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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0392280 | XP_003598034.1 | 95.333 | 150 | 7 | 0 | 1 | 150 | 1 | 150 | 4.87e-86 | 258 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0392280 | sp|P56331|IF1A_ONOVI | 80.795 | 151 | 22 | 3 | 1 | 150 | 1 | 145 | 4.84e-78 | 231 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0392280 | G7IYF3 | 95.333 | 150 | 7 | 0 | 1 | 150 | 1 | 150 | 2.33e-86 | 258 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0015090 | Msa0392280 | 0.826844 | 2.170512e-54 | -8.615850e-47 |
| Msa0043980 | Msa0392280 | 0.814037 | 1.889086e-51 | -8.615850e-47 |
| Msa0049750 | Msa0392280 | 0.834010 | 3.836590e-56 | -8.615850e-47 |
| Msa0051210 | Msa0392280 | 0.809819 | 1.566741e-50 | -8.615850e-47 |
| Msa0051450 | Msa0392280 | 0.809046 | 2.295960e-50 | -8.615850e-47 |
| Msa0101830 | Msa0392280 | 0.812180 | 4.825426e-51 | -8.615850e-47 |
| Msa0138020 | Msa0392280 | 0.806198 | 9.240738e-50 | -8.615850e-47 |
| Msa0143930 | Msa0392280 | 0.803227 | 3.855144e-49 | -8.615850e-47 |
| Msa0153830 | Msa0392280 | 0.813520 | 2.455908e-51 | -8.615850e-47 |
| Msa0206010 | Msa0392280 | 0.815613 | 8.450191e-52 | -8.615850e-47 |
| Msa0218370 | Msa0392280 | 0.803712 | 3.058082e-49 | -8.615850e-47 |
| Msa0376910 | Msa0392280 | 0.835814 | 1.347445e-56 | -8.615850e-47 |
| Msa0392280 | Msa0401560 | 0.805707 | 1.172096e-49 | -8.615850e-47 |
| Msa0392280 | Msa0412840 | 0.802105 | 6.569547e-49 | -8.615850e-47 |
| Msa0392280 | Msa0438040 | 0.808235 | 3.422287e-50 | -8.615850e-47 |
| Msa0392280 | Msa0471900 | 0.838252 | 3.210883e-57 | -8.615850e-47 |
| Msa0392280 | Msa0487710 | 0.942939 | 2.945552e-102 | -8.615850e-47 |
| Msa0392280 | Msa0703780 | 0.804318 | 2.288057e-49 | -8.615850e-47 |
| Msa0392280 | Msa0820850 | 0.806773 | 6.989184e-50 | -8.615850e-47 |
| Msa0392280 | Msa0861130 | 0.809432 | 1.897982e-50 | -8.615850e-47 |
| Msa0392280 | Msa0871430 | 0.813514 | 2.462857e-51 | -8.615850e-47 |
| Msa0392280 | Msa0872440 | 0.805846 | 1.096118e-49 | -8.615850e-47 |
| Msa0392280 | Msa0915610 | 0.822570 | 2.207180e-53 | -8.615850e-47 |
| Msa0392280 | Msa0960390 | 0.802922 | 4.457258e-49 | -8.615850e-47 |
| Msa0392280 | Msa1008400 | 0.813292 | 2.755849e-51 | -8.615850e-47 |
| Msa0392280 | Msa1013070 | 0.819869 | 9.259863e-53 | -8.615850e-47 |
| Msa0392280 | Msa1094280 | 0.813010 | 3.178557e-51 | -8.615850e-47 |
| Msa0392280 | Msa1098900 | 0.808982 | 2.369712e-50 | -8.615850e-47 |
| Msa0392280 | Msa1107260 | 0.815862 | 7.437983e-52 | -8.615850e-47 |
| Msa0392280 | Msa1150900 | 0.820282 | 7.446374e-53 | -8.615850e-47 |
| Msa0392280 | Msa1208380 | 0.809339 | 1.987225e-50 | -8.615850e-47 |
| Msa0392280 | Msa1270660 | 0.818954 | 1.496526e-52 | -8.615850e-47 |
| Msa0392280 | Msa1270730 | 0.833490 | 5.176300e-56 | -8.615850e-47 |
| Msa0392280 | Msa1295930 | 0.807843 | 4.146037e-50 | -8.615850e-47 |
| Msa0392280 | Msa1335230 | 0.833860 | 4.184850e-56 | -8.615850e-47 |
| Msa0392280 | Msa1377080 | 0.811728 | 6.054255e-51 | -8.615850e-47 |
| Msa0392280 | Msa1397120 | 0.824953 | 6.103496e-54 | -8.615850e-47 |
| Msa0392280 | Msa1403890 | 0.826876 | 2.132634e-54 | -8.615850e-47 |
| Msa0392280 | Msa1407600 | 0.807940 | 3.953417e-50 | -8.615850e-47 |
| Msa0392280 | Msa1423820 | 0.829998 | 3.761179e-55 | -8.615850e-47 |
| Msa0392280 | Msa1427230 | 0.806581 | 7.674093e-50 | -8.615850e-47 |
| Msa0319170 | Msa0392280 | 0.810026 | 1.414273e-50 | -8.615850e-47 |
| Msa0326110 | Msa0392280 | 0.809716 | 1.649376e-50 | -8.615850e-47 |
| Msa0346890 | Msa0392280 | 0.945778 | 1.611241e-104 | -8.615850e-47 |
| Msa0357830 | Msa0392280 | 0.800156 | 1.644559e-48 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0392280 | MtrunA17_Chr3g0077491 | 95.333 | 150 | 7 | 0 | 1 | 150 | 1 | 150 | 4.48e-90 | 258 |
| Msa0392280 | MtrunA17_Chr8g0347791 | 84.000 | 150 | 20 | 1 | 1 | 150 | 1 | 146 | 1.39e-74 | 219 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0392280 | AT2G04520.1 | 82.000 | 150 | 22 | 2 | 1 | 150 | 1 | 145 | 3.70e-77 | 226 |
| Msa0392280 | AT5G35680.1 | 80.000 | 150 | 25 | 2 | 1 | 150 | 1 | 145 | 2.86e-71 | 211 |
| Msa0392280 | AT5G35680.2 | 80.000 | 150 | 25 | 2 | 1 | 150 | 1 | 145 | 2.86e-71 | 211 |
| Msa0392280 | AT5G35680.3 | 86.179 | 123 | 13 | 1 | 1 | 123 | 1 | 119 | 1.65e-69 | 207 |
Find 35 sgRNAs with CRISPR-Local
Find 36 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGTTGGATTACGTGATTATC+AGG | 0.304283 | 3_2:+5262558 | Msa0392280:CDS |
| ACGAGCTTCCGGAATCTATT+AGG | 0.305997 | 3_2:+5262644 | Msa0392280:CDS |
| AACGGAGATATCATTCTTGT+TGG | 0.394753 | 3_2:+5262541 | Msa0392280:CDS |
| GAAGGCTTATGACGAGCTTC+CGG | 0.397993 | 3_2:+5262633 | Msa0392280:CDS |
| TTGAGGATGAGGATATTGAT+AGG | 0.400368 | 3_2:+5262737 | Msa0392280:CDS |
| GTAAGATGCATAAGAAGGTT+TGG | 0.408295 | 3_2:+5262512 | Msa0392280:CDS |
| AGGCTTAATGAAGGGATTGC+TGG | 0.437830 | 3_2:+5262664 | Msa0392280:CDS |
| GCGTCCGTTTCCGAGCATAT+TGG | 0.444772 | 3_2:-5262428 | None:intergenic |
| TCATTAAGCCTAATAGATTC+CGG | 0.444954 | 3_2:-5262652 | None:intergenic |
| TTCAACAATCTCGCCTCATC+CGG | 0.480596 | 3_2:-5262613 | None:intergenic |
| ATGCCGAAGAACAAGGGAAA+AGG | 0.492369 | 3_2:+5262313 | Msa0392280:CDS |
| GCTCGGAAACGGACGCTTGG+AGG | 0.497540 | 3_2:+5262435 | Msa0392280:CDS |
| TGAAGGGATTGCTGGTGGGA+TGG | 0.507121 | 3_2:+5262672 | Msa0392280:CDS |
| ACGTGATTATCAGGATGATA+AGG | 0.510200 | 3_2:+5262567 | Msa0392280:CDS |
| TATGCTCGGAAACGGACGCT+TGG | 0.513890 | 3_2:+5262432 | Msa0392280:CDS |
| GGATGAGGCGAGATTGTTGA+AGG | 0.519335 | 3_2:+5262615 | Msa0392280:CDS |
| GAATCTATTAGGCTTAATGA+AGG | 0.530788 | 3_2:+5262655 | Msa0392280:CDS |
| ATCAACCATGCCGAAGAACA+AGG | 0.554015 | 3_2:+5262306 | None:intergenic |
| ATTGAAATATATGCCGGATG+AGG | 0.555641 | 3_2:+5262600 | Msa0392280:CDS |
| GTAACCAATATGCTCGGAAA+CGG | 0.559215 | 3_2:+5262424 | Msa0392280:CDS |
| CCGCGGTAAGATGCATAAGA+AGG | 0.576217 | 3_2:+5262507 | Msa0392280:CDS |
| AAGAAGGTTTGGATTGCTAA+CGG | 0.592201 | 3_2:+5262523 | Msa0392280:CDS |
| CCGAAGAACAAGGGAAAAGG+AGG | 0.596700 | 3_2:+5262316 | Msa0392280:CDS |
| CTTAATGAAGGGATTGCTGG+TGG | 0.602290 | 3_2:+5262667 | Msa0392280:CDS |
| AATCTATTAGGCTTAATGAA+GGG | 0.608999 | 3_2:+5262656 | Msa0392280:CDS |
| ATGGATGATCATGATGATGA+TGG | 0.612732 | 3_2:+5262691 | Msa0392280:CDS |
| TGTCATATTGAAATATATGC+CGG | 0.619355 | 3_2:+5262594 | Msa0392280:CDS |
| TCAACCATGCCGAAGAACAA+GGG | 0.623500 | 3_2:+5262307 | None:intergenic |
| GGAGGAAAGAATCGAAAGCG+AGG | 0.627611 | 3_2:+5262334 | Msa0392280:CDS |
| CCTTCTTATGCATCTTACCG+CGG | 0.648150 | 3_2:-5262507 | None:intergenic |
| GAACTCATCTTCAAAGAAGA+CGG | 0.648957 | 3_2:+5262385 | Msa0392280:CDS |
| GCACAGGTAACCAATATGCT+CGG | 0.649194 | 3_2:+5262418 | Msa0392280:CDS |
| TTAATGAAGGGATTGCTGGT+GGG | 0.657015 | 3_2:+5262668 | Msa0392280:CDS |
| AGACGGTCAAGAATACGCAC+AGG | 0.669279 | 3_2:+5262402 | Msa0392280:CDS |
| AAACGTCTCTGTCATATCCG+CGG | 0.693679 | 3_2:+5262490 | Msa0392280:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TAATGATTATGTTCATTTTG+AGG | + | chr3_2:5262720-5262739 | Msa0392280:CDS | 20.0% |
| ! | TGTCATATTGAAATATATGC+CGG | + | chr3_2:5262594-5262613 | Msa0392280:CDS | 25.0% |
| ! | AATCTATTAGGCTTAATGAA+GGG | + | chr3_2:5262656-5262675 | Msa0392280:CDS | 25.0% |
| TCATTAAGCCTAATAGATTC+CGG | - | chr3_2:5262655-5262674 | None:intergenic | 30.0% | |
| GAATCTATTAGGCTTAATGA+AGG | + | chr3_2:5262655-5262674 | Msa0392280:CDS | 30.0% | |
| !! | TTATGTTCATTTTGAGGATG+AGG | + | chr3_2:5262726-5262745 | Msa0392280:CDS | 30.0% |
| GAACTCATCTTCAAAGAAGA+CGG | + | chr3_2:5262385-5262404 | Msa0392280:CDS | 35.0% | |
| GTAAGATGCATAAGAAGGTT+TGG | + | chr3_2:5262512-5262531 | Msa0392280:CDS | 35.0% | |
| AAGAAGGTTTGGATTGCTAA+CGG | + | chr3_2:5262523-5262542 | Msa0392280:CDS | 35.0% | |
| AACGGAGATATCATTCTTGT+TGG | + | chr3_2:5262541-5262560 | Msa0392280:CDS | 35.0% | |
| TGTTGGATTACGTGATTATC+AGG | + | chr3_2:5262558-5262577 | Msa0392280:CDS | 35.0% | |
| ACGTGATTATCAGGATGATA+AGG | + | chr3_2:5262567-5262586 | Msa0392280:CDS | 35.0% | |
| ATTGAAATATATGCCGGATG+AGG | + | chr3_2:5262600-5262619 | Msa0392280:CDS | 35.0% | |
| ! | ATGGATGATCATGATGATGA+TGG | + | chr3_2:5262691-5262710 | Msa0392280:CDS | 35.0% |
| TTGAGGATGAGGATATTGAT+AGG | + | chr3_2:5262737-5262756 | Msa0392280:CDS | 35.0% | |
| GTAACCAATATGCTCGGAAA+CGG | + | chr3_2:5262424-5262443 | Msa0392280:CDS | 40.0% | |
| TTAATGAAGGGATTGCTGGT+GGG | + | chr3_2:5262668-5262687 | Msa0392280:CDS | 40.0% | |
| ATGCCGAAGAACAAGGGAAA+AGG | + | chr3_2:5262313-5262332 | Msa0392280:CDS | 45.0% | |
| ! | CCTCCTTTTCCCTTGTTCTT+CGG | - | chr3_2:5262319-5262338 | None:intergenic | 45.0% |
| GCACAGGTAACCAATATGCT+CGG | + | chr3_2:5262418-5262437 | Msa0392280:CDS | 45.0% | |
| AAACGTCTCTGTCATATCCG+CGG | + | chr3_2:5262490-5262509 | Msa0392280:CDS | 45.0% | |
| CCTTCTTATGCATCTTACCG+CGG | - | chr3_2:5262510-5262529 | None:intergenic | 45.0% | |
| TTCAACAATCTCGCCTCATC+CGG | - | chr3_2:5262616-5262635 | None:intergenic | 45.0% | |
| ACGAGCTTCCGGAATCTATT+AGG | + | chr3_2:5262644-5262663 | Msa0392280:CDS | 45.0% | |
| AGGCTTAATGAAGGGATTGC+TGG | + | chr3_2:5262664-5262683 | Msa0392280:CDS | 45.0% | |
| CTTAATGAAGGGATTGCTGG+TGG | + | chr3_2:5262667-5262686 | Msa0392280:CDS | 45.0% | |
| CCGAAGAACAAGGGAAAAGG+AGG | + | chr3_2:5262316-5262335 | Msa0392280:CDS | 50.0% | |
| GGAGGAAAGAATCGAAAGCG+AGG | + | chr3_2:5262334-5262353 | Msa0392280:CDS | 50.0% | |
| AGACGGTCAAGAATACGCAC+AGG | + | chr3_2:5262402-5262421 | Msa0392280:CDS | 50.0% | |
| CCGCGGTAAGATGCATAAGA+AGG | + | chr3_2:5262507-5262526 | Msa0392280:CDS | 50.0% | |
| GGATGAGGCGAGATTGTTGA+AGG | + | chr3_2:5262615-5262634 | Msa0392280:CDS | 50.0% | |
| GAAGGCTTATGACGAGCTTC+CGG | + | chr3_2:5262633-5262652 | Msa0392280:CDS | 50.0% | |
| GCGTCCGTTTCCGAGCATAT+TGG | - | chr3_2:5262431-5262450 | None:intergenic | 55.0% | |
| TATGCTCGGAAACGGACGCT+TGG | + | chr3_2:5262432-5262451 | Msa0392280:CDS | 55.0% | |
| TGAAGGGATTGCTGGTGGGA+TGG | + | chr3_2:5262672-5262691 | Msa0392280:CDS | 55.0% | |
| GCTCGGAAACGGACGCTTGG+AGG | + | chr3_2:5262435-5262454 | Msa0392280:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_2 | gene | 5262313 | 5262765 | 5262313 | ID=Msa0392280;Name=Msa0392280 |
| chr3_2 | mRNA | 5262313 | 5262765 | 5262313 | ID=Msa0392280-mRNA-1;Parent=Msa0392280;Name=Msa0392280-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|150 |
| chr3_2 | exon | 5262313 | 5262765 | 5262313 | ID=Msa0392280-mRNA-1:exon:1263;Parent=Msa0392280-mRNA-1 |
| chr3_2 | CDS | 5262313 | 5262765 | 5262313 | ID=Msa0392280-mRNA-1:cds;Parent=Msa0392280-mRNA-1 |
| Gene Sequence |
| Protein sequence |
