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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0020520 | XP_027348723.1 | 69.355 | 62 | 19 | 0 | 13 | 74 | 405 | 466 | 2.38e-18 | 88.6 |
| 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 |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0008850 | Msa0020520 | 0.811164 | 8.027326e-51 | -8.615850e-47 |
| Msa0011720 | Msa0020520 | 0.815124 | 1.085849e-51 | -8.615850e-47 |
| Msa0020520 | Msa0044710 | 0.807857 | 4.118252e-50 | -8.615850e-47 |
| Msa0020520 | Msa0055280 | 0.804908 | 1.723067e-49 | -8.615850e-47 |
| Msa0020520 | Msa0068410 | 0.818311 | 2.094780e-52 | -8.615850e-47 |
| Msa0020520 | Msa0094100 | 0.820851 | 5.511824e-53 | -8.615850e-47 |
| Msa0020520 | Msa0101060 | 0.807148 | 5.822981e-50 | -8.615850e-47 |
| Msa0020520 | Msa0104290 | 0.806894 | 6.588798e-50 | -8.615850e-47 |
| Msa0020520 | Msa0151690 | 0.813694 | 2.248678e-51 | -8.615850e-47 |
| Msa0020520 | Msa0162030 | 0.814051 | 1.875793e-51 | -8.615850e-47 |
| Msa0020520 | Msa0162050 | 0.807115 | 5.916470e-50 | -8.615850e-47 |
| Msa0020520 | Msa0168100 | 0.801752 | 7.763083e-49 | -8.615850e-47 |
| Msa0020520 | Msa0182930 | 0.802496 | 5.456553e-49 | -8.615850e-47 |
| Msa0020520 | Msa0183610 | 0.805014 | 1.637594e-49 | -8.615850e-47 |
| Msa0020520 | Msa0193760 | 0.801769 | 7.702765e-49 | -8.615850e-47 |
| Msa0020520 | Msa0199730 | 0.808344 | 3.243536e-50 | -8.615850e-47 |
| Msa0020520 | Msa0208630 | 0.815834 | 7.544579e-52 | -8.615850e-47 |
| Msa0020520 | Msa0240780 | 0.806365 | 8.523008e-50 | -8.615850e-47 |
| Msa0020520 | Msa0265820 | 0.820116 | 8.129222e-53 | -8.615850e-47 |
| Msa0020520 | Msa0284780 | 0.811403 | 7.124903e-51 | -8.615850e-47 |
| Msa0020520 | Msa0288240 | 0.807254 | 5.528485e-50 | -8.615850e-47 |
| Msa0020520 | Msa0296760 | 0.805446 | 1.329617e-49 | -8.615850e-47 |
| Msa0020520 | Msa0326670 | 0.831134 | 1.983341e-55 | -8.615850e-47 |
| Msa0020520 | Msa0395510 | 0.803522 | 3.349250e-49 | -8.615850e-47 |
| Msa0020520 | Msa0424480 | 0.801091 | 1.060164e-48 | -8.615850e-47 |
| Msa0020520 | Msa0431520 | 0.803012 | 4.270669e-49 | -8.615850e-47 |
| Msa0020520 | Msa0431830 | 0.809895 | 1.509045e-50 | -8.615850e-47 |
| Msa0020520 | Msa0437710 | 0.805545 | 1.267381e-49 | -8.615850e-47 |
| Msa0020520 | Msa0442880 | 0.831089 | 2.033351e-55 | -8.615850e-47 |
| Msa0020520 | Msa0490300 | 0.825597 | 4.297282e-54 | -8.615850e-47 |
| Msa0020520 | Msa0509970 | 0.806891 | 6.598287e-50 | -8.615850e-47 |
| Msa0020520 | Msa0549740 | 0.811825 | 5.768126e-51 | -8.615850e-47 |
| Msa0020520 | Msa0620640 | 0.813061 | 3.096785e-51 | -8.615850e-47 |
| Msa0020520 | Msa0621890 | 0.803670 | 3.120825e-49 | -8.615850e-47 |
| Msa0020520 | Msa0714600 | 0.819221 | 1.301284e-52 | -8.615850e-47 |
| Msa0020520 | Msa0731710 | 0.803533 | 3.331311e-49 | -8.615850e-47 |
| Msa0020520 | Msa0770430 | 0.813709 | 2.231006e-51 | -8.615850e-47 |
| Msa0020520 | Msa0792510 | 0.824389 | 8.290510e-54 | -8.615850e-47 |
| Msa0020520 | Msa0811510 | 0.804784 | 1.829042e-49 | -8.615850e-47 |
| Msa0020520 | Msa0835510 | 0.802875 | 4.558819e-49 | -8.615850e-47 |
| Msa0020520 | Msa0837990 | 0.803565 | 3.281186e-49 | -8.615850e-47 |
| Msa0020520 | Msa0847200 | 0.807514 | 4.870596e-50 | -8.615850e-47 |
| Msa0020520 | Msa0848360 | 0.822322 | 2.520259e-53 | -8.615850e-47 |
| Msa0020520 | Msa0851740 | 0.806345 | 8.606676e-50 | -8.615850e-47 |
| Msa0020520 | Msa0909710 | 0.813351 | 2.674323e-51 | -8.615850e-47 |
| Msa0020520 | Msa0910400 | 0.800924 | 1.146866e-48 | -8.615850e-47 |
| Msa0020520 | Msa0925160 | 0.812633 | 3.844095e-51 | -8.615850e-47 |
| Msa0020520 | Msa0937940 | 0.804423 | 2.175921e-49 | -8.615850e-47 |
| Msa0020520 | Msa1004210 | 0.804507 | 2.089473e-49 | -8.615850e-47 |
| Msa0020520 | Msa1036390 | 0.808220 | 3.447199e-50 | -8.615850e-47 |
| Msa0020520 | Msa1046610 | 0.811619 | 6.395090e-51 | -8.615850e-47 |
| Msa0020520 | Msa1076680 | 0.817187 | 3.754750e-52 | -8.615850e-47 |
| Msa0020520 | Msa1097380 | 0.807404 | 5.138725e-50 | -8.615850e-47 |
| Msa0020520 | Msa1159100 | 0.801419 | 9.084559e-49 | -8.615850e-47 |
| Msa0020520 | Msa1206020 | 0.804131 | 2.502216e-49 | -8.615850e-47 |
| Msa0020520 | Msa1242330 | 0.826438 | 2.712706e-54 | -8.615850e-47 |
| Msa0020520 | Msa1265960 | 0.803306 | 3.711693e-49 | -8.615850e-47 |
| Msa0020520 | Msa1328850 | 0.805268 | 1.448949e-49 | -8.615850e-47 |
| Msa0020520 | Msa1373950 | 0.823302 | 1.490658e-53 | -8.615850e-47 |
| Msa0020520 | Msa1418200 | 0.801495 | 8.765620e-49 | -8.615850e-47 |
| Msa0020520 | Msa1427830 | 0.808080 | 3.691260e-50 | -8.615850e-47 |
| Msa0020520 | Msa1431000 | 0.806421 | 8.295613e-50 | -8.615850e-47 |
| Msa0020520 | Msa1454110 | 0.808253 | 3.390926e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0020520 | MtrunA17_Chr5g0402671 | 57.143 | 63 | 24 | 1 | 12 | 74 | 395 | 454 | 1.91e-16 | 72.0 |
| Msa0020520 | MtrunA17_Chr5g0402681 | 57.143 | 63 | 24 | 1 | 12 | 74 | 382 | 441 | 4.28e-16 | 70.9 |
| Msa0020520 | MtrunA17_Chr5g0402721 | 57.143 | 63 | 24 | 1 | 12 | 74 | 383 | 442 | 5.20e-16 | 70.5 |
| Msa0020520 | MtrunA17_Chr5g0402771 | 53.968 | 63 | 26 | 1 | 12 | 74 | 402 | 461 | 1.33e-14 | 66.6 |
| Msa0020520 | MtrunA17_Chr8g0374461 | 53.226 | 62 | 27 | 1 | 13 | 74 | 343 | 402 | 3.10e-12 | 59.7 |
| Msa0020520 | MtrunA17_Chr8g0374541 | 53.226 | 62 | 27 | 1 | 13 | 74 | 390 | 449 | 3.29e-12 | 59.7 |
| Msa0020520 | MtrunA17_Chr8g0374511 | 50.000 | 62 | 29 | 1 | 13 | 74 | 356 | 415 | 3.52e-12 | 59.7 |
| Msa0020520 | MtrunA17_Chr8g0374491 | 44.444 | 72 | 38 | 1 | 3 | 74 | 17 | 86 | 6.05e-12 | 58.9 |
| Msa0020520 | MtrunA17_Chr5g0403291 | 50.000 | 62 | 29 | 1 | 15 | 74 | 314 | 375 | 6.39e-12 | 58.9 |
| Msa0020520 | MtrunA17_Chr8g0374471 | 48.387 | 62 | 30 | 1 | 13 | 74 | 380 | 439 | 7.12e-12 | 58.9 |
| Msa0020520 | MtrunA17_Chr8g0374531 | 46.774 | 62 | 31 | 1 | 13 | 74 | 382 | 441 | 1.70e-11 | 57.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 22 sgRNAs with CRISPR-Local
Find 31 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TAATTTAACCATAAGAAATT+TGG | 0.158427 | 1_1:+35551561 | Msa0020520:CDS |
| GATTTAATCCAAATTTCTTA+TGG | 0.304062 | 1_1:-35551569 | None:intergenic |
| TCACATATACTTTGGTCTTC+AGG | 0.322210 | 1_1:-35551463 | None:intergenic |
| AAGGAATGTTACATGGATCT+AGG | 0.377730 | 1_1:+35551433 | Msa0020520:CDS |
| AAATATATCTAAAGCTATTC+CGG | 0.418628 | 1_1:-35551386 | None:intergenic |
| ACATTCCTTCTCCTTGATTG+AGG | 0.461278 | 1_1:-35551419 | None:intergenic |
| GTTCAGCACAAATGTCGATC+CGG | 0.478714 | 1_1:-35551492 | None:intergenic |
| CAAGGAGAAGGAATGTTACA+TGG | 0.508721 | 1_1:+35551426 | Msa0020520:CDS |
| ATAGCTTTAGATATATTTGA+AGG | 0.518925 | 1_1:+35551391 | Msa0020520:CDS |
| TGAAGGTGGGTCCTCAATCA+AGG | 0.525787 | 1_1:+35551408 | Msa0020520:CDS |
| CTGTATGAGCTAGATGAGAA+TGG | 0.537219 | 1_1:+35551514 | Msa0020520:CDS |
| AGGAATGTTACATGGATCTA+GGG | 0.547958 | 1_1:+35551434 | Msa0020520:CDS |
| GTAAAAGACTTGGTCGCCAC+CGG | 0.554193 | 1_1:+35551367 | Msa0020520:intron |
| GGGTAGGATCACATATACTT+TGG | 0.555236 | 1_1:-35551471 | None:intergenic |
| TTGAAGTCTAGTAAAAGACT+TGG | 0.562199 | 1_1:+35551357 | Msa0020520:intron |
| TTCAGCACAAATGTCGATCC+GGG | 0.565466 | 1_1:-35551491 | None:intergenic |
| CTTTAGATATATTTGAAGGT+GGG | 0.567372 | 1_1:+35551395 | Msa0020520:CDS |
| GCTTTAGATATATTTGAAGG+TGG | 0.568313 | 1_1:+35551394 | Msa0020520:CDS |
| TGGGTCCTCAATCAAGGAGA+AGG | 0.585006 | 1_1:+35551414 | Msa0020520:CDS |
| AAAGTATATGTGATCCTACC+CGG | 0.629022 | 1_1:+35551473 | Msa0020520:CDS |
| GCACAAATGTCGATCCGGGT+AGG | 0.639501 | 1_1:-35551487 | None:intergenic |
| TATATCTAAAGCTATTCCGG+TGG | 0.690625 | 1_1:-35551383 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TAATTTAACCATAAGAAATT+TGG | + | chr1_1:35551561-35551580 | Msa0020520:CDS | 15.0% |
| !!! | AAATATATCTAAAGCTATTC+CGG | - | chr1_1:35551389-35551408 | None:intergenic | 20.0% |
| !!! | ATAGCTTTAGATATATTTGA+AGG | + | chr1_1:35551391-35551410 | Msa0020520:CDS | 20.0% |
| !! | ATAATTTGTCATACCACAAA+AGG | - | chr1_1:35551310-35551329 | None:intergenic | 25.0% |
| ! | CTTTAGATATATTTGAAGGT+GGG | + | chr1_1:35551395-35551414 | Msa0020520:CDS | 25.0% |
| TGTGGTATGACAAATTATGA+AGG | + | chr1_1:35551312-35551331 | Msa0020520:intron | 30.0% | |
| TTGAAGTCTAGTAAAAGACT+TGG | + | chr1_1:35551357-35551376 | Msa0020520:intron | 30.0% | |
| ! | GCTTTAGATATATTTGAAGG+TGG | + | chr1_1:35551394-35551413 | Msa0020520:CDS | 30.0% |
| ATGTTAGGTGATGTTATAGC+AGG | + | chr1_1:35551210-35551229 | Msa0020520:intron | 35.0% | |
| AGATCCACCAATGATTTCAA+GGG | - | chr1_1:35551275-35551294 | None:intergenic | 35.0% | |
| ! | TATATCTAAAGCTATTCCGG+TGG | - | chr1_1:35551386-35551405 | None:intergenic | 35.0% |
| AAGGAATGTTACATGGATCT+AGG | + | chr1_1:35551433-35551452 | Msa0020520:CDS | 35.0% | |
| AGGAATGTTACATGGATCTA+GGG | + | chr1_1:35551434-35551453 | Msa0020520:CDS | 35.0% | |
| ! | TCACATATACTTTGGTCTTC+AGG | - | chr1_1:35551466-35551485 | None:intergenic | 35.0% |
| AAAGTATATGTGATCCTACC+CGG | + | chr1_1:35551473-35551492 | Msa0020520:CDS | 35.0% | |
| !! | ATGCAAGCACTGAACAAACT+TGG | - | chr1_1:35551243-35551262 | None:intergenic | 40.0% |
| CCAATGATTTCAAGGGTCAA+TGG | - | chr1_1:35551268-35551287 | None:intergenic | 40.0% | |
| CCATTGACCCTTGAAATCAT+TGG | + | chr1_1:35551265-35551284 | Msa0020520:intron | 40.0% | |
| TTGACCCTTGAAATCATTGG+TGG | + | chr1_1:35551268-35551287 | Msa0020520:intron | 40.0% | |
| GAGATCCACCAATGATTTCA+AGG | - | chr1_1:35551276-35551295 | None:intergenic | 40.0% | |
| ! | TCTCTGTAAGCATCCTTTTG+TGG | + | chr1_1:35551294-35551313 | Msa0020520:intron | 40.0% |
| ACATTCCTTCTCCTTGATTG+AGG | - | chr1_1:35551422-35551441 | None:intergenic | 40.0% | |
| CAAGGAGAAGGAATGTTACA+TGG | + | chr1_1:35551426-35551445 | Msa0020520:CDS | 40.0% | |
| GGGTAGGATCACATATACTT+TGG | - | chr1_1:35551474-35551493 | None:intergenic | 40.0% | |
| CTGTATGAGCTAGATGAGAA+TGG | + | chr1_1:35551514-35551533 | Msa0020520:CDS | 40.0% | |
| TTCAGCACAAATGTCGATCC+GGG | - | chr1_1:35551494-35551513 | None:intergenic | 45.0% | |
| GTTCAGCACAAATGTCGATC+CGG | - | chr1_1:35551495-35551514 | None:intergenic | 45.0% | |
| ! | GTAAAAGACTTGGTCGCCAC+CGG | + | chr1_1:35551367-35551386 | Msa0020520:intron | 50.0% |
| TGAAGGTGGGTCCTCAATCA+AGG | + | chr1_1:35551408-35551427 | Msa0020520:CDS | 50.0% | |
| TGGGTCCTCAATCAAGGAGA+AGG | + | chr1_1:35551414-35551433 | Msa0020520:CDS | 50.0% | |
| GCACAAATGTCGATCCGGGT+AGG | - | chr1_1:35551490-35551509 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_1 | gene | 35551210 | 35551588 | 35551210 | ID=Msa0020520;Name=Msa0020520 |
| chr1_1 | mRNA | 35551210 | 35551588 | 35551210 | ID=Msa0020520-mRNA-1;Parent=Msa0020520;Name=Msa0020520-mRNA-1;_AED=0.65;_eAED=0.65;_QI=0|0|0|0.5|0|0|2|0|75 |
| chr1_1 | exon | 35551210 | 35551216 | 35551210 | ID=Msa0020520-mRNA-1:exon:11378;Parent=Msa0020520-mRNA-1 |
| chr1_1 | exon | 35551368 | 35551588 | 35551368 | ID=Msa0020520-mRNA-1:exon:11379;Parent=Msa0020520-mRNA-1 |
| chr1_1 | CDS | 35551210 | 35551216 | 35551210 | ID=Msa0020520-mRNA-1:cds;Parent=Msa0020520-mRNA-1 |
| chr1_1 | CDS | 35551368 | 35551588 | 35551368 | ID=Msa0020520-mRNA-1:cds;Parent=Msa0020520-mRNA-1 |
| Gene Sequence |
| Protein sequence |
