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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0383730 | AES73887.1 | 95.238 | 147 | 7 | 0 | 1 | 147 | 1 | 147 | 7.14e-98 | 288 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0383730 | G7J3I0 | 95.238 | 147 | 7 | 0 | 1 | 147 | 1 | 147 | 3.41e-98 | 288 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0383730 | Msa1463810 | 0.889040 | 3.455719e-73 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0383730 | MtrunA17_Chr3g0140381 | 95.238 | 147 | 7 | 0 | 1 | 147 | 1 | 147 | 6.57e-102 | 288 |
| Msa0383730 | MtrunA17_Chr8g0344381 | 41.667 | 108 | 61 | 2 | 36 | 142 | 30 | 136 | 1.21e-24 | 92.8 |
| Msa0383730 | MtrunA17_Chr4g0070351 | 44.681 | 94 | 51 | 1 | 36 | 128 | 30 | 123 | 2.54e-21 | 83.6 |
| Msa0383730 | MtrunA17_Chr5g0394601 | 42.222 | 90 | 48 | 1 | 36 | 125 | 2 | 87 | 4.14e-21 | 82.4 |
| Msa0383730 | MtrunA17_Chr3g0136441 | 35.185 | 108 | 69 | 1 | 36 | 143 | 11 | 117 | 5.54e-19 | 77.4 |
| Msa0383730 | MtrunA17_Chr4g0070371 | 41.053 | 95 | 54 | 1 | 36 | 128 | 24 | 118 | 8.41e-19 | 77.8 |
| Msa0383730 | MtrunA17_Chr2g0331111 | 34.959 | 123 | 77 | 3 | 4 | 126 | 32 | 151 | 1.33e-18 | 78.2 |
| Msa0383730 | MtrunA17_Chr8g0340421 | 34.146 | 123 | 79 | 2 | 4 | 126 | 31 | 151 | 3.02e-18 | 77.0 |
| Msa0383730 | MtrunA17_Chr1g0150711 | 34.259 | 108 | 67 | 2 | 24 | 128 | 4 | 110 | 1.63e-17 | 74.3 |
| Msa0383730 | MtrunA17_Chr1g0205251 | 37.500 | 88 | 50 | 2 | 36 | 122 | 2 | 85 | 9.04e-16 | 68.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0383730 | AT2G25780.1 | 36.429 | 140 | 87 | 2 | 8 | 145 | 7 | 146 | 1.43e-22 | 87.8 |
| Msa0383730 | AT1G79770.1 | 38.655 | 119 | 68 | 2 | 8 | 126 | 27 | 140 | 1.72e-19 | 80.1 |
| Msa0383730 | AT4G14819.1 | 41.111 | 90 | 47 | 2 | 36 | 125 | 2 | 85 | 2.59e-19 | 77.8 |
| Msa0383730 | AT1G72510.1 | 37.895 | 95 | 58 | 1 | 35 | 128 | 32 | 126 | 6.73e-19 | 78.6 |
| Msa0383730 | AT1G72510.2 | 37.895 | 95 | 58 | 1 | 35 | 128 | 32 | 126 | 6.73e-19 | 78.6 |
| Msa0383730 | AT3G22540.1 | 37.778 | 90 | 52 | 2 | 36 | 125 | 2 | 87 | 2.69e-17 | 72.8 |
| Msa0383730 | AT5G20670.1 | 38.889 | 72 | 44 | 0 | 34 | 105 | 20 | 91 | 6.25e-15 | 67.8 |
| Msa0383730 | AT5G25840.1 | 31.013 | 158 | 85 | 4 | 8 | 145 | 4 | 157 | 3.28e-14 | 66.6 |
| Msa0383730 | AT1G54095.1 | 37.895 | 95 | 54 | 2 | 36 | 127 | 15 | 107 | 1.54e-13 | 64.3 |
| Msa0383730 | AT2G09970.1 | 34.343 | 99 | 57 | 3 | 35 | 128 | 32 | 127 | 2.08e-13 | 64.3 |
Find 29 sgRNAs with CRISPR-Local
Find 34 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GACAAAGTTAACGAGAGTTT+AGG | 0.311962 | 3_1:+86724539 | None:intergenic |
| ACAAAGTTAACGAGAGTTTA+GGG | 0.372573 | 3_1:+86724540 | None:intergenic |
| CAAAAGGAATTGTAAGGGAT+TGG | 0.373720 | 3_1:-86724486 | Msa0383730:CDS |
| TGATTGTGGCATTATATTCC+TGG | 0.387287 | 3_1:+86724570 | None:intergenic |
| TTTAGACAAAAGGAATTGTA+AGG | 0.387538 | 3_1:-86724492 | Msa0383730:CDS |
| TCTCGTTAACTTTGTCTATG+AGG | 0.419678 | 3_1:-86724532 | Msa0383730:CDS |
| CTAAGAGAAGTTTAGACAAA+AGG | 0.433359 | 3_1:-86724502 | Msa0383730:CDS |
| AAGATGATTATTGTGGAAAG+TGG | 0.449511 | 3_1:-86724691 | Msa0383730:CDS |
| AAAAGGAATTGTAAGGGATT+GGG | 0.455861 | 3_1:-86724485 | Msa0383730:CDS |
| GAAGCTGTTAAAGATAAAGT+AGG | 0.460735 | 3_1:-86724650 | Msa0383730:CDS |
| AAGCTGTTAAAGATAAAGTA+GGG | 0.480140 | 3_1:-86724649 | Msa0383730:CDS |
| CTCGTTAACTTTGTCTATGA+GGG | 0.501305 | 3_1:-86724531 | Msa0383730:CDS |
| CTTCTTTCATCCCACAACAT+TGG | 0.506214 | 3_1:+86724744 | None:intergenic |
| AATTAACAAATACTATAACT+TGG | 0.525508 | 3_1:-86724816 | Msa0383730:CDS |
| AGGAGTGCAAGTTATCCATA+AGG | 0.525681 | 3_1:-86724446 | None:intergenic |
| GTCTCAGATGGATTTCAGCC+AGG | 0.530828 | 3_1:-86724588 | Msa0383730:CDS |
| TTTAGGGTTAAGTCTGATTG+TGG | 0.540154 | 3_1:+86724556 | None:intergenic |
| AAGCTGAATGCCAATGTTGT+GGG | 0.549736 | 3_1:-86724754 | Msa0383730:CDS |
| TGATGCTTTGAAGTCTCAGA+TGG | 0.552591 | 3_1:-86724600 | Msa0383730:CDS |
| TTAGACAAAAGGAATTGTAA+GGG | 0.554428 | 3_1:-86724491 | Msa0383730:CDS |
| TGGGAATAACTAAGCTCACT+AGG | 0.561524 | 3_1:-86724466 | Msa0383730:CDS |
| AAGGCTACGAAAGGTGGTCT+CGG | 0.565134 | 3_1:-86724852 | Msa0383730:CDS |
| TATTGTGGAAAGTGGGTGTG+TGG | 0.585148 | 3_1:-86724683 | Msa0383730:CDS |
| GAAGTTGAAGATGATTATTG+TGG | 0.588913 | 3_1:-86724698 | Msa0383730:CDS |
| GAAGCTGAATGCCAATGTTG+TGG | 0.606985 | 3_1:-86724755 | Msa0383730:CDS |
| TCAGCAAAGGCTACGAAAGG+TGG | 0.612007 | 3_1:-86724858 | Msa0383730:CDS |
| GAGTCAGCAAAGGCTACGAA+AGG | 0.612454 | 3_1:-86724861 | Msa0383730:CDS |
| AGATGATTATTGTGGAAAGT+GGG | 0.615123 | 3_1:-86724690 | Msa0383730:CDS |
| TATAGGAGGAGAGTCAGCAA+AGG | 0.654980 | 3_1:-86724871 | Msa0383730:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TGAATAAATTAGAGATTAAT+GGG | + | chr3_1:86724467-86724486 | None:intergenic | 15.0% |
| !! | ATGAATAAATTAGAGATTAA+TGG | + | chr3_1:86724468-86724487 | None:intergenic | 15.0% |
| !! | AATTAACAAATACTATAACT+TGG | - | chr3_1:86724615-86724634 | Msa0383730:CDS | 15.0% |
| ! | AATTTCCTGTTTCCATATAT+AGG | - | chr3_1:86724543-86724562 | Msa0383730:CDS | 25.0% |
| ! | AAGCTGTTAAAGATAAAGTA+GGG | - | chr3_1:86724782-86724801 | Msa0383730:CDS | 25.0% |
| ! | TTTAGACAAAAGGAATTGTA+AGG | - | chr3_1:86724939-86724958 | Msa0383730:intron | 25.0% |
| ! | TTAGACAAAAGGAATTGTAA+GGG | - | chr3_1:86724940-86724959 | Msa0383730:intron | 25.0% |
| GAAGTTGAAGATGATTATTG+TGG | - | chr3_1:86724733-86724752 | Msa0383730:CDS | 30.0% | |
| AAGATGATTATTGTGGAAAG+TGG | - | chr3_1:86724740-86724759 | Msa0383730:CDS | 30.0% | |
| AGATGATTATTGTGGAAAGT+GGG | - | chr3_1:86724741-86724760 | Msa0383730:CDS | 30.0% | |
| GAAGCTGTTAAAGATAAAGT+AGG | - | chr3_1:86724781-86724800 | Msa0383730:CDS | 30.0% | |
| ACAAAGTTAACGAGAGTTTA+GGG | + | chr3_1:86724894-86724913 | None:intergenic | 30.0% | |
| CTAAGAGAAGTTTAGACAAA+AGG | - | chr3_1:86724929-86724948 | Msa0383730:intron | 30.0% | |
| AAAAGGAATTGTAAGGGATT+GGG | - | chr3_1:86724946-86724965 | Msa0383730:intron | 30.0% | |
| TTCCTGTTTCCATATATAGG+AGG | - | chr3_1:86724546-86724565 | Msa0383730:CDS | 35.0% | |
| TGATTGTGGCATTATATTCC+TGG | + | chr3_1:86724864-86724883 | None:intergenic | 35.0% | |
| ! | TTTAGGGTTAAGTCTGATTG+TGG | + | chr3_1:86724878-86724897 | None:intergenic | 35.0% |
| GACAAAGTTAACGAGAGTTT+AGG | + | chr3_1:86724895-86724914 | None:intergenic | 35.0% | |
| TCTCGTTAACTTTGTCTATG+AGG | - | chr3_1:86724899-86724918 | Msa0383730:intron | 35.0% | |
| CTCGTTAACTTTGTCTATGA+GGG | - | chr3_1:86724900-86724919 | Msa0383730:intron | 35.0% | |
| CAAAAGGAATTGTAAGGGAT+TGG | - | chr3_1:86724945-86724964 | Msa0383730:intron | 35.0% | |
| CTCCTCCTATATATGGAAAC+AGG | + | chr3_1:86724551-86724570 | None:intergenic | 40.0% | |
| AAGCTGAATGCCAATGTTGT+GGG | - | chr3_1:86724677-86724696 | Msa0383730:CDS | 40.0% | |
| CTTCTTTCATCCCACAACAT+TGG | + | chr3_1:86724690-86724709 | None:intergenic | 40.0% | |
| !! | TGATGCTTTGAAGTCTCAGA+TGG | - | chr3_1:86724831-86724850 | Msa0383730:CDS | 40.0% |
| TGGGAATAACTAAGCTCACT+AGG | - | chr3_1:86724965-86724984 | Msa0383730:intron | 40.0% | |
| ! | GCTGACTCTCCTCCTATATA+TGG | + | chr3_1:86724558-86724577 | None:intergenic | 45.0% |
| TATAGGAGGAGAGTCAGCAA+AGG | - | chr3_1:86724560-86724579 | Msa0383730:CDS | 45.0% | |
| GAAGCTGAATGCCAATGTTG+TGG | - | chr3_1:86724676-86724695 | Msa0383730:CDS | 45.0% | |
| TATTGTGGAAAGTGGGTGTG+TGG | - | chr3_1:86724748-86724767 | Msa0383730:CDS | 45.0% | |
| GAGTCAGCAAAGGCTACGAA+AGG | - | chr3_1:86724570-86724589 | Msa0383730:CDS | 50.0% | |
| TCAGCAAAGGCTACGAAAGG+TGG | - | chr3_1:86724573-86724592 | Msa0383730:CDS | 50.0% | |
| AAGGCTACGAAAGGTGGTCT+CGG | - | chr3_1:86724579-86724598 | Msa0383730:CDS | 50.0% | |
| ! | GTCTCAGATGGATTTCAGCC+AGG | - | chr3_1:86724843-86724862 | Msa0383730:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 86724448 | 86725005 | 86724448 | ID=Msa0383730;Name=Msa0383730 |
| chr3_1 | mRNA | 86724448 | 86725005 | 86724448 | ID=Msa0383730-mRNA-1;Parent=Msa0383730;Name=Msa0383730-mRNA-1;_AED=0.24;_eAED=0.24;_QI=0|0|0|0.5|1|1|2|0|147 |
| chr3_1 | exon | 86725003 | 86725005 | 86725003 | ID=Msa0383730-mRNA-1:exon:22992;Parent=Msa0383730-mRNA-1 |
| chr3_1 | exon | 86724448 | 86724888 | 86724448 | ID=Msa0383730-mRNA-1:exon:22991;Parent=Msa0383730-mRNA-1 |
| chr3_1 | CDS | 86725003 | 86725005 | 86725003 | ID=Msa0383730-mRNA-1:cds;Parent=Msa0383730-mRNA-1 |
| chr3_1 | CDS | 86724448 | 86724888 | 86724448 | ID=Msa0383730-mRNA-1:cds;Parent=Msa0383730-mRNA-1 |
| Gene Sequence |
| Protein sequence |
