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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0118050 | XP_024630708.1 | 86.473 | 207 | 28 | 0 | 1 | 207 | 260 | 466 | 6.00e-126 | 374 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0118050 | sp|Q0R4F1|PIF1_XENLA | 30.769 | 169 | 100 | 4 | 30 | 190 | 443 | 602 | 4.03e-15 | 76.6 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0118050 | A0A6A5NDQ1 | 71.498 | 207 | 58 | 1 | 1 | 207 | 163 | 368 | 1.74e-102 | 310 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0068630 | Msa0118050 | 0.805788 | 1.127407e-49 | -8.615850e-47 |
| Msa0118050 | Msa0118060 | 0.838792 | 2.329601e-57 | -8.615850e-47 |
| Msa0118050 | Msa0232850 | 0.820205 | 7.755804e-53 | -8.615850e-47 |
| Msa0118050 | Msa0267000 | 0.821780 | 3.365304e-53 | -8.615850e-47 |
| Msa0118050 | Msa0267010 | 0.806963 | 6.371108e-50 | -8.615850e-47 |
| Msa0118050 | Msa0452900 | 0.820512 | 6.595501e-53 | -8.615850e-47 |
| Msa0118050 | Msa0548060 | 0.833086 | 6.527393e-56 | -8.615850e-47 |
| Msa0118050 | Msa0732710 | 0.811502 | 6.779210e-51 | -8.615850e-47 |
| Msa0118050 | Msa0743810 | 0.804471 | 2.125859e-49 | -8.615850e-47 |
| Msa0118050 | Msa0745060 | 0.836257 | 1.040164e-56 | -8.615850e-47 |
| Msa0118050 | Msa0825860 | 0.835759 | 1.391677e-56 | -8.615850e-47 |
| Msa0118050 | Msa0865320 | 0.823941 | 1.056159e-53 | -8.615850e-47 |
| Msa0118050 | Msa1025360 | 0.814296 | 1.656067e-51 | -8.615850e-47 |
| Msa0118050 | Msa1025370 | 0.807281 | 5.456523e-50 | -8.615850e-47 |
| Msa0118050 | Msa1044830 | 0.810817 | 9.543996e-51 | -8.615850e-47 |
| Msa0118050 | Msa1044840 | 0.819969 | 8.783430e-53 | -8.615850e-47 |
| Msa0118050 | Msa1048540 | 0.801369 | 9.301143e-49 | -8.615850e-47 |
| Msa0118050 | Msa1092990 | 0.834646 | 2.657649e-56 | -8.615850e-47 |
| Msa0118050 | Msa1100980 | 0.846529 | 2.051361e-59 | -8.615850e-47 |
| Msa0118050 | Msa1135740 | 0.826304 | 2.920373e-54 | -8.615850e-47 |
| Msa0118050 | Msa1173920 | 0.808821 | 2.565680e-50 | -8.615850e-47 |
| Msa0118050 | Msa1187940 | 0.817189 | 3.752305e-52 | -8.615850e-47 |
| Msa0118050 | Msa1269670 | 0.826716 | 2.329055e-54 | -8.615850e-47 |
| Msa0118050 | Msa1270230 | 0.829556 | 4.818953e-55 | -8.615850e-47 |
| Msa0118050 | Msa1270240 | 0.818556 | 1.842614e-52 | -8.615850e-47 |
| Msa0118050 | Msa1270270 | 0.871998 | 4.457220e-67 | -8.615850e-47 |
| Msa0118050 | Msa1283330 | 0.819166 | 1.339674e-52 | -8.615850e-47 |
| Msa0118050 | Msa1415310 | 0.809890 | 1.513129e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0118050 | MtrunA17_Chr3g0101861 | 71.014 | 207 | 59 | 1 | 1 | 207 | 260 | 465 | 1.33e-103 | 306 |
| Msa0118050 | MtrunA17_Chr7g0248821 | 60.101 | 198 | 78 | 1 | 10 | 207 | 1 | 197 | 7.36e-79 | 234 |
| Msa0118050 | MtrunA17_Chr1g0173691 | 56.522 | 207 | 89 | 1 | 1 | 207 | 166 | 371 | 1.60e-75 | 231 |
| Msa0118050 | MtrunA17_Chr1g0206511 | 56.500 | 200 | 84 | 2 | 9 | 207 | 1 | 198 | 1.14e-74 | 223 |
| Msa0118050 | MtrunA17_Chr3g0133361 | 52.174 | 207 | 98 | 1 | 1 | 207 | 88 | 293 | 2.15e-74 | 226 |
| Msa0118050 | MtrunA17_Chr7g0269671 | 57.485 | 167 | 68 | 2 | 2 | 167 | 168 | 332 | 3.52e-58 | 186 |
| Msa0118050 | MtrunA17_Chr6g0472831 | 46.061 | 165 | 88 | 1 | 1 | 165 | 88 | 251 | 1.05e-48 | 159 |
| Msa0118050 | MtrunA17_Chr3g0100401 | 50.000 | 128 | 63 | 1 | 9 | 136 | 1 | 127 | 3.24e-38 | 128 |
| Msa0118050 | MtrunA17_Chr3g0139511 | 61.111 | 72 | 28 | 0 | 136 | 207 | 109 | 180 | 1.12e-22 | 90.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0118050 | AT3G51690.1 | 46.377 | 207 | 105 | 3 | 2 | 207 | 130 | 331 | 2.79e-56 | 181 |
| Msa0118050 | AT5G28780.1 | 48.309 | 207 | 102 | 3 | 2 | 207 | 128 | 330 | 1.10e-54 | 177 |
| Msa0118050 | AT3G51700.1 | 44.390 | 205 | 111 | 2 | 1 | 204 | 130 | 332 | 2.31e-51 | 169 |
Find 35 sgRNAs with CRISPR-Local
Find 45 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGTCTTCTTATAAGCTTAAA+TGG | 0.164513 | 1_3:+40313257 | None:intergenic |
| TAGGGAGACCAGAAGTTCTT+AGG | 0.220794 | 1_3:+40313483 | None:intergenic |
| CTTAGGGAACTTAGAAATTC+AGG | 0.223590 | 1_3:+40313500 | None:intergenic |
| ATTGCATAAGAGACTATAAT+TGG | 0.227481 | 1_3:+40313230 | None:intergenic |
| CTAAGTTCCCTAAGAACTTC+TGG | 0.275866 | 1_3:-40313491 | Msa0118050:CDS |
| TTATGCTTAATTCTGTGGTT+AGG | 0.312635 | 1_3:+40313464 | None:intergenic |
| GAAATATGACTTACATTCTA+AGG | 0.322552 | 1_3:-40313310 | Msa0118050:CDS |
| TATGCTTAATTCTGTGGTTA+GGG | 0.396928 | 1_3:+40313465 | None:intergenic |
| TTCTTTGTAGACGACATTCA+TGG | 0.428182 | 1_3:+40313043 | None:intergenic |
| CTTGAAGCCAAAATCATCTC+AGG | 0.438739 | 1_3:-40313344 | Msa0118050:CDS |
| TATGTACTCTCATTGATTGA+AGG | 0.475078 | 1_3:-40313710 | Msa0118050:intron |
| AGGGAGACCAGAAGTTCTTA+GGG | 0.484118 | 1_3:+40313484 | None:intergenic |
| TTCAGGAGTTAGAGATTCAA+AGG | 0.485734 | 1_3:+40313517 | None:intergenic |
| TATGACTTACATTCTAAGGT+TGG | 0.497955 | 1_3:-40313306 | Msa0118050:CDS |
| CATTGCAGAGTCCCTCTGAT+TGG | 0.499154 | 1_3:+40313405 | None:intergenic |
| TCAAGAGTTAAAAGCAAGGC+AGG | 0.500669 | 1_3:-40313113 | Msa0118050:CDS |
| CTACTTTATGCTTAATTCTG+TGG | 0.500892 | 1_3:+40313459 | None:intergenic |
| CAGACTGATCATTACTAGAA+TGG | 0.504238 | 1_3:-40313378 | Msa0118050:CDS |
| CTTATAAGCTTAAATGGCCA+AGG | 0.504307 | 1_3:+40313263 | None:intergenic |
| GAGAAATATTGACCAATCAG+AGG | 0.513233 | 1_3:-40313417 | Msa0118050:CDS |
| ATATTTCTCAACAGCATCAC+AGG | 0.524778 | 1_3:+40313431 | None:intergenic |
| TTGCATAAGAGACTATAATT+GGG | 0.527152 | 1_3:+40313231 | None:intergenic |
| TTGACATAGCTACATAAAGT+TGG | 0.530949 | 1_3:+40313132 | None:intergenic |
| GGTCAGTCTCTAGATAGTGT+TGG | 0.531154 | 1_3:-40313188 | Msa0118050:CDS |
| ATGACTAGTAATAAATCTCT+AGG | 0.545087 | 1_3:-40313209 | Msa0118050:CDS |
| CATTCTAGTAATGATCAGTC+TGG | 0.545198 | 1_3:+40313379 | None:intergenic |
| CCATGACTAAACATAGCTCT+AGG | 0.570371 | 1_3:+40313155 | None:intergenic |
| CACAGAATTAAGCATAAAGT+AGG | 0.576520 | 1_3:-40313458 | Msa0118050:CDS |
| CCTAGAGCTATGTTTAGTCA+TGG | 0.596495 | 1_3:-40313155 | Msa0118050:CDS |
| CAATCAGAGGGACTCTGCAA+TGG | 0.613107 | 1_3:-40313404 | Msa0118050:CDS |
| TATGTCAAGAGTTAAAAGCA+AGG | 0.617835 | 1_3:-40313117 | Msa0118050:CDS |
| TTTGATTCACGATTCTAACA+AGG | 0.619486 | 1_3:-40313081 | Msa0118050:CDS |
| AGAAATATTGACCAATCAGA+GGG | 0.619546 | 1_3:-40313416 | Msa0118050:CDS |
| TGTCTCATTCTCAATCACCT+TGG | 0.625966 | 1_3:-40313280 | Msa0118050:CDS |
| TTGAAGCCAAAATCATCTCA+GGG | 0.641445 | 1_3:-40313343 | Msa0118050:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTGTTTTATGTTTTAAAAT+AGG | - | chr1_3:40313151-40313170 | Msa0118050:CDS | 10.0% |
| !!! | TTGTTTTATGTTTTAAAATA+GGG | - | chr1_3:40313152-40313171 | Msa0118050:CDS | 10.0% |
| !!! | TGTTTTATGTTTTAAAATAG+GGG | - | chr1_3:40313153-40313172 | Msa0118050:CDS | 15.0% |
| !!! | ACAAACTGTAAATAATTTTG+TGG | + | chr1_3:40313136-40313155 | None:intergenic | 20.0% |
| !!! | TTTTAAAATAGGGGAAGAAA+GGG | - | chr1_3:40313162-40313181 | Msa0118050:CDS | 25.0% |
| ! | GAAATATGACTTACATTCTA+AGG | - | chr1_3:40313446-40313465 | Msa0118050:CDS | 25.0% |
| ! | TGTCTTCTTATAAGCTTAAA+TGG | + | chr1_3:40313502-40313521 | None:intergenic | 25.0% |
| ! | TTGCATAAGAGACTATAATT+GGG | + | chr1_3:40313528-40313547 | None:intergenic | 25.0% |
| ! | ATTGCATAAGAGACTATAAT+TGG | + | chr1_3:40313529-40313548 | None:intergenic | 25.0% |
| ! | ATGACTAGTAATAAATCTCT+AGG | - | chr1_3:40313547-40313566 | Msa0118050:CDS | 25.0% |
| ! | TATGTACTCTCATTGATTGA+AGG | - | chr1_3:40313046-40313065 | Msa0118050:CDS | 30.0% |
| !!! | GTTTTAAAATAGGGGAAGAA+AGG | - | chr1_3:40313161-40313180 | Msa0118050:CDS | 30.0% |
| TATGCTTAATTCTGTGGTTA+GGG | + | chr1_3:40313294-40313313 | None:intergenic | 30.0% | |
| TTATGCTTAATTCTGTGGTT+AGG | + | chr1_3:40313295-40313314 | None:intergenic | 30.0% | |
| CTACTTTATGCTTAATTCTG+TGG | + | chr1_3:40313300-40313319 | None:intergenic | 30.0% | |
| CACAGAATTAAGCATAAAGT+AGG | - | chr1_3:40313298-40313317 | Msa0118050:CDS | 30.0% | |
| AGAAATATTGACCAATCAGA+GGG | - | chr1_3:40313340-40313359 | Msa0118050:CDS | 30.0% | |
| !! | TATGACTTACATTCTAAGGT+TGG | - | chr1_3:40313450-40313469 | Msa0118050:CDS | 30.0% |
| TTGACATAGCTACATAAAGT+TGG | + | chr1_3:40313627-40313646 | None:intergenic | 30.0% | |
| TATGTCAAGAGTTAAAAGCA+AGG | - | chr1_3:40313639-40313658 | Msa0118050:intron | 30.0% | |
| TTTGATTCACGATTCTAACA+AGG | - | chr1_3:40313675-40313694 | Msa0118050:intron | 30.0% | |
| TTCAGGAGTTAGAGATTCAA+AGG | + | chr1_3:40313242-40313261 | None:intergenic | 35.0% | |
| CTTAGGGAACTTAGAAATTC+AGG | + | chr1_3:40313259-40313278 | None:intergenic | 35.0% | |
| ATATTTCTCAACAGCATCAC+AGG | + | chr1_3:40313328-40313347 | None:intergenic | 35.0% | |
| GAGAAATATTGACCAATCAG+AGG | - | chr1_3:40313339-40313358 | Msa0118050:CDS | 35.0% | |
| CATTCTAGTAATGATCAGTC+TGG | + | chr1_3:40313380-40313399 | None:intergenic | 35.0% | |
| CAGACTGATCATTACTAGAA+TGG | - | chr1_3:40313378-40313397 | Msa0118050:CDS | 35.0% | |
| TTGAAGCCAAAATCATCTCA+GGG | - | chr1_3:40313413-40313432 | Msa0118050:CDS | 35.0% | |
| ! | GTTTTTCCCTGAGATGATTT+TGG | + | chr1_3:40313422-40313441 | None:intergenic | 35.0% |
| ATCATCTCAGGGAAAAACAT+AGG | - | chr1_3:40313424-40313443 | Msa0118050:CDS | 35.0% | |
| CTTATAAGCTTAAATGGCCA+AGG | + | chr1_3:40313496-40313515 | None:intergenic | 35.0% | |
| TTCTTTGTAGACGACATTCA+TGG | + | chr1_3:40313716-40313735 | None:intergenic | 35.0% | |
| CTAAGTTCCCTAAGAACTTC+TGG | - | chr1_3:40313265-40313284 | Msa0118050:CDS | 40.0% | |
| !!! | TGATTTTGGCTTCAAGGACA+TGG | + | chr1_3:40313408-40313427 | None:intergenic | 40.0% |
| !!! | CTGAGATGATTTTGGCTTCA+AGG | + | chr1_3:40313414-40313433 | None:intergenic | 40.0% |
| CTTGAAGCCAAAATCATCTC+AGG | - | chr1_3:40313412-40313431 | Msa0118050:CDS | 40.0% | |
| TGTCTCATTCTCAATCACCT+TGG | - | chr1_3:40313476-40313495 | Msa0118050:CDS | 40.0% | |
| CCATGACTAAACATAGCTCT+AGG | + | chr1_3:40313604-40313623 | None:intergenic | 40.0% | |
| CCTAGAGCTATGTTTAGTCA+TGG | - | chr1_3:40313601-40313620 | Msa0118050:intron | 40.0% | |
| TCAAGAGTTAAAAGCAAGGC+AGG | - | chr1_3:40313643-40313662 | Msa0118050:intron | 40.0% | |
| AGGGAGACCAGAAGTTCTTA+GGG | + | chr1_3:40313275-40313294 | None:intergenic | 45.0% | |
| TAGGGAGACCAGAAGTTCTT+AGG | + | chr1_3:40313276-40313295 | None:intergenic | 45.0% | |
| GGTCAGTCTCTAGATAGTGT+TGG | - | chr1_3:40313568-40313587 | Msa0118050:CDS | 45.0% | |
| CATTGCAGAGTCCCTCTGAT+TGG | + | chr1_3:40313354-40313373 | None:intergenic | 50.0% | |
| CAATCAGAGGGACTCTGCAA+TGG | - | chr1_3:40313352-40313371 | Msa0118050:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_3 | gene | 40313025 | 40313753 | 40313025 | ID=Msa0118050;Name=Msa0118050 |
| chr1_3 | mRNA | 40313025 | 40313753 | 40313025 | ID=Msa0118050-mRNA-1;Parent=Msa0118050;Name=Msa0118050-mRNA-1;_AED=0.54;_eAED=0.54;_QI=0|0|0|1|1|1|2|0|207 |
| chr1_3 | exon | 40313711 | 40313753 | 40313711 | ID=Msa0118050-mRNA-1:exon:12338;Parent=Msa0118050-mRNA-1 |
| chr1_3 | exon | 40313025 | 40313605 | 40313025 | ID=Msa0118050-mRNA-1:exon:12337;Parent=Msa0118050-mRNA-1 |
| chr1_3 | CDS | 40313711 | 40313753 | 40313711 | ID=Msa0118050-mRNA-1:cds;Parent=Msa0118050-mRNA-1 |
| chr1_3 | CDS | 40313025 | 40313605 | 40313025 | ID=Msa0118050-mRNA-1:cds;Parent=Msa0118050-mRNA-1 |
| Gene Sequence |
| Protein sequence |
