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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0871080 | XP_003618445.1 | 77.500 | 400 | 85 | 2 | 1 | 399 | 1 | 396 | 0.0 | 615 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0871080 | sp|Q9SD53|Y3720_ARATH | 27.381 | 420 | 268 | 8 | 18 | 408 | 39 | 450 | 3.70e-43 | 160 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0220740 | Msa0871080 | 0.816921 | 4.309934e-52 | -8.615850e-47 |
| Msa0226250 | Msa0871080 | 0.810041 | 1.403606e-50 | -8.615850e-47 |
| Msa0258760 | Msa0871080 | 0.802904 | 4.495069e-49 | -8.615850e-47 |
| Msa0302580 | Msa0871080 | -0.809429 | 1.900382e-50 | -8.615850e-47 |
| Msa0392180 | Msa0871080 | 0.804866 | 1.758361e-49 | -8.615850e-47 |
| Msa0449760 | Msa0871080 | 0.802451 | 5.574780e-49 | -8.615850e-47 |
| Msa0536220 | Msa0871080 | 0.806915 | 6.522842e-50 | -8.615850e-47 |
| Msa0553460 | Msa0871080 | 0.806062 | 9.871205e-50 | -8.615850e-47 |
| Msa0564510 | Msa0871080 | 0.806145 | 9.483911e-50 | -8.615850e-47 |
| Msa0599770 | Msa0871080 | 0.808127 | 3.608651e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0871080 | MtrunA17_Chr6g0452501 | 77.500 | 400 | 85 | 2 | 1 | 399 | 1 | 396 | 0.0 | 615 |
| Msa0871080 | MtrunA17_Chr6g0452531 | 77.750 | 400 | 84 | 2 | 1 | 399 | 1 | 396 | 0.0 | 612 |
| Msa0871080 | MtrunA17_Chr6g0452601 | 74.334 | 413 | 101 | 1 | 1 | 408 | 1 | 413 | 0.0 | 606 |
| Msa0871080 | MtrunA17_Chr6g0452551 | 75.610 | 410 | 91 | 5 | 1 | 408 | 1 | 403 | 0.0 | 603 |
| Msa0871080 | MtrunA17_Chr6g0452561 | 73.810 | 420 | 98 | 3 | 1 | 408 | 1 | 420 | 0.0 | 602 |
| Msa0871080 | MtrunA17_Chr6g0452611 | 75.561 | 401 | 89 | 4 | 1 | 399 | 1 | 394 | 0.0 | 583 |
| Msa0871080 | MtrunA17_Chr6g0452591 | 68.238 | 403 | 119 | 3 | 9 | 408 | 39 | 435 | 0.0 | 544 |
| Msa0871080 | MtrunA17_Chr6g0452161 | 72.544 | 397 | 102 | 3 | 9 | 398 | 9 | 405 | 0.0 | 543 |
| Msa0871080 | MtrunA17_Chr6g0457371 | 71.250 | 400 | 105 | 3 | 1 | 399 | 1 | 391 | 0.0 | 542 |
| Msa0871080 | MtrunA17_Chr3g0138001 | 67.581 | 401 | 120 | 3 | 6 | 398 | 7 | 405 | 0.0 | 523 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0871080 | AT4G31980.1 | 39.173 | 411 | 229 | 8 | 6 | 408 | 275 | 672 | 2.58e-81 | 263 |
| Msa0871080 | AT5G11290.2 | 34.390 | 410 | 252 | 7 | 6 | 408 | 15 | 414 | 2.10e-73 | 236 |
| Msa0871080 | AT2G28580.5 | 33.253 | 415 | 216 | 11 | 25 | 408 | 109 | 493 | 6.98e-60 | 203 |
| Msa0871080 | AT2G28580.4 | 33.253 | 415 | 216 | 11 | 25 | 408 | 123 | 507 | 9.20e-60 | 203 |
| Msa0871080 | AT2G28580.6 | 32.706 | 425 | 222 | 12 | 25 | 408 | 41 | 442 | 3.29e-59 | 200 |
| Msa0871080 | AT2G28580.1 | 32.706 | 425 | 222 | 12 | 25 | 408 | 109 | 510 | 9.42e-59 | 201 |
| Msa0871080 | AT2G28580.2 | 32.706 | 425 | 222 | 12 | 25 | 408 | 123 | 524 | 1.37e-58 | 201 |
| Msa0871080 | AT3G50170.1 | 30.317 | 442 | 260 | 11 | 10 | 410 | 94 | 528 | 7.75e-57 | 196 |
| Msa0871080 | AT3G50140.1 | 29.748 | 437 | 269 | 9 | 8 | 410 | 96 | 528 | 2.11e-56 | 194 |
| Msa0871080 | AT3G50150.1 | 30.115 | 435 | 269 | 11 | 7 | 410 | 68 | 498 | 1.01e-55 | 192 |
Find 71 sgRNAs with CRISPR-Local
Find 186 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAGAAGGGATCGTAGTGTT+AGG | 0.432961 | 6_1:+5928498 | None:intergenic |
| AAGTAGTAAGATTCCAGCAA+TGG | 0.553678 | 6_1:+5927837 | None:intergenic |
| AATTCCTCGATTAAGAGTTC+AGG | 0.402982 | 6_1:-5928205 | Msa0871080:CDS |
| AATTGTTAGAAGCTGGAGTT+AGG | 0.400251 | 6_1:-5928290 | Msa0871080:CDS |
| ACAAGTTCATCATGAGAAAA+TGG | 0.306284 | 6_1:+5928711 | None:intergenic |
| ACTTGTTCAGAGGGAAATAC+TGG | 0.364801 | 6_1:-5928055 | Msa0871080:CDS |
| AGAATCTATGTAGCTAACCA+AGG | 0.676168 | 6_1:+5928773 | None:intergenic |
| ATAAGGGTGATATTAGTATA+AGG | 0.405612 | 6_1:-5928419 | Msa0871080:CDS |
| ATAAGTTGAAGGCTGCTCTC+AGG | 0.488978 | 6_1:-5927897 | Msa0871080:CDS |
| ATCAAAATTGGATTCCGATA+AGG | 0.379517 | 6_1:-5928436 | Msa0871080:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ACAAGTTCATCATGAGAAAA+TGG | + | chr6_1:5928098-5928117 | None:intergenic | 30.0% | |
| GTAGTGAGTTTAAGAAAAGA+AGG | + | chr6_1:5928326-5928345 | None:intergenic | 30.0% | |
| ATCAAAATTGGATTCCGATA+AGG | - | chr6_1:5928370-5928389 | Msa0871080:CDS | 30.0% | |
| TCAAAATTGGATTCCGATAA+GGG | - | chr6_1:5928371-5928390 | Msa0871080:CDS | 30.0% | |
| CAGATTCCGAAATAAAGTTT+CGG | + | chr6_1:5928633-5928652 | None:intergenic | 30.0% | |
| ACAAGTTCATCATGAGAAAA+TGG | + | chr6_1:5928098-5928117 | None:intergenic | 30.0% | |
| GTAGTGAGTTTAAGAAAAGA+AGG | + | chr6_1:5928326-5928345 | None:intergenic | 30.0% | |
| ATCAAAATTGGATTCCGATA+AGG | - | chr6_1:5928370-5928389 | Msa0871080:CDS | 30.0% | |
| TCAAAATTGGATTCCGATAA+GGG | - | chr6_1:5928371-5928390 | Msa0871080:CDS | 30.0% | |
| CAGATTCCGAAATAAAGTTT+CGG | + | chr6_1:5928633-5928652 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_1 | gene | 5927786 | 5929042 | 5927786 | ID=Msa0871080;Name=Msa0871080 |
| chr6_1 | mRNA | 5927786 | 5929042 | 5927786 | ID=Msa0871080-mRNA-1;Parent=Msa0871080;Name=Msa0871080-mRNA-1;_AED=0.06;_eAED=0.09;_QI=0|-1|0|1|-1|1|1|0|418 |
| chr6_1 | exon | 5927786 | 5929042 | 5927786 | ID=Msa0871080-mRNA-1:exon:1805;Parent=Msa0871080-mRNA-1 |
| chr6_1 | CDS | 5927786 | 5929042 | 5927786 | ID=Msa0871080-mRNA-1:cds;Parent=Msa0871080-mRNA-1 |
| Gene Sequence |
>Msa0871080 ATGTCATCCTTCCGCTTGGTGGATGATATCAAAGCGAAGCTCGACAGAGCAGAGCCACCTTCAACCGTTGACTGTTGCATTTACAAGGTCCCCTCTAAAATTCGCAAACTCAACGAAGACGCATACACCCCCAATGTCGTTTCCATTGGCCCCTTTCACCACAATCACCCCCAGCTCCAAAATATGGAAAGTCAGAAACTCATTCTCTTCAAAGTTTTTCTCCAACGAACCAACGCAAGTTTAAACACCTTGGTTAGCTACATAGATTCTATCTTACCTGATTTCAAACGCTGTTATTCTGAAACCTCACCATTTTCTCATGATGAACTTGTTCAGTTAATCTTAATCGATTCCTGTTTTATAATTCAACTTTTTCGGACATGTTATCATGGTGGGTTTCCCTTTAAACCTTGGTTAGCCAATGGTATAATAGAAGACTTATTGTTACTTGAAAATCAGCTTCCCTTTTTCGTTATTGAAAAAATTTACAGTCTTTCATTGAGTTCTACAAATGCTAGAGTTCCTAACACTACGATCCCTTCTTTTCTTAAACTCACTACTTATTATTTTGATTATTACAATAAATCAAAATTGGATTCCGATAAGGGTGATATTAGTATAAGGCACTTCACTGATCTGATTAGGATATTTCATTTGCAACATCCTATTGAAAGTCAGGCTATTAGGCACGAGTTCAACGAACTGGTGATACATCTACCGAGTGCAACTGAATTGTTAGAAGCTGGAGTTAGGTTTCAAGTGAACACTAAAAGTAAATGTTTACTTGACTTGAGGTTTTCGGGAGGAGTTCTTGAAATTCCTCGATTAAGAGTTCAGGATGATACCGAAACTTTATTTCGGAATCTGGTTGCTTTGGAGCAGTGTCATTACCCTGATAAGTCATATATTACTGATTATGTTTCTGTTTTGGATTACCTTATAAATACTGGTACGGATGCGGATATACTTGTTCAGAGGGAAATACTGGAAAATTTGCTTGGAGACAGTGATTCTGTAGCTAACTTGTTTAATGGTCTTTGCAAAAATGTTACTCATTGTAATATCAGTTCTCATTTCTCTAGTCTTTGCGAAGACTTGAATGCTTTTTGTAGGAATCCTAGGCATAAGTTGAAGGCTGCTCTCAGGCGTGATTATTGCAAAACTCCTTGGCAAACTGCTGCTTCCATTGCTGGAATCTTACTACTTGTTCTCACTTTACTTCATTATTTTGTCTATTATGTTGGATCGAAATTGTAA |
| Protein sequence |
>Msa0871080 MSSFRLVDDIKAKLDRAEPPSTVDCCIYKVPSKIRKLNEDAYTPNVVSIGPFHHNHPQLQNMESQKLILFKVFLQRTNASLNTLVSYIDSILPDFKRCYSETSPFSHDELVQLILIDSCFIIQLFRTCYHGGFPFKPWLANGIIEDLLLLENQLPFFVIEKIYSLSLSSTNARVPNTTIPSFLKLTTYYFDYYNKSKLDSDKGDISIRHFTDLIRIFHLQHPIESQAIRHEFNELVIHLPSATELLEAGVRFQVNTKSKCLLDLRFSGGVLEIPRLRVQDDTETLFRNLVALEQCHYPDKSYITDYVSVLDYLINTGTDADILVQREILENLLGDSDSVANLFNGLCKNVTHCNISSHFSSLCEDLNAFCRNPRHKLKAALRRDYCKTPWQTAASIAGILLLVLTLLHYFVYYVGSKL* |
