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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0517700 | XP_003602483.1 | 96.927 | 358 | 7 | 2 | 1 | 356 | 1 | 356 | 0.0 | 705 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0517700 | sp|Q9SJ04|SKIP6_ARATH | 55.899 | 356 | 140 | 7 | 7 | 351 | 18 | 367 | 8.37e-138 | 399 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0032840 | Msa0517700 | 0.804972 | 1.671254e-49 | -8.615850e-47 |
| Msa0227020 | Msa0517700 | 0.833208 | 6.083748e-56 | -8.615850e-47 |
| Msa0230550 | Msa0517700 | 0.807522 | 4.850827e-50 | -8.615850e-47 |
| Msa0238070 | Msa0517700 | 0.818641 | 1.763278e-52 | -8.615850e-47 |
| Msa0259860 | Msa0517700 | 0.829495 | 4.986783e-55 | -8.615850e-47 |
| Msa0305340 | Msa0517700 | 0.828099 | 1.085029e-54 | -8.615850e-47 |
| Msa0341460 | Msa0517700 | 0.825247 | 5.202793e-54 | -8.615850e-47 |
| Msa0473380 | Msa0517700 | 0.978307 | 1.492476e-145 | -8.615850e-47 |
| Msa0517700 | Msa0575990 | 0.802428 | 5.637494e-49 | -8.615850e-47 |
| Msa0517700 | Msa0576100 | 0.801331 | 9.471110e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0517700 | MtrunA17_Chr3g0129221 | 96.927 | 358 | 7 | 2 | 1 | 356 | 1 | 356 | 0.0 | 705 |
| Msa0517700 | MtrunA17_Chr8g0348991 | 30.712 | 267 | 155 | 8 | 4 | 250 | 20 | 276 | 1.18e-28 | 114 |
| Msa0517700 | MtrunA17_Chr4g0063531 | 30.225 | 311 | 193 | 12 | 2 | 294 | 60 | 364 | 2.04e-25 | 106 |
| Msa0517700 | MtrunA17_Chr2g0285851 | 29.592 | 294 | 178 | 11 | 9 | 280 | 52 | 338 | 7.54e-25 | 104 |
| Msa0517700 | MtrunA17_Chr8g0378511 | 28.618 | 304 | 193 | 11 | 9 | 294 | 77 | 374 | 1.40e-24 | 103 |
| Msa0517700 | MtrunA17_Chr3g0115401 | 24.348 | 345 | 182 | 8 | 4 | 270 | 38 | 381 | 1.46e-21 | 95.5 |
| Msa0517700 | MtrunA17_Chr2g0278921 | 24.058 | 345 | 182 | 7 | 6 | 270 | 40 | 384 | 2.29e-18 | 86.3 |
| Msa0517700 | MtrunA17_Chr8g0377241 | 27.426 | 237 | 152 | 7 | 4 | 224 | 46 | 278 | 4.40e-18 | 84.7 |
| Msa0517700 | MtrunA17_Chr3g0122681 | 29.954 | 217 | 137 | 7 | 5 | 212 | 31 | 241 | 5.84e-17 | 81.3 |
| Msa0517700 | MtrunA17_Chr2g0326541 | 25.723 | 311 | 195 | 11 | 6 | 290 | 17 | 317 | 6.30e-16 | 78.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0517700 | AT2G21950.1 | 55.899 | 356 | 140 | 7 | 7 | 351 | 18 | 367 | 8.51e-139 | 399 |
| Msa0517700 | AT4G39550.1 | 38.421 | 380 | 194 | 12 | 5 | 353 | 19 | 389 | 4.38e-72 | 229 |
| Msa0517700 | AT4G39580.1 | 35.925 | 373 | 203 | 13 | 2 | 350 | 9 | 369 | 4.15e-64 | 208 |
| Msa0517700 | AT4G39240.1 | 34.358 | 358 | 202 | 10 | 13 | 356 | 37 | 375 | 2.80e-61 | 201 |
| Msa0517700 | AT5G49000.2 | 35.813 | 363 | 203 | 14 | 11 | 356 | 23 | 372 | 4.93e-57 | 190 |
| Msa0517700 | AT4G23580.1 | 36.413 | 368 | 193 | 14 | 1 | 340 | 9 | 363 | 3.84e-56 | 188 |
| Msa0517700 | AT4G33900.1 | 36.415 | 357 | 185 | 14 | 13 | 340 | 15 | 358 | 1.69e-55 | 186 |
| Msa0517700 | AT4G39590.1 | 36.605 | 377 | 193 | 17 | 10 | 355 | 38 | 399 | 2.30e-55 | 186 |
| Msa0517700 | AT5G48990.1 | 34.204 | 383 | 205 | 14 | 2 | 356 | 9 | 372 | 1.22e-53 | 181 |
| Msa0517700 | AT4G11770.1 | 32.593 | 405 | 195 | 15 | 10 | 356 | 12 | 396 | 2.03e-51 | 176 |
Find 148 sgRNAs with CRISPR-Local
Find 312 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAACGAGGGTGAGGGTTGTG+TGG | 0.611470 | 3_4:-69415967 | None:intergenic |
| AAATAAGAAGGGGAAAGAAA+TGG | 0.497591 | 3_4:+69416789 | Msa0517700:CDS |
| AACAGAAGAACAATGAACAA+TGG | 0.652676 | 3_4:-69416920 | None:intergenic |
| AAGAAGAAGAAGAATAAGGA+TGG | 0.461286 | 3_4:+69416838 | Msa0517700:CDS |
| AAGGAAGAGGAGGGAGAGGG+AGG | 0.303836 | 3_4:-69416135 | None:intergenic |
| AATAAGGATGGGGAATTGTG+GGG | 0.601563 | 3_4:+69416850 | Msa0517700:CDS |
| AATGGAGCGTGGGAGAGCGT+TGG | 0.540307 | 3_4:+69416541 | Msa0517700:CDS |
| AATGGATTGGTTTGGAAACG+AGG | 0.527115 | 3_4:-69415982 | None:intergenic |
| AATGTTCTTTCTGTTCCTAA+AGG | 0.426640 | 3_4:+69416892 | Msa0517700:CDS |
| AATTGTGGGGTGAAGTTTGT+TGG | 0.325029 | 3_4:+69416863 | Msa0517700:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AAATAAGAAGGGGAAAGAAA+TGG | + | chr3_4:69416789-69416808 | Msa0517700:CDS | 30.0% | |
| TGTGAAGAAGAAGAAGAATA+AGG | + | chr3_4:69416834-69416853 | Msa0517700:CDS | 30.0% | |
| AAGAAGAAGAAGAATAAGGA+TGG | + | chr3_4:69416838-69416857 | Msa0517700:CDS | 30.0% | |
| AGAAGAAGAAGAATAAGGAT+GGG | + | chr3_4:69416839-69416858 | Msa0517700:CDS | 30.0% | |
| AATGTTCTTTCTGTTCCTAA+AGG | + | chr3_4:69416892-69416911 | Msa0517700:CDS | 30.0% | |
| AACAGAAGAACAATGAACAA+TGG | - | chr3_4:69416923-69416942 | None:intergenic | 30.0% | |
| AAATAAGAAGGGGAAAGAAA+TGG | + | chr3_4:69416789-69416808 | Msa0517700:CDS | 30.0% | |
| TGTGAAGAAGAAGAAGAATA+AGG | + | chr3_4:69416834-69416853 | Msa0517700:CDS | 30.0% | |
| AAGAAGAAGAAGAATAAGGA+TGG | + | chr3_4:69416838-69416857 | Msa0517700:CDS | 30.0% | |
| AGAAGAAGAAGAATAAGGAT+GGG | + | chr3_4:69416839-69416858 | Msa0517700:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_4 | gene | 69415881 | 69416951 | 69415881 | ID=Msa0517700;Name=Msa0517700 |
| chr3_4 | mRNA | 69415881 | 69416951 | 69415881 | ID=Msa0517700-mRNA-1;Parent=Msa0517700;Name=Msa0517700-mRNA-1;_AED=0.20;_eAED=0.20;_QI=0|-1|0|1|-1|1|1|0|356 |
| chr3_4 | exon | 69415881 | 69416951 | 69415881 | ID=Msa0517700-mRNA-1:exon:18500;Parent=Msa0517700-mRNA-1 |
| chr3_4 | CDS | 69415881 | 69416951 | 69415881 | ID=Msa0517700-mRNA-1:cds;Parent=Msa0517700-mRNA-1 |
| Gene Sequence |
>Msa0517700 ATGAAGAAGAACCAAAACTCAAACCTGATCCCATCCCTCCCAGACGACGTAGCCATAAACTGCCTTGCACGGGTCCCACGCTCTCACCACACAACCCTCACCCTCGTTTCCAAACCAATCCATTCTCTCCTCTCTTCTCCACTCTTCTTCACCGCTCGCTCTCTCATCCCTTCCACCCAACACATCCTCTACCTCTCTCTCCGCACACGCTCCACCTCTCTCCAATTCTTCACCCTCCACAATAACCACCGTCTCCTCCCTCTCCCTCCTCTTCCTTCCCCTACAATCGGCTCCGCTTACGCTGTCATCCACCACAAAATCTACCTCATCGGTGGTTCAGTCAACGATGTACCATCTCGTCATGTATGGATCCTTGATTGCCGATTCCACCGCTGGCTCCCCGGTCCCTCCATGCGGGTGGCGCGTGAATTCGCAGCTGCTGGTGTTATCGACGGGAAAATCTACGTCATCGGTGGTTGCGTGCCGGATAATTTTTCCAGATCAGCAAATTGGTCGGAGGTTTTCGATCCTGTTACCAACCGCTGGGAAAGTGTTCCTAGTCCACCAGAAATTCGTGAGAAATGGATGCACGCTAGCGCGGTCGTAGACGGCAAAGTTTACGCGATGGCGGATCGCGGTGGTGTTTTGTTTGATCCTTATAATGGAGCGTGGGAGAGCGTTGGGAGGGAGCTTGATTTAGGTTGGCGCGGGAGAGCAACTGTTGTGGATGGGATTTTGTATTGCTATGATTATTTAGGGAAAATTAAGGGTTTTGATGTGAAGAAAGGGTTGTGGAAGGAGTTGAAAGGTTTGGATAAGAGTTTACCAAGGTTTCTGTGTGGGGCTACAATGGCTGATGTTGGTGGGAAATTGGTTGTGGTTTGGGAGTGTCAAAGGAATTTGAATGCAAATAAGAAGGGGAAAGAAATGGAGATTTGGTGTGCTGAGATTGATGTGAAGAAGAAGAAGAATAAGGATGGGGAATTGTGGGGTGAAGTTTGTTGGTTGAATAATGTTCTTTCTGTTCCTAAAGGATCTTCCATTGTTCATTGTTCTTCTGTTGCATTATGA |
| Protein sequence |
>Msa0517700 MKKNQNSNLIPSLPDDVAINCLARVPRSHHTTLTLVSKPIHSLLSSPLFFTARSLIPSTQHILYLSLRTRSTSLQFFTLHNNHRLLPLPPLPSPTIGSAYAVIHHKIYLIGGSVNDVPSRHVWILDCRFHRWLPGPSMRVAREFAAAGVIDGKIYVIGGCVPDNFSRSANWSEVFDPVTNRWESVPSPPEIREKWMHASAVVDGKVYAMADRGGVLFDPYNGAWESVGRELDLGWRGRATVVDGILYCYDYLGKIKGFDVKKGLWKELKGLDKSLPRFLCGATMADVGGKLVVVWECQRNLNANKKGKEMEIWCAEIDVKKKKNKDGELWGEVCWLNNVLSVPKGSSIVHCSSVAL* |
