETLDYLDNLYQKERFTEQGDALTFESEVDRVYLNSSSMVAVLDHEKKRTFVIRKEGLPDVVVWNPWEKKSKSIVDFGDEEYKQMLCVDGAAVGNPITLKPGEEWTGRLELSVVPST* |
