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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0474360 | XP_039687657.1 | 91.246 | 297 | 25 | 1 | 1 | 296 | 1 | 297 | 5.26e-178 | 503 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0474360 | sp|P81393|MYB08_ANTMA | 52.688 | 279 | 82 | 5 | 1 | 276 | 1 | 232 | 3.27e-89 | 268 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0474360 | A0A072V1E2 | 91.246 | 297 | 25 | 1 | 1 | 296 | 1 | 297 | 2.51e-178 | 503 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0474360 | Msa0518780 | 0.929303 | 8.434181e-93 | -8.615850e-47 |
| Msa0474360 | Msa1268720 | 0.903225 | 4.323533e-79 | -8.615850e-47 |
| Msa0474360 | Msa1463410 | 0.931467 | 3.619906e-94 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0474360 | MtrunA17_Chr3g0131121 | 91.246 | 297 | 25 | 1 | 1 | 296 | 1 | 297 | 0.0 | 503 |
| Msa0474360 | MtrunA17_Chr4g0037141 | 51.701 | 294 | 113 | 7 | 1 | 290 | 1 | 269 | 4.41e-92 | 275 |
| Msa0474360 | MtrunA17_Chr8g0385321 | 44.776 | 335 | 111 | 9 | 1 | 290 | 1 | 306 | 2.37e-84 | 256 |
| Msa0474360 | MtrunA17_Chr5g0435101 | 71.200 | 125 | 36 | 0 | 3 | 127 | 2 | 126 | 2.46e-68 | 211 |
| Msa0474360 | MtrunA17_Chr4g0039971 | 60.390 | 154 | 61 | 0 | 1 | 154 | 2 | 155 | 2.31e-64 | 206 |
| Msa0474360 | MtrunA17_Chr7g0217741 | 64.286 | 140 | 45 | 1 | 1 | 140 | 1 | 135 | 5.23e-64 | 204 |
| Msa0474360 | MtrunA17_Chr3g0115821 | 58.940 | 151 | 59 | 1 | 1 | 151 | 1 | 148 | 9.05e-64 | 204 |
| Msa0474360 | MtrunA17_Chr2g0323411 | 70.312 | 128 | 38 | 0 | 1 | 128 | 1 | 128 | 9.17e-64 | 203 |
| Msa0474360 | MtrunA17_Chr5g0410961 | 68.702 | 131 | 41 | 0 | 1 | 131 | 1 | 131 | 1.10e-63 | 204 |
| Msa0474360 | MtrunA17_Chr1g0193371 | 66.412 | 131 | 44 | 0 | 1 | 131 | 1 | 131 | 1.55e-63 | 204 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0474360 | AT2G16720.1 | 61.883 | 223 | 60 | 4 | 1 | 222 | 1 | 199 | 4.43e-89 | 266 |
| Msa0474360 | AT4G09460.1 | 60.000 | 225 | 70 | 5 | 1 | 223 | 1 | 207 | 5.60e-88 | 263 |
| Msa0474360 | AT4G38620.1 | 79.470 | 151 | 31 | 0 | 1 | 151 | 1 | 151 | 1.13e-87 | 263 |
| Msa0474360 | AT1G22640.1 | 50.549 | 273 | 103 | 7 | 1 | 268 | 1 | 246 | 5.00e-85 | 256 |
| Msa0474360 | AT4G34990.1 | 82.963 | 135 | 23 | 0 | 1 | 135 | 1 | 135 | 3.75e-83 | 251 |
| Msa0474360 | AT1G35515.1 | 71.429 | 154 | 41 | 2 | 1 | 154 | 1 | 151 | 1.48e-76 | 233 |
| Msa0474360 | AT5G16770.4 | 63.576 | 151 | 55 | 0 | 1 | 151 | 1 | 151 | 5.11e-69 | 217 |
| Msa0474360 | AT5G16770.3 | 63.576 | 151 | 55 | 0 | 1 | 151 | 1 | 151 | 5.11e-69 | 217 |
| Msa0474360 | AT5G16770.1 | 63.576 | 151 | 55 | 0 | 1 | 151 | 1 | 151 | 1.72e-68 | 216 |
| Msa0474360 | AT5G16770.2 | 63.576 | 151 | 55 | 0 | 1 | 151 | 1 | 151 | 1.72e-68 | 216 |
Find 74 sgRNAs with CRISPR-Local
Find 220 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAGATTAATGGAACCAAGT+TGG | 0.550100 | 3_3:+77216047 | Msa0474360:CDS |
| AAATCTATACATATTATTAT+CGG | 0.425442 | 3_3:-77216346 | None:intergenic |
| AAGCGAAAACTCTACAGCCG+TGG | 0.621802 | 3_3:+77215835 | Msa0474360:CDS |
| AAGGAGGTGCAATTGACTCG+GGG | 0.689963 | 3_3:-77214673 | None:intergenic |
| AAGTTTCCTCTCTTGAGATC+AGG | 0.446834 | 3_3:-77215123 | None:intergenic |
| AATGGAAGGTAGTGGTGATA+AGG | 0.454978 | 3_3:-77214692 | None:intergenic |
| ACAAAGGTTACTGCTAATCA+CGG | 0.653532 | 3_3:+77216234 | Msa0474360:CDS |
| ACAAGGAGATCTGCCCATAG+TGG | 0.589179 | 3_3:-77214805 | None:intergenic |
| ACGACGGAAGACCAATGGAA+AGG | 0.664616 | 3_3:-77216146 | None:intergenic |
| ACTGACACTGCAGCATTAGC+TGG | 0.515487 | 3_3:-77215919 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TATATTGGTGAGAGAAAAGA+GGG | - | chr3_3:77214731-77214750 | None:intergenic | 30.0% | |
| TTATATTGGTGAGAGAAAAG+AGG | - | chr3_3:77214732-77214751 | None:intergenic | 30.0% | |
| ATTAACTACATCAAGCTTCA+TGG | + | chr3_3:77214885-77214904 | Msa0474360:CDS | 30.0% | |
| TATATGGTTGTGATGATTGT+AGG | + | chr3_3:77215048-77215067 | Msa0474360:intron | 30.0% | |
| TAGTTGTCGATATCTTATGT+TGG | + | chr3_3:77215645-77215664 | Msa0474360:intron | 30.0% | |
| CACACAAGAATTTAACAAAG+AGG | - | chr3_3:77215693-77215712 | None:intergenic | 30.0% | |
| ATATATGTGGTACTTGAGTT+AGG | - | chr3_3:77215725-77215744 | None:intergenic | 30.0% | |
| GGTTCCATTAATCTTTGTAT+TGG | - | chr3_3:77216043-77216062 | None:intergenic | 30.0% | |
| AAAGATTAATGGAACCAAGT+TGG | + | chr3_3:77216047-77216066 | Msa0474360:CDS | 30.0% | |
| TATATTGGTGAGAGAAAAGA+GGG | - | chr3_3:77214731-77214750 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_3 | gene | 77214639 | 77216601 | 77214639 | ID=Msa0474360;Name=Msa0474360 |
| chr3_3 | mRNA | 77214639 | 77216601 | 77214639 | ID=Msa0474360-mRNA-1;Parent=Msa0474360;Name=Msa0474360-mRNA-1;_AED=0.05;_eAED=0.05;_QI=171|1|1|1|1|1|3|212|296 |
| chr3_3 | exon | 77214639 | 77214942 | 77214639 | ID=Msa0474360-mRNA-1:exon:20548;Parent=Msa0474360-mRNA-1 |
| chr3_3 | exon | 77215070 | 77215199 | 77215070 | ID=Msa0474360-mRNA-1:exon:20549;Parent=Msa0474360-mRNA-1 |
| chr3_3 | exon | 77215762 | 77216601 | 77215762 | ID=Msa0474360-mRNA-1:exon:20550;Parent=Msa0474360-mRNA-1 |
| chr3_3 | five_prime_UTR | 77214639 | 77214809 | 77214639 | ID=Msa0474360-mRNA-1:five_prime_utr;Parent=Msa0474360-mRNA-1 |
| chr3_3 | CDS | 77214810 | 77214942 | 77214810 | ID=Msa0474360-mRNA-1:cds;Parent=Msa0474360-mRNA-1 |
| chr3_3 | CDS | 77215070 | 77215199 | 77215070 | ID=Msa0474360-mRNA-1:cds;Parent=Msa0474360-mRNA-1 |
| chr3_3 | CDS | 77215762 | 77216389 | 77215762 | ID=Msa0474360-mRNA-1:cds;Parent=Msa0474360-mRNA-1 |
| chr3_3 | three_prime_UTR | 77216390 | 77216601 | 77216390 | ID=Msa0474360-mRNA-1:three_prime_utr;Parent=Msa0474360-mRNA-1 |
| Gene Sequence |
>Msa0474360 ATGGGCAGATCTCCTTGTTGTGAGAAAGAGCACACAAACAAAGGTGCTTGGACAAAAGAAGAAGATGAACGTCTCATTAACTACATCAAGCTTCATGGAGAAGGTTGTTGGAGGTCTCTTCCAAAAGCTGCTGGCTTGCTAAGATGTGGCAAGAGTTGCAGATTGAGATGGATAAATTATCTAAGACCTGATCTCAAGAGAGGAAACTTCACTGAACAAGAAGATGATCTTATCATTAACCTCCACAGCTTACTTGGAAACAAATGGTCGTTAATAGCTGCTAGATTACCAGGAAGAACAGATAATGAGATCAAGAATTACTGGAACACTCACATCAAGCGAAAACTCTACAGCCGTGGAGTCGACCCTCAAACTCATCGGCCACTTAACGACTCAACGGCATCCACCACCATAATTCCACCAGCTAATGCTGCAGTGTCAGTATCTCAAATTCCCACAAGCAACATTAAGAACATGATCATCAAAGATATTAGCATTATTAACAACAACGACCACAGTTTTAAGTTAGTGAGTGGCTATGCCAATACAAAGATTAATGGAACCAAGTTGGTATGTGAAGATTCAAATTCAAATAACAGTAGCGGAGTTAGCTCCGAGGAAGCATGTCATCATCAACTAAATTTGGACCTTTCCATTGGTCTTCCGTCGTCACATCCTCAAGTGAACGATGAAAAATTGAAATTACAACAACTACAAGGTGATGAGCAACAAGAAACAAAGGTTACTGCTAATCACGGTCTGTGTCTTTGTTATGGTCTAGGGTTTCAAAGCAACCAAGTGTGTTACTGCAACAAAGCCATAGGTAACACTGTTGCTACAAATGTCACCGATAATAATATGTATAGATTTTACAGACCCATGAATATTTAA |
| Protein sequence |
>Msa0474360 MGRSPCCEKEHTNKGAWTKEEDERLINYIKLHGEGCWRSLPKAAGLLRCGKSCRLRWINYLRPDLKRGNFTEQEDDLIINLHSLLGNKWSLIAARLPGRTDNEIKNYWNTHIKRKLYSRGVDPQTHRPLNDSTASTTIIPPANAAVSVSQIPTSNIKNMIIKDISIINNNDHSFKLVSGYANTKINGTKLVCEDSNSNNSSGVSSEEACHHQLNLDLSIGLPSSHPQVNDEKLKLQQLQGDEQQETKVTANHGLCLCYGLGFQSNQVCYCNKAIGNTVATNVTDNNMYRFYRPMNI* |
