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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1354550 | AES69829.1 | 66.758 | 364 | 42 | 6 | 52 | 336 | 26 | 389 | 1.08e-134 | 414 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1354550 | sp|Q9GE26|RR7_AMBTC | 93.182 | 132 | 5 | 1 | 144 | 271 | 23 | 154 | 1.07e-81 | 248 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0095190 | Msa1354550 | 0.804205 | 2.415736e-49 | -8.615850e-47 |
| Msa0139800 | Msa1354550 | 0.840056 | 1.094385e-57 | -8.615850e-47 |
| Msa0139810 | Msa1354550 | 0.821397 | 4.125722e-53 | -8.615850e-47 |
| Msa0202640 | Msa1354550 | 0.857320 | 1.768480e-62 | -8.615850e-47 |
| Msa0263770 | Msa1354550 | 0.860716 | 1.701259e-63 | -8.615850e-47 |
| Msa0268170 | Msa1354550 | 0.859524 | 3.897157e-63 | -8.615850e-47 |
| Msa0268190 | Msa1354550 | 0.810837 | 9.450576e-51 | -8.615850e-47 |
| Msa0268210 | Msa1354550 | 0.805891 | 1.072284e-49 | -8.615850e-47 |
| Msa0268250 | Msa1354550 | 0.871707 | 5.568154e-67 | -8.615850e-47 |
| Msa0268260 | Msa1354550 | 0.902852 | 6.340101e-79 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1354550 | MtrunA17_CPg0492421 | 88.806 | 134 | 9 | 2 | 144 | 271 | 23 | 156 | 1.71e-76 | 231 |
| Msa1354550 | MtrunA17_Chr4g0016101 | 88.806 | 134 | 9 | 2 | 144 | 271 | 23 | 156 | 1.71e-76 | 231 |
| Msa1354550 | MtrunA17_Chr3g0090841 | 88.806 | 134 | 9 | 2 | 144 | 271 | 23 | 156 | 1.71e-76 | 231 |
| Msa1354550 | MtrunA17_CPg0492431 | 96.875 | 64 | 2 | 0 | 273 | 336 | 4 | 67 | 5.37e-35 | 129 |
| Msa1354550 | MtrunA17_Chr3g0090851 | 96.875 | 64 | 2 | 0 | 273 | 336 | 4 | 67 | 5.37e-35 | 129 |
| Msa1354550 | MtrunA17_Chr4g0016091 | 96.875 | 64 | 2 | 0 | 273 | 336 | 4 | 67 | 5.37e-35 | 129 |
| Msa1354550 | MtrunA17_Chr4g0002541 | 83.333 | 60 | 10 | 0 | 146 | 205 | 1 | 60 | 8.38e-28 | 103 |
| Msa1354550 | MtrunA17_Chr4g0057401 | 87.179 | 39 | 5 | 0 | 233 | 271 | 1 | 39 | 6.31e-15 | 68.2 |
| Msa1354550 | MtrunA17_CPg0492401 | 78.947 | 38 | 8 | 0 | 52 | 89 | 6 | 43 | 4.76e-14 | 65.9 |
| Msa1354550 | MtrunA17_Chr7g0234981 | 82.353 | 34 | 6 | 0 | 110 | 143 | 49 | 82 | 7.44e-12 | 60.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1354550 | ATCG00900.1 | 92.424 | 132 | 6 | 1 | 144 | 271 | 23 | 154 | 7.33e-82 | 245 |
| Msa1354550 | ATCG01240.1 | 92.424 | 132 | 6 | 1 | 144 | 271 | 23 | 154 | 7.33e-82 | 245 |
| Msa1354550 | ATCG00905.1 | 91.176 | 34 | 3 | 0 | 110 | 143 | 41 | 74 | 4.09e-14 | 67.4 |
| Msa1354550 | ATCG01230.1 | 91.176 | 34 | 3 | 0 | 110 | 143 | 41 | 74 | 4.09e-14 | 67.4 |
| Msa1354550 | ATMG01270.1 | 30.657 | 137 | 87 | 3 | 144 | 273 | 12 | 147 | 1.30e-11 | 62.4 |
| Msa1354550 | AT2G07696.1 | 30.657 | 137 | 87 | 3 | 144 | 273 | 12 | 147 | 1.30e-11 | 62.4 |
Find 70 sgRNAs with CRISPR-Local
Find 246 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACGTCCAGGTCGAAATA+TGG | 0.317789 | tig0014543:+379068 | Msa1354550:CDS |
| AAAAGGATTCCTATTCTAAA+GGG | 0.399720 | tig0014543:+378057 | Msa1354550:CDS |
| AAAGGAAGAGACTCATAGAA+TGG | 0.548096 | tig0014543:+379152 | Msa1354550:CDS |
| AAGTTTAGTAATGAGCATAA+CGG | 0.644237 | tig0014543:+379633 | Msa1354550:CDS |
| AATTAGTGGATGCTGCCAAA+GGG | 0.575951 | tig0014543:+379109 | Msa1354550:CDS |
| ACAATGTGATATCTCACACC+AGG | 0.678462 | tig0014543:-378588 | None:intergenic |
| ACAGCGACAAAATGGAAGAC+TGG | 0.588097 | tig0014543:+377694 | Msa1354550:CDS |
| ACCCACCAAAGCACGAAAGC+GGG | 0.461764 | tig0014543:+378023 | Msa1354550:CDS |
| ACGTATTGCTTGACGTAAAA+CGG | 0.405511 | tig0014543:-378920 | None:intergenic |
| AGAGACTCATAGAATGGCAG+AGG | 0.593635 | tig0014543:+379158 | Msa1354550:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GACCATATAATATTTATGGG+GGG | - | tig0014543:376806-376825 | None:intergenic | 30.0% | |
| GGACCATATAATATTTATGG+GGG | - | tig0014543:376807-376826 | None:intergenic | 30.0% | |
| TGGAAAAATTCACATTGCAT+TGG | + | tig0014543:376890-376909 | Msa1354550:CDS | 30.0% | |
| GGAAAAATTCACATTGCATT+GGG | + | tig0014543:376891-376910 | Msa1354550:CDS | 30.0% | |
| TAGTTAATCCTATTTCGGAT+AGG | - | tig0014543:377169-377188 | None:intergenic | 30.0% | |
| ATCCGAAATAGGATTAACTA+TGG | + | tig0014543:377169-377188 | Msa1354550:intron | 30.0% | |
| AAATCGTCTTTAGTTAGATG+GGG | - | tig0014543:377219-377238 | None:intergenic | 30.0% | |
| CAAAATCGTCTTTAGTTAGA+TGG | - | tig0014543:377221-377240 | None:intergenic | 30.0% | |
| TATCACTACAACAAGCATAA+TGG | + | tig0014543:377480-377499 | Msa1354550:intron | 30.0% | |
| AGTGAAAAGGATGATTCATT+CGG | + | tig0014543:377557-377576 | Msa1354550:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0014543 | gene | 376760 | 379690 | 376760 | ID=Msa1354550;Name=Msa1354550 |
| tig0014543 | mRNA | 376760 | 379690 | 376760 | ID=Msa1354550-mRNA-1;Parent=Msa1354550;Name=Msa1354550-mRNA-1;_AED=0.34;_eAED=0.44;_QI=0|0|0|1|0|0|7|0|336 |
| tig0014543 | exon | 376760 | 376912 | 376760 | ID=Msa1354550-mRNA-1:exon:9151;Parent=Msa1354550-mRNA-1 |
| tig0014543 | exon | 377635 | 377724 | 377635 | ID=Msa1354550-mRNA-1:exon:9152;Parent=Msa1354550-mRNA-1 |
| tig0014543 | exon | 377985 | 378078 | 377985 | ID=Msa1354550-mRNA-1:exon:9153;Parent=Msa1354550-mRNA-1 |
| tig0014543 | exon | 378562 | 378654 | 378562 | ID=Msa1354550-mRNA-1:exon:9154;Parent=Msa1354550-mRNA-1 |
| tig0014543 | exon | 378809 | 379045 | 378809 | ID=Msa1354550-mRNA-1:exon:9155;Parent=Msa1354550-mRNA-1 |
| tig0014543 | exon | 379058 | 379204 | 379058 | ID=Msa1354550-mRNA-1:exon:9156;Parent=Msa1354550-mRNA-1 |
| tig0014543 | exon | 379497 | 379690 | 379497 | ID=Msa1354550-mRNA-1:exon:9157;Parent=Msa1354550-mRNA-1 |
| tig0014543 | CDS | 376760 | 376912 | 376760 | ID=Msa1354550-mRNA-1:cds;Parent=Msa1354550-mRNA-1 |
| tig0014543 | CDS | 377635 | 377724 | 377635 | ID=Msa1354550-mRNA-1:cds;Parent=Msa1354550-mRNA-1 |
| tig0014543 | CDS | 377985 | 378078 | 377985 | ID=Msa1354550-mRNA-1:cds;Parent=Msa1354550-mRNA-1 |
| tig0014543 | CDS | 378562 | 378654 | 378562 | ID=Msa1354550-mRNA-1:cds;Parent=Msa1354550-mRNA-1 |
| tig0014543 | CDS | 378809 | 379045 | 378809 | ID=Msa1354550-mRNA-1:cds;Parent=Msa1354550-mRNA-1 |
| tig0014543 | CDS | 379058 | 379204 | 379058 | ID=Msa1354550-mRNA-1:cds;Parent=Msa1354550-mRNA-1 |
| tig0014543 | CDS | 379497 | 379690 | 379497 | ID=Msa1354550-mRNA-1:cds;Parent=Msa1354550-mRNA-1 |
| Gene Sequence |
>Msa1354550 ATGAATAACTTGTATTCATGCGCTTCATATTCGCCGGGAGTTGCCCCCCATAAATATTATATGGTCCTATACCACCTTATGTCAACCCCACAAGCCTCTTATCCATTCGCGTTGCATATCGTCATCAAAATGGAAAAATTCACATTGCATTGGAGGTTGACCTCCTTGCTTTTAGGATGGTACAATCCTCTTGCTGCCTTTCTCCTCGCCCCACAGCGACAAAATGGAAGACTGGTGCCAACAATATCTTTTCAACATAGGTCATCGAAAGCATCTCGAAGACCCACCAAAGCACGAAAGCGGGGATCTTTCACAAAAAGGATTCCTATTCTAAAGGTAAGAGGGGGAAGGGTTAAGGATTTACCTGGTGTGAGATATCACATTGTTCGAGGAACCCTAGATGCTGTCGGAGTAAAGGATCGCCAACAAGTTAACATGTTGGTTAACCGTATTATGAAACACGGAAAAAAATCATTGGCTTATCAAATTATCTATCGAGCTATGAAAAGGATTCAACAAAAGACAGAAACAAATCCACTATCCGTTTTACGTCAAGCAATACGTGGGGTAACTCCCGATATAGCAGTAAAAGCAAGACGCGTAAACGGATCGACTCATCAAGTTCCCGTTGAAATAGGATCCACACAAGGAAAAGCACTTGCCATTCGCGCATCCCGAAAACGTCCAGGTCGAAATATGGCTTTCAAATTAAGTTCCGAATTAGTGGATGCTGCCAAAGGGAATGGCGATGCCATACGCAAAAAGGAAGAGACTCATAGAATGGCAGAGGCAAATAGAGCTTTTGCACATTTTCCCTTTCATTTGCTTCTTTTCGATGGAAGTTTTATTTTTCCGGAATTGATCCTAATTTTTGGTCTAATTCTTCTTCTGATGATTGATTTAACCTCTGATCAAAAAGATCTATCTTGGTTCTATTTTATCTCTTCAACAAGTTTAGTAATGAGCATAACGGCGCTGTTGTTCCGATGGAGAGAAGAACCCATGATT |
| Protein sequence |
>Msa1354550 MNNLYSCASYSPGVAPHKYYMVLYHLMSTPQASYPFALHIVIKMEKFTLHWRLTSLLLGWYNPLAAFLLAPQRQNGRLVPTISFQHRSSKASRRPTKARKRGSFTKRIPILKVRGGRVKDLPGVRYHIVRGTLDAVGVKDRQQVNMLVNRIMKHGKKSLAYQIIYRAMKRIQQKTETNPLSVLRQAIRGVTPDIAVKARRVNGSTHQVPVEIGSTQGKALAIRASRKRPGRNMAFKLSSELVDAAKGNGDAIRKKEETHRMAEANRAFAHFPFHLLLFDGSFIFPELILIFGLILLLMIDLTSDQKDLSWFYFISSTSLVMSITALLFRWREEPMI |
