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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0660100 | XP_003630424.1 | 88.924 | 316 | 31 | 2 | 1 | 316 | 1 | 312 | 6.98e-169 | 481 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0660100 | sp|P81393|MYB08_ANTMA | 65.363 | 179 | 56 | 1 | 1 | 173 | 1 | 179 | 2.53e-81 | 249 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0660100 | Msa0706160 | 0.911681 | 4.615846e-83 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0660100 | MtrunA17_Chr8g0385321 | 88.924 | 316 | 31 | 2 | 1 | 316 | 1 | 312 | 6.42e-173 | 481 |
| Msa0660100 | MtrunA17_Chr3g0131121 | 49.026 | 308 | 98 | 7 | 1 | 282 | 1 | 275 | 3.13e-89 | 268 |
| Msa0660100 | MtrunA17_Chr4g0037141 | 48.758 | 322 | 114 | 10 | 1 | 312 | 1 | 281 | 1.02e-86 | 261 |
| Msa0660100 | MtrunA17_Chr5g0435101 | 61.644 | 146 | 51 | 1 | 3 | 148 | 2 | 142 | 6.01e-66 | 206 |
| Msa0660100 | MtrunA17_Chr7g0270891 | 57.862 | 159 | 67 | 0 | 1 | 159 | 1 | 159 | 8.28e-65 | 208 |
| Msa0660100 | MtrunA17_Chr4g0058631 | 42.629 | 251 | 118 | 3 | 1 | 225 | 1 | 251 | 2.22e-64 | 207 |
| Msa0660100 | MtrunA17_Chr1g0193371 | 68.217 | 129 | 41 | 0 | 1 | 129 | 1 | 129 | 5.78e-64 | 206 |
| Msa0660100 | MtrunA17_Chr1g0193801 | 52.247 | 178 | 78 | 1 | 1 | 178 | 1 | 171 | 1.17e-63 | 206 |
| Msa0660100 | MtrunA17_Chr4g0048511 | 66.667 | 129 | 42 | 1 | 1 | 128 | 1 | 129 | 1.93e-63 | 204 |
| Msa0660100 | MtrunA17_Chr2g0281071 | 67.442 | 129 | 41 | 1 | 1 | 128 | 1 | 129 | 3.67e-63 | 203 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0660100 | AT4G38620.1 | 76.510 | 149 | 34 | 1 | 1 | 149 | 1 | 148 | 6.37e-82 | 249 |
| Msa0660100 | AT2G16720.1 | 82.171 | 129 | 23 | 0 | 1 | 129 | 1 | 129 | 7.89e-81 | 246 |
| Msa0660100 | AT4G09460.1 | 63.483 | 178 | 50 | 2 | 1 | 176 | 1 | 165 | 1.65e-78 | 239 |
| Msa0660100 | AT4G34990.1 | 67.296 | 159 | 44 | 1 | 1 | 159 | 1 | 151 | 2.65e-78 | 240 |
| Msa0660100 | AT1G22640.1 | 80.315 | 127 | 25 | 0 | 1 | 127 | 1 | 127 | 1.68e-77 | 238 |
| Msa0660100 | AT1G35515.1 | 78.571 | 126 | 27 | 0 | 1 | 126 | 1 | 126 | 4.99e-74 | 227 |
| Msa0660100 | AT4G12350.1 | 49.495 | 198 | 90 | 2 | 1 | 198 | 1 | 188 | 1.66e-66 | 210 |
| Msa0660100 | AT5G26660.1 | 60.248 | 161 | 61 | 1 | 1 | 161 | 1 | 158 | 4.88e-66 | 211 |
| Msa0660100 | AT5G16770.4 | 61.644 | 146 | 56 | 0 | 1 | 146 | 1 | 146 | 8.83e-66 | 210 |
| Msa0660100 | AT5G16770.3 | 61.644 | 146 | 56 | 0 | 1 | 146 | 1 | 146 | 8.83e-66 | 210 |
Find 86 sgRNAs with CRISPR-Local
Find 245 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACCATTCCCGACGCCGG+TGG | 0.648900 | 4_3:-70666667 | None:intergenic |
| AAACAAAGGTGCTTGGTCCA+AGG | 0.588189 | 4_3:+70665491 | Msa0660100:CDS |
| AAACGCAAACTCTATAGCCG+TGG | 0.599125 | 4_3:+70666105 | Msa0660100:CDS |
| AAACTTGACAATCCCGGCCC+CGG | 0.577725 | 4_3:-70666700 | None:intergenic |
| AAATTTATAGCCCAAAATAT+TGG | 0.315592 | 4_3:-70667002 | None:intergenic |
| AACAACAAGGTGAAGGTTGC+TGG | 0.363863 | 4_3:+70665544 | Msa0660100:CDS |
| AACACACAAACAAAGGTGCT+TGG | 0.551791 | 4_3:+70665484 | Msa0660100:CDS |
| AACACAGGCTTGGCAAGATG+TGG | 0.575098 | 4_3:+70665696 | Msa0660100:intron |
| AAGCGGCAGCGGCGCCGGAG+AGG | 0.551698 | 4_3:-70666161 | None:intergenic |
| AAGGCGTTCATCTTCTTCCT+TGG | 0.409969 | 4_3:-70665508 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GAAAAACAACACACAAACAA+AGG | + | chr4_3:70665477-70665496 | Msa0660100:CDS | 30.0% | |
| ACAATGAGATCAAGAACTAT+TGG | + | chr4_3:70666070-70666089 | Msa0660100:CDS | 30.0% | |
| CAGTTATTCAGTAATTTCAG+TGG | + | chr4_3:70666345-70666364 | Msa0660100:CDS | 30.0% | |
| AATCAACTTGGAACTTTCAT+TGG | + | chr4_3:70666479-70666498 | Msa0660100:CDS | 30.0% | |
| CTTTGTCGTCAAATATCTTT+AGG | + | chr4_3:70666546-70666565 | Msa0660100:CDS | 30.0% | |
| GAAAAACAACACACAAACAA+AGG | + | chr4_3:70665477-70665496 | Msa0660100:CDS | 30.0% | |
| ACAATGAGATCAAGAACTAT+TGG | + | chr4_3:70666070-70666089 | Msa0660100:CDS | 30.0% | |
| CAGTTATTCAGTAATTTCAG+TGG | + | chr4_3:70666345-70666364 | Msa0660100:CDS | 30.0% | |
| AATCAACTTGGAACTTTCAT+TGG | + | chr4_3:70666479-70666498 | Msa0660100:CDS | 30.0% | |
| CTTTGTCGTCAAATATCTTT+AGG | + | chr4_3:70666546-70666565 | Msa0660100:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_3 | gene | 70665430 | 70667049 | 70665430 | ID=Msa0660100;Name=Msa0660100 |
| chr4_3 | mRNA | 70665430 | 70667049 | 70665430 | ID=Msa0660100-mRNA-1;Parent=Msa0660100;Name=Msa0660100-mRNA-1;_AED=0.05;_eAED=0.05;_QI=26|1|1|1|1|1|3|324|318 |
| chr4_3 | exon | 70665430 | 70665588 | 70665430 | ID=Msa0660100-mRNA-1:exon:21027;Parent=Msa0660100-mRNA-1 |
| chr4_3 | exon | 70665703 | 70665832 | 70665703 | ID=Msa0660100-mRNA-1:exon:21028;Parent=Msa0660100-mRNA-1 |
| chr4_3 | exon | 70666032 | 70667049 | 70666032 | ID=Msa0660100-mRNA-1:exon:21029;Parent=Msa0660100-mRNA-1 |
| chr4_3 | five_prime_UTR | 70665430 | 70665455 | 70665430 | ID=Msa0660100-mRNA-1:five_prime_utr;Parent=Msa0660100-mRNA-1 |
| chr4_3 | CDS | 70665456 | 70665588 | 70665456 | ID=Msa0660100-mRNA-1:cds;Parent=Msa0660100-mRNA-1 |
| chr4_3 | CDS | 70665703 | 70665832 | 70665703 | ID=Msa0660100-mRNA-1:cds;Parent=Msa0660100-mRNA-1 |
| chr4_3 | CDS | 70666032 | 70666725 | 70666032 | ID=Msa0660100-mRNA-1:cds;Parent=Msa0660100-mRNA-1 |
| chr4_3 | three_prime_UTR | 70666726 | 70667049 | 70666726 | ID=Msa0660100-mRNA-1:three_prime_utr;Parent=Msa0660100-mRNA-1 |
| Gene Sequence |
>Msa0660100 ATGGGTAGATCTCCTTGCTGTGAAAAACAACACACAAACAAAGGTGCTTGGTCCAAGGAAGAAGATGAACGCCTTATTAACTACATCAAACAACAAGGTGAAGGTTGCTGGCGTTCTCTTCCTAAAGCCGCAGGCTTGGCAAGATGTGGAAAAAGCTGTAGATTGAGATGGATCAATTATCTCAGACCTGATCTTAAACGTGGAAACTTCACTCACGAGGAAGATGAACTTATCATTAGCCTCCACGCTATGGTTGGAAACAAATGGTCTCAGATTGCTCAAAAATTGCCCGGAAGAACAGACAATGAGATCAAGAACTATTGGAACACTCACATAAAACGCAAACTCTATAGCCGTGGAATTGATCCTACAACACATCAGCCACTCAAAACCCTCTCCGGCGCCGCTGCCGCTTCAGCCGGTACTTCCTCAGCAGCAACCACCTCTGCAGAAGCTGCTTCTCCTTCAATGGTTGTTAATAATAATTCATCCGTATTACCTGTAGTACCCTCAACCAACGAGAGCAGTACTAGTAGCAGCATGAGCCACCACCACAACAAGATTAAGAGTGAGTTTCAGTTATTCAGTAATTTCAGTGGCTCTCGGCTTAAAAAGTTTGTTGCAACTGATTCTGTCCATGGTGGTGTCGAAGAATCAGTTTCAAACAGTAGCAGTGGTGTTACCGTTGAGGATATAGCTTATCCTCCTCCAATCAACTTGGAACTTTCATTGGCTATATCCTCTCCCTCTCAACAGCCACAGCAAAAAGCTTTGTGTCTTTGTCGTCAAATATCTTTAGGGTTACATGGTAGTAGCCAACAACCTTGTTGCTGCAATAATACCATGCCTATCGTTGGTGTTTCAACTTCTTATGCTGTTACTGCTCCACCACCTGCTACCACCGGCGTCGGGAATGGTTTTTTCAAATTTTCCGGGGCCGGGATTGTCAAGTTTTGA |
| Protein sequence |
>Msa0660100 MGRSPCCEKQHTNKGAWSKEEDERLINYIKQQGEGCWRSLPKAAGLARCGKSCRLRWINYLRPDLKRGNFTHEEDELIISLHAMVGNKWSQIAQKLPGRTDNEIKNYWNTHIKRKLYSRGIDPTTHQPLKTLSGAAAASAGTSSAATTSAEAASPSMVVNNNSSVLPVVPSTNESSTSSSMSHHHNKIKSEFQLFSNFSGSRLKKFVATDSVHGGVEESVSNSSSGVTVEDIAYPPPINLELSLAISSPSQQPQQKALCLCRQISLGLHGSSQQPCCCNNTMPIVGVSTSYAVTAPPPATTGVGNGFFKFSGAGIVKF* |
