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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0908110 | XP_013467071.1 | 87.374 | 198 | 25 | 0 | 1 | 198 | 1 | 198 | 3.65e-105 | 310 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0908110 | sp|Q9FJW5|TRB2_ARATH | 63.529 | 85 | 29 | 1 | 1 | 83 | 1 | 85 | 7.38e-28 | 109 |
| 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 |
|---|---|---|
| Msa0908110 | TF | MYB-related |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0908110 | MtrunA17_Chr1g0166681 | 87.374 | 198 | 25 | 0 | 1 | 198 | 1 | 198 | 3.36e-109 | 310 |
| Msa0908110 | MtrunA17_Chr5g0401061 | 67.416 | 89 | 27 | 1 | 1 | 87 | 1 | 89 | 1.08e-34 | 124 |
| Msa0908110 | MtrunA17_Chr4g0054131 | 65.169 | 89 | 30 | 1 | 1 | 88 | 1 | 89 | 2.34e-33 | 120 |
| Msa0908110 | MtrunA17_Chr8g0384671 | 57.447 | 94 | 36 | 2 | 1 | 90 | 1 | 94 | 3.73e-27 | 104 |
| Msa0908110 | MtrunA17_Chr2g0293381 | 72.131 | 61 | 17 | 0 | 1 | 61 | 1 | 61 | 1.69e-26 | 102 |
| Msa0908110 | MtrunA17_Chr8g0383821 | 71.930 | 57 | 16 | 0 | 1 | 57 | 1 | 57 | 3.14e-25 | 95.5 |
| Msa0908110 | MtrunA17_Chr2g0329921 | 67.857 | 56 | 18 | 0 | 1 | 56 | 1 | 56 | 7.92e-21 | 87.8 |
| Msa0908110 | MtrunA17_Chr8g0342871 | 60.345 | 58 | 23 | 0 | 1 | 58 | 1 | 58 | 1.06e-18 | 81.6 |
| Msa0908110 | MtrunA17_Chr1g0195261 | 70.000 | 50 | 15 | 0 | 1 | 50 | 1 | 50 | 1.46e-16 | 70.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0908110 | AT5G67580.2 | 63.529 | 85 | 29 | 1 | 1 | 83 | 1 | 85 | 7.50e-29 | 109 |
| Msa0908110 | AT5G67580.1 | 63.529 | 85 | 29 | 1 | 1 | 83 | 1 | 85 | 7.50e-29 | 109 |
| Msa0908110 | AT3G49850.1 | 68.657 | 67 | 21 | 0 | 1 | 67 | 1 | 67 | 4.27e-27 | 104 |
| Msa0908110 | AT3G49850.2 | 68.657 | 67 | 21 | 0 | 1 | 67 | 1 | 67 | 4.27e-27 | 104 |
| Msa0908110 | AT1G49950.3 | 74.138 | 58 | 15 | 0 | 1 | 58 | 1 | 58 | 1.28e-25 | 100 |
| Msa0908110 | AT1G49950.1 | 74.138 | 58 | 15 | 0 | 1 | 58 | 1 | 58 | 1.28e-25 | 100 |
| Msa0908110 | AT1G49950.2 | 74.138 | 58 | 15 | 0 | 1 | 58 | 1 | 58 | 1.28e-25 | 100 |
| Msa0908110 | AT1G72740.1 | 63.793 | 58 | 21 | 0 | 1 | 58 | 1 | 58 | 5.70e-20 | 85.5 |
| Msa0908110 | AT1G72740.2 | 59.375 | 64 | 26 | 0 | 1 | 64 | 1 | 64 | 5.75e-20 | 85.5 |
| Msa0908110 | AT1G17520.3 | 57.576 | 66 | 28 | 0 | 1 | 66 | 1 | 66 | 9.75e-20 | 85.1 |
| Msa0908110 | AT1G17520.4 | 57.576 | 66 | 28 | 0 | 1 | 66 | 1 | 66 | 1.00e-19 | 85.1 |
| Msa0908110 | AT1G17520.2 | 57.576 | 66 | 28 | 0 | 1 | 66 | 1 | 66 | 1.02e-19 | 85.1 |
| Msa0908110 | AT1G17520.1 | 57.576 | 66 | 28 | 0 | 1 | 66 | 1 | 66 | 1.05e-19 | 85.1 |
Find 27 sgRNAs with CRISPR-Local
Find 38 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CGCAAACTAGTGTTGAATTC+TGG | 0.175108 | 6_2:+9108860 | None:intergenic |
| TCATTTCTCTCAGTTGCTTT+TGG | 0.194918 | 6_2:+9108629 | None:intergenic |
| GGCTGAGGAAGCAACTTATA+AGG | 0.388838 | 6_2:-9108474 | Msa0908110:CDS |
| GCAAACTAGTGTTGAATTCT+GGG | 0.405933 | 6_2:+9108861 | None:intergenic |
| TAAGGGTCTCACACCTCAAC+AGG | 0.416868 | 6_2:-9108549 | Msa0908110:CDS |
| CAGAGCTGCCTCTTCTTCTC+CGG | 0.417460 | 6_2:+9108937 | None:intergenic |
| GAATATCAATATTCGATCAT+AGG | 0.430998 | 6_2:-9108700 | Msa0908110:CDS |
| ATGTAGATCTCAAGGACAAA+TGG | 0.441346 | 6_2:-9108826 | Msa0908110:CDS |
| GAAGAGGCAGCTCTGAAAGC+GGG | 0.486977 | 6_2:-9108929 | Msa0908110:CDS |
| GGCAGAAGCTGCCATGACTA+AGG | 0.496803 | 6_2:-9108495 | Msa0908110:CDS |
| GGAGTAGTCAAACACGGAGC+TGG | 0.501232 | 6_2:-9108908 | Msa0908110:CDS |
| TCAAACACGGAGCTGGAAGA+TGG | 0.524401 | 6_2:-9108901 | Msa0908110:CDS |
| CGACGACAACATTTAGATCA+AGG | 0.524618 | 6_2:-9108790 | Msa0908110:CDS |
| AATAATAATCAATATTCAAG+TGG | 0.553519 | 6_2:-9108722 | Msa0908110:CDS |
| AAAATGGACCGGAGAAGAAG+AGG | 0.564638 | 6_2:-9108945 | Msa0908110:CDS |
| AGCTGCAAAAGCAATGGAGG+AGG | 0.570145 | 6_2:-9108516 | Msa0908110:CDS |
| TCGTTCAAATGTAGATCTCA+AGG | 0.573554 | 6_2:-9108834 | Msa0908110:CDS |
| AGCTGCCATGACTAAGGCTG+AGG | 0.573794 | 6_2:-9108489 | Msa0908110:CDS |
| GGAAGCAACTTATAAGGCAG+AGG | 0.583297 | 6_2:-9108468 | Msa0908110:CDS |
| TGCTTCCTCAGCCTTAGTCA+TGG | 0.584066 | 6_2:+9108484 | None:intergenic |
| AGAAGAAGCTGCAAAAGCAA+TGG | 0.585302 | 6_2:-9108522 | Msa0908110:CDS |
| TGCAAAAGCAGAAATGAAGA+AGG | 0.586897 | 6_2:-9108411 | Msa0908110:CDS |
| GCTTCTTCTATCGCCTGTTG+AGG | 0.590627 | 6_2:+9108536 | None:intergenic |
| AGAAGCTGCAAAAGCAATGG+AGG | 0.603836 | 6_2:-9108519 | Msa0908110:CDS |
| AGAAGAGGCAGCTCTGAAAG+CGG | 0.618500 | 6_2:-9108930 | Msa0908110:CDS |
| TAGATCTCAAGGACAAATGG+AGG | 0.637095 | 6_2:-9108823 | Msa0908110:CDS |
| AAAGCGGGAGTAGTCAAACA+CGG | 0.721145 | 6_2:-9108914 | Msa0908110:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TGATTATTATTTTCAACTTT+AGG | + | chr6_2:9108619-9108638 | None:intergenic | 15.0% |
| !! | AATAATAATCAATATTCAAG+TGG | - | chr6_2:9108628-9108647 | Msa0908110:CDS | 15.0% |
| !!! | AGAGATTTTTAAAATGATTA+AGG | - | chr6_2:9108783-9108802 | Msa0908110:CDS | 15.0% |
| !!! | GAGATTTTTAAAATGATTAA+GGG | - | chr6_2:9108784-9108803 | Msa0908110:CDS | 15.0% |
| !!! | TTATTATTTTCAACTTTAGG+TGG | + | chr6_2:9108616-9108635 | None:intergenic | 20.0% |
| !!! | TAATTTCTTCGTATTTTGAA+AGG | + | chr6_2:9108759-9108778 | None:intergenic | 20.0% |
| ! | GAATATCAATATTCGATCAT+AGG | - | chr6_2:9108650-9108669 | Msa0908110:CDS | 25.0% |
| ! | TTATTTTCAACTTTAGGTGG+AGG | + | chr6_2:9108613-9108632 | None:intergenic | 30.0% |
| ! | GCAAACTAGTGTTGAATTCT+GGG | + | chr6_2:9108492-9108511 | None:intergenic | 35.0% |
| TCGTTCAAATGTAGATCTCA+AGG | - | chr6_2:9108516-9108535 | Msa0908110:CDS | 35.0% | |
| ATGTAGATCTCAAGGACAAA+TGG | - | chr6_2:9108524-9108543 | Msa0908110:CDS | 35.0% | |
| !! | GCGTATTTTTGTTGAAGTTG+AGG | + | chr6_2:9108680-9108699 | None:intergenic | 35.0% |
| AACTTCAACAAAAATACGCG+AGG | - | chr6_2:9108681-9108700 | Msa0908110:CDS | 35.0% | |
| !! | TCATTTCTCTCAGTTGCTTT+TGG | + | chr6_2:9108724-9108743 | None:intergenic | 35.0% |
| TGCAAAAGCAGAAATGAAGA+AGG | - | chr6_2:9108939-9108958 | Msa0908110:CDS | 35.0% | |
| ! | CGCAAACTAGTGTTGAATTC+TGG | + | chr6_2:9108493-9108512 | None:intergenic | 40.0% |
| TAGATCTCAAGGACAAATGG+AGG | - | chr6_2:9108527-9108546 | Msa0908110:CDS | 40.0% | |
| CGACGACAACATTTAGATCA+AGG | - | chr6_2:9108560-9108579 | Msa0908110:CDS | 40.0% | |
| AGAAGAAGCTGCAAAAGCAA+TGG | - | chr6_2:9108828-9108847 | Msa0908110:CDS | 40.0% | |
| TGGGTGCTCCTAAGCAAAAA+TGG | - | chr6_2:9108389-9108408 | Msa0908110:CDS | 45.0% | |
| GCTCCTAAGCAAAAATGGAC+CGG | - | chr6_2:9108394-9108413 | Msa0908110:CDS | 45.0% | |
| !! | TCTCCGGTCCATTTTTGCTT+AGG | + | chr6_2:9108400-9108419 | None:intergenic | 45.0% |
| AAAATGGACCGGAGAAGAAG+AGG | - | chr6_2:9108405-9108424 | Msa0908110:CDS | 45.0% | |
| AAAGCGGGAGTAGTCAAACA+CGG | - | chr6_2:9108436-9108455 | Msa0908110:CDS | 45.0% | |
| AGAAGCTGCAAAAGCAATGG+AGG | - | chr6_2:9108831-9108850 | Msa0908110:CDS | 45.0% | |
| GGCTGAGGAAGCAACTTATA+AGG | - | chr6_2:9108876-9108895 | Msa0908110:CDS | 45.0% | |
| GGAAGCAACTTATAAGGCAG+AGG | - | chr6_2:9108882-9108901 | Msa0908110:CDS | 45.0% | |
| !! | AGAAGAGGCAGCTCTGAAAG+CGG | - | chr6_2:9108420-9108439 | Msa0908110:CDS | 50.0% |
| TCAAACACGGAGCTGGAAGA+TGG | - | chr6_2:9108449-9108468 | Msa0908110:CDS | 50.0% | |
| TAAGGGTCTCACACCTCAAC+AGG | - | chr6_2:9108801-9108820 | Msa0908110:CDS | 50.0% | |
| GCTTCTTCTATCGCCTGTTG+AGG | + | chr6_2:9108817-9108836 | None:intergenic | 50.0% | |
| AGCTGCAAAAGCAATGGAGG+AGG | - | chr6_2:9108834-9108853 | Msa0908110:CDS | 50.0% | |
| TGCTTCCTCAGCCTTAGTCA+TGG | + | chr6_2:9108869-9108888 | None:intergenic | 50.0% | |
| CAGAGCTGCCTCTTCTTCTC+CGG | + | chr6_2:9108416-9108435 | None:intergenic | 55.0% | |
| !! | GAAGAGGCAGCTCTGAAAGC+GGG | - | chr6_2:9108421-9108440 | Msa0908110:CDS | 55.0% |
| GGAGTAGTCAAACACGGAGC+TGG | - | chr6_2:9108442-9108461 | Msa0908110:CDS | 55.0% | |
| GGCAGAAGCTGCCATGACTA+AGG | - | chr6_2:9108855-9108874 | Msa0908110:CDS | 55.0% | |
| AGCTGCCATGACTAAGGCTG+AGG | - | chr6_2:9108861-9108880 | Msa0908110:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_2 | gene | 9108388 | 9108984 | 9108388 | ID=Msa0908110;Name=Msa0908110 |
| chr6_2 | mRNA | 9108388 | 9108984 | 9108388 | ID=Msa0908110-mRNA-1;Parent=Msa0908110;Name=Msa0908110-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|198 |
| chr6_2 | exon | 9108388 | 9108984 | 9108388 | ID=Msa0908110-mRNA-1:exon:2218;Parent=Msa0908110-mRNA-1 |
| chr6_2 | CDS | 9108388 | 9108984 | 9108388 | ID=Msa0908110-mRNA-1:cds;Parent=Msa0908110-mRNA-1 |
| Gene Sequence |
| Protein sequence |
