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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1228200 | XP_013443756.1 | 94.760 | 458 | 24 | 0 | 1 | 458 | 1 | 458 | 0.0 | 883 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1228200 | sp|Q9SD53|Y3720_ARATH | 28.539 | 445 | 263 | 13 | 18 | 442 | 37 | 446 | 4.32e-38 | 147 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000050 | Msa1228200 | 0.890127 | 1.304214e-73 | -8.615850e-47 |
| Msa0001940 | Msa1228200 | 0.871243 | 7.927916e-67 | -8.615850e-47 |
| Msa0001960 | Msa1228200 | 0.824922 | 6.208256e-54 | -8.615850e-47 |
| Msa0002580 | Msa1228200 | 0.867521 | 1.286866e-65 | -8.615850e-47 |
| Msa0003700 | Msa1228200 | 0.807638 | 4.582936e-50 | -8.615850e-47 |
| Msa0003720 | Msa1228200 | 0.813973 | 1.951511e-51 | -8.615850e-47 |
| Msa0003890 | Msa1228200 | 0.823069 | 1.688976e-53 | -8.615850e-47 |
| Msa0005890 | Msa1228200 | 0.841990 | 3.398119e-58 | -8.615850e-47 |
| Msa0006110 | Msa1228200 | 0.802097 | 6.595160e-49 | -8.615850e-47 |
| Msa0008670 | Msa1228200 | 0.810050 | 1.397534e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1228200 | MtrunA17_Chr8g0335021 | 94.760 | 458 | 24 | 0 | 1 | 458 | 1 | 458 | 0.0 | 883 |
| Msa1228200 | MtrunA17_Chr8g0335071 | 60.566 | 459 | 162 | 10 | 4 | 455 | 13 | 459 | 0.0 | 532 |
| Msa1228200 | MtrunA17_Chr8g0334971 | 53.097 | 452 | 193 | 6 | 8 | 455 | 8 | 444 | 1.12e-158 | 456 |
| Msa1228200 | MtrunA17_Chr8g0335061 | 50.873 | 458 | 205 | 7 | 1 | 454 | 1 | 442 | 3.16e-157 | 452 |
| Msa1228200 | MtrunA17_Chr8g0334951 | 47.865 | 445 | 198 | 10 | 9 | 449 | 11 | 425 | 5.06e-133 | 390 |
| Msa1228200 | MtrunA17_Chr8g0334911 | 48.993 | 447 | 194 | 11 | 8 | 449 | 9 | 426 | 2.68e-131 | 386 |
| Msa1228200 | MtrunA17_Chr8g0335011 | 45.233 | 493 | 210 | 13 | 9 | 455 | 19 | 497 | 4.79e-130 | 385 |
| Msa1228200 | MtrunA17_Chr4g0062011 | 85.271 | 129 | 18 | 1 | 151 | 279 | 3 | 130 | 9.49e-72 | 223 |
| Msa1228200 | MtrunA17_Chr6g0457371 | 36.386 | 415 | 211 | 15 | 28 | 438 | 26 | 391 | 9.11e-67 | 219 |
| Msa1228200 | MtrunA17_Chr6g0452551 | 33.790 | 438 | 225 | 14 | 19 | 441 | 10 | 397 | 5.74e-65 | 214 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1228200 | AT2G28580.6 | 30.455 | 440 | 251 | 11 | 25 | 446 | 39 | 441 | 2.43e-54 | 188 |
| Msa1228200 | AT2G28580.1 | 30.455 | 440 | 251 | 11 | 25 | 446 | 107 | 509 | 1.29e-53 | 188 |
| Msa1228200 | AT2G28580.2 | 30.455 | 440 | 251 | 11 | 25 | 446 | 121 | 523 | 1.94e-53 | 188 |
| Msa1228200 | AT4G31980.1 | 31.325 | 415 | 236 | 13 | 23 | 433 | 289 | 658 | 1.86e-52 | 187 |
| Msa1228200 | AT2G28580.5 | 29.698 | 431 | 249 | 10 | 25 | 446 | 107 | 492 | 1.14e-51 | 182 |
| Msa1228200 | AT2G28580.4 | 29.698 | 431 | 249 | 10 | 25 | 446 | 121 | 506 | 1.67e-51 | 182 |
| Msa1228200 | AT2G44930.1 | 29.047 | 451 | 250 | 13 | 25 | 447 | 82 | 490 | 8.09e-51 | 180 |
| Msa1228200 | AT2G36430.1 | 31.144 | 411 | 239 | 15 | 27 | 429 | 45 | 419 | 1.41e-50 | 178 |
| Msa1228200 | AT3G50120.1 | 27.434 | 452 | 269 | 11 | 20 | 444 | 96 | 515 | 2.67e-44 | 162 |
| Msa1228200 | AT1G67150.4 | 28.146 | 437 | 257 | 13 | 22 | 444 | 1 | 394 | 1.18e-43 | 158 |
Find 54 sgRNAs with CRISPR-Local
Find 142 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAATAAACAAACTTTAGCTT+TGG | 0.384668 | 8_2:+3686662 | Msa1228200:CDS |
| AAATCAGTGAAATGGTTGCA+AGG | 0.586489 | 8_2:-3687095 | None:intergenic |
| AACATAGGCTCAATGATTTC+TGG | 0.230505 | 8_2:-3686471 | None:intergenic |
| AACATTATATGGGAATGTTA+AGG | 0.469604 | 8_2:+3687666 | Msa1228200:CDS |
| AACTGGTGGAAACATTATAT+GGG | 0.515685 | 8_2:+3687656 | Msa1228200:CDS |
| AAGCAACAGAATGTGTTCTT+AGG | 0.348136 | 8_2:+3687387 | Msa1228200:CDS |
| AATTCCTCCAAAACAAACAT+AGG | 0.529945 | 8_2:-3686921 | None:intergenic |
| ACACCAAAGTTTATCTCAAT+TGG | 0.352179 | 8_2:+3686558 | Msa1228200:CDS |
| ACAGTTGAACTAACTCTCCA+AGG | 0.590172 | 8_2:-3687707 | None:intergenic |
| ACATGAAGATGTTGAGTTGT+TGG | 0.443426 | 8_2:+3687496 | Msa1228200:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ACACCAAAGTTTATCTCAAT+TGG | + | chr8_2:3686558-3686577 | Msa1228200:CDS | 30.0% | |
| TGTTTCTCTTGATTAAGTTC+TGG | - | chr8_2:3686603-3686622 | None:intergenic | 30.0% | |
| ATCAAGAGAAACAGAAACAA+AGG | + | chr8_2:3686610-3686629 | Msa1228200:CDS | 30.0% | |
| GGATTTACAAAATGACACAA+AGG | + | chr8_2:3686871-3686890 | Msa1228200:CDS | 30.0% | |
| AATTCCTCCAAAACAAACAT+AGG | - | chr8_2:3686924-3686943 | None:intergenic | 30.0% | |
| AGTACATATTCTGGTCTAAA+AGG | - | chr8_2:3687188-3687207 | None:intergenic | 30.0% | |
| GAAACATAGTTGCATATGAA+AGG | - | chr8_2:3687452-3687471 | None:intergenic | 30.0% | |
| TAACTGGTGGAAACATTATA+TGG | + | chr8_2:3687655-3687674 | Msa1228200:CDS | 30.0% | |
| AACTGGTGGAAACATTATAT+GGG | + | chr8_2:3687656-3687675 | Msa1228200:CDS | 30.0% | |
| TTATATGGGAATGTTAAGGT+CGG | + | chr8_2:3687670-3687689 | Msa1228200:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_2 | gene | 3686426 | 3687802 | 3686426 | ID=Msa1228200;Name=Msa1228200 |
| chr8_2 | mRNA | 3686426 | 3687802 | 3686426 | ID=Msa1228200-mRNA-1;Parent=Msa1228200;Name=Msa1228200-mRNA-1;_AED=0.10;_eAED=0.10;_QI=0|-1|0|1|-1|1|1|0|458 |
| chr8_2 | exon | 3686426 | 3687802 | 3686426 | ID=Msa1228200-mRNA-1:exon:1128;Parent=Msa1228200-mRNA-1 |
| chr8_2 | CDS | 3686426 | 3687802 | 3686426 | ID=Msa1228200-mRNA-1:cds;Parent=Msa1228200-mRNA-1 |
| Gene Sequence |
>Msa1228200 ATGGGTTCTGAAACTATACCACAGATTCAGCACATAATCAACATTCCAGAAATCATTGAGCCTATGTTACATGAAAAATGTTGCATTTACAAGGTTCCTCACCATCTCTTGAAGTTGAATGAAGATGCTTTTACACCAAAGTTTATCTCAATTGGTCCTTTTCATAGTCAGAATCCAGAACTTAATCAAGAGAAACAGAAACAAAGGTACTTTCATGCTTTTTGGAAACGTTTATCAAATAAACAAACTTTAGCTTTGGTACAATATAAAGCTTTTCTTGAAGAAAACACAGAAAATATTGCTAATTGTTATTCCAAACAAGAACTTTGCCAGGATGAGAAGTTTTTGGAAATGATTTTGTTAGACTCAGTTTTCATAATGGAGTTGTTTTTGAGAAAAGTTAATGAATCTGAACAGAAAAATGATTTCATGTTTACAACATCATGGATTTACAAAATGACACAAAGGGATTTGTTGCTGCTTGAAAATCAAATTCCTATGTTTGTTTTGGAGGAATTACACAGAGGGGTGTTATTAGCTGAAAAGAATGGTTGCAATAGCAATAAGGAAAATTCTGCTAGTTTTATTGATCTTGCTTTTAACTACTTTGAAGATTATTATCCTCAAAAGTTAACAAGTCAAAAATTGGAGTTGACTCAAAATTGCAAACCTTGCAACCATTTCACTGATTTGATTAGATATACTTATCTTCCAAGAGAAATTCAAGTTAAGGGTGTGAATCCATCAAAAAGTTTCACACCTTTTAGACCAGAATATGTACTAAGAACAGCTACAAAGTTGAGTGAAGCAGGTATTAGTTTCGAGAAAGTTCAAGGTAAAAGCTATTGTGACTTAAAGTTTAAGAAGACGCCGATTTTGAGCTGGTTTTTGTGCTTAGGTTGTGTACCATGTTTTAAATTTGTCGAATCTAAGTTACAAATCCCGCATTTGAATGTAGACCAAGCAACAGAATGTGTTCTTAGGAACCTAATCGCGTTCGAACAATGTCACTATTCAGACCAACCTTTCATATGCAACTATGTTTCTTTAATTGATTCTTTGATTCATACACATGAAGATGTTGAGTTGTTGGTTGACACAGAAATCATTAGCCATGAACTTGGAAGTCATGCAGAATTGGCAACATTGGTTAATGGTCTTTGCAAATATGTTGTGGTGACATCAAATTGTTATGGAAAGATCATTAAGGAAATGAATGAACATTATAATAACTGGTGGAAACATTATATGGGAATGTTAAGGTCGGTGTATTTTCGTGATCCTTGGAGAGTTAGTTCAACTGTTGTTGGAATTGCTATTTTCTTATTTGCTGCTGTCAATTTTCTTAGAGTTATTGGTGTATTTCGTTTGAAGTAG |
| Protein sequence |
>Msa1228200 MGSETIPQIQHIINIPEIIEPMLHEKCCIYKVPHHLLKLNEDAFTPKFISIGPFHSQNPELNQEKQKQRYFHAFWKRLSNKQTLALVQYKAFLEENTENIANCYSKQELCQDEKFLEMILLDSVFIMELFLRKVNESEQKNDFMFTTSWIYKMTQRDLLLLENQIPMFVLEELHRGVLLAEKNGCNSNKENSASFIDLAFNYFEDYYPQKLTSQKLELTQNCKPCNHFTDLIRYTYLPREIQVKGVNPSKSFTPFRPEYVLRTATKLSEAGISFEKVQGKSYCDLKFKKTPILSWFLCLGCVPCFKFVESKLQIPHLNVDQATECVLRNLIAFEQCHYSDQPFICNYVSLIDSLIHTHEDVELLVDTEIISHELGSHAELATLVNGLCKYVVVTSNCYGKIIKEMNEHYNNWWKHYMGMLRSVYFRDPWRVSSTVVGIAIFLFAAVNFLRVIGVFRLK* |
