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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0000290 | RHN66812.1 | 88.288 | 333 | 36 | 1 | 1 | 330 | 38 | 370 | 0.0 | 614 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0000290 | sp|Q5NUF4|HIDM_GLYEC | 55.521 | 317 | 139 | 1 | 14 | 328 | 11 | 327 | 3.53e-125 | 364 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0000290 | A0A396IMM3 | 88.288 | 333 | 36 | 1 | 1 | 330 | 38 | 370 | 0.0 | 614 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000290 | Msa0035290 | 0.811881 | 5.608301e-51 | -8.615850e-47 |
| Msa0000290 | Msa0035400 | 0.821319 | 4.302173e-53 | -8.615850e-47 |
| Msa0000290 | Msa0129360 | 0.814973 | 1.172806e-51 | -8.615850e-47 |
| Msa0000290 | Msa0746980 | 0.813657 | 2.290303e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0000290 | MtrunA17_Chr3g0095711 | 88.288 | 333 | 36 | 1 | 1 | 330 | 38 | 370 | 0.0 | 614 |
| Msa0000290 | MtrunA17_Chr8g0353951 | 83.030 | 330 | 56 | 0 | 1 | 330 | 1 | 330 | 0.0 | 538 |
| Msa0000290 | MtrunA17_Chr1g0205781 | 62.305 | 321 | 115 | 4 | 12 | 330 | 8 | 324 | 1.81e-130 | 375 |
| Msa0000290 | MtrunA17_Chr7g0233871 | 56.757 | 333 | 135 | 4 | 1 | 330 | 1 | 327 | 2.42e-128 | 369 |
| Msa0000290 | MtrunA17_Chr1g0205871 | 54.717 | 318 | 142 | 1 | 13 | 328 | 5 | 322 | 1.17e-123 | 357 |
| Msa0000290 | MtrunA17_Chr1g0205791 | 60.188 | 319 | 121 | 3 | 12 | 330 | 6 | 318 | 7.20e-122 | 354 |
| Msa0000290 | MtrunA17_Chr5g0394251 | 50.453 | 331 | 159 | 2 | 5 | 330 | 2 | 332 | 1.35e-121 | 352 |
| Msa0000290 | MtrunA17_Chr5g0394211 | 52.978 | 319 | 145 | 3 | 14 | 328 | 41 | 358 | 5.56e-121 | 352 |
| Msa0000290 | MtrunA17_Chr5g0394241 | 50.152 | 329 | 156 | 3 | 7 | 330 | 3 | 328 | 1.39e-109 | 322 |
| Msa0000290 | MtrunA17_Chr4g0045131 | 45.732 | 328 | 170 | 6 | 3 | 329 | 35 | 355 | 9.74e-98 | 293 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0000290 | AT1G47480.1 | 40.187 | 321 | 181 | 5 | 10 | 330 | 2 | 311 | 2.62e-81 | 249 |
| Msa0000290 | AT1G19190.1 | 41.562 | 320 | 175 | 6 | 15 | 330 | 4 | 315 | 9.98e-81 | 248 |
| Msa0000290 | AT3G48700.1 | 39.877 | 326 | 182 | 6 | 15 | 329 | 4 | 326 | 1.24e-77 | 241 |
| Msa0000290 | AT2G03550.1 | 42.208 | 308 | 167 | 8 | 25 | 330 | 14 | 312 | 4.24e-76 | 236 |
| Msa0000290 | AT3G48690.1 | 38.941 | 321 | 187 | 5 | 15 | 329 | 4 | 321 | 7.66e-73 | 228 |
| Msa0000290 | AT1G49650.1 | 39.871 | 311 | 176 | 7 | 23 | 328 | 68 | 372 | 2.35e-70 | 223 |
| Msa0000290 | AT1G49660.1 | 39.375 | 320 | 182 | 8 | 15 | 328 | 4 | 317 | 1.03e-69 | 220 |
| Msa0000290 | AT1G49640.1 | 37.500 | 312 | 178 | 7 | 23 | 328 | 13 | 313 | 1.79e-69 | 219 |
| Msa0000290 | AT2G45600.1 | 32.492 | 317 | 187 | 10 | 24 | 329 | 16 | 316 | 1.20e-38 | 140 |
| Msa0000290 | AT1G68620.1 | 30.921 | 304 | 183 | 10 | 16 | 310 | 23 | 308 | 1.80e-37 | 137 |
Find 83 sgRNAs with CRISPR-Local
Find 198 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAGAAATAGTTACCGAATT+TGG | 0.139042 | 1_1:+1315741 | Msa0000290:CDS |
| AAAGATAAGTTAAGGGATAG+AGG | 0.434645 | 1_1:+1316515 | Msa0000290:CDS |
| AAAGGGTTATCAATTCCAAA+AGG | 0.547123 | 1_1:-1316416 | None:intergenic |
| AACATTCATGGTAACATGCA+GGG | 0.601712 | 1_1:-1316091 | None:intergenic |
| AACCCTTTGATTAATCCTTT+GGG | 0.363602 | 1_1:+1316431 | Msa0000290:CDS |
| AAGATTGGTAATTTGGAAGG+TGG | 0.546807 | 1_1:-1315930 | None:intergenic |
| AATGTGTGAAGAATAGTGGG+TGG | 0.742181 | 1_1:+1316552 | Msa0000290:CDS |
| AATGTTGGGCTGCACTCAAA+TGG | 0.450527 | 1_1:+1316108 | Msa0000290:CDS |
| ACACCAAATGCCAAACCTTA+TGG | 0.304815 | 1_1:-1316382 | None:intergenic |
| ACCAAGATTGGTAATTTGGA+AGG | 0.529525 | 1_1:-1315933 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TATATGCGAGATGAAATTGT+GGG | - | chr1_1:1315891-1315910 | None:intergenic | 30.0% | |
| CCATGAAAATAAACCAAGAT+TGG | - | chr1_1:1315948-1315967 | None:intergenic | 30.0% | |
| AAAGGGTTATCAATTCCAAA+AGG | - | chr1_1:1316419-1316438 | None:intergenic | 30.0% | |
| TAACCCTTTGATTAATCCTT+TGG | + | chr1_1:1316430-1316449 | Msa0000290:CDS | 30.0% | |
| AACCCTTTGATTAATCCTTT+GGG | + | chr1_1:1316431-1316450 | Msa0000290:CDS | 30.0% | |
| TTGCTGGAAAAGATAAGTTA+AGG | + | chr1_1:1316507-1316526 | Msa0000290:CDS | 30.0% | |
| TGCTGGAAAAGATAAGTTAA+GGG | + | chr1_1:1316508-1316527 | Msa0000290:CDS | 30.0% | |
| AAAGATAAGTTAAGGGATAG+AGG | + | chr1_1:1316515-1316534 | Msa0000290:CDS | 30.0% | |
| TATATGCGAGATGAAATTGT+GGG | - | chr1_1:1315891-1315910 | None:intergenic | 30.0% | |
| CCATGAAAATAAACCAAGAT+TGG | - | chr1_1:1315948-1315967 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_1 | gene | 1315702 | 1316694 | 1315702 | ID=Msa0000290;Name=Msa0000290 |
| chr1_1 | mRNA | 1315702 | 1316694 | 1315702 | ID=Msa0000290-mRNA-1;Parent=Msa0000290;Name=Msa0000290-mRNA-1;_AED=0.03;_eAED=0.03;_QI=0|-1|0|1|-1|1|1|0|330 |
| chr1_1 | exon | 1315702 | 1316694 | 1315702 | ID=Msa0000290-mRNA-1:exon:146;Parent=Msa0000290-mRNA-1 |
| chr1_1 | CDS | 1315702 | 1316694 | 1315702 | ID=Msa0000290-mRNA-1:cds;Parent=Msa0000290-mRNA-1 |
| Gene Sequence |
>Msa0000290 ATGGCTTCCACAGCACCAACCACACCAAAAACCGTCGCTAAAGAAATAGTTACCGAATTTGGAACATTCGTTCGTATCTTTAGCGACGGTTCAGTAGAAAGACCATCACAAACCCCATTTGTTCCTCCATCTCTCAATGACCCAAACACTGGACTTTCATCCAAAGACATAGTAATCCCACACAACCCCACAATTTCATCTCGCATATACCTTCCAAAAATCACAAACCCACCTTCCAAATTACCAATCTTGGTTTATTTTCATGGCGGCGCGTTCGTCTTCGAATCCGCATTCTCAAGGTTGTACCATGAACATTTGAATATCTTTGCAACACAAGCAAATGTGATAGTTGTTTCTATTGAATATAGCCTTGCTCCTGAGTATCCTCTCCCTGCATGTTACCATGAATGTTGGGCTGCACTCAAATGGGTAAGTTCTCATTCTAATAACACCATCAACAATCCAGAACCATGGTTGACTGAACATGGTGATTTTGAGAAAGTTTTCATTGGTGGTGATAGTGCTGGTGCTAATATAGCACATAACGTTGCAATTCAAGCTGGAGTTGAAAATTTACCTTATGATGTTAAAATATTAGGAGCTATTTTAATTCATCCGTATTTTCAAAGCTCTAACCCTATTGGGTCAGAACCTATTATTGAGCCTGAAAATAATCTTTTCCATAAGGTTTGGCATTTGGTGTACCCAAATGCACCTTTTGGAATTGATAACCCTTTGATTAATCCTTTGGGAGAAGGTGCACCTAGCTTGGAAAAACTTGGTTGTTCTAGAATTATTATTTGTGTTGCTGGAAAAGATAAGTTAAGGGATAGAGGAGTTTGGTATTGGGAATGTGTGAAGAATAGTGGGTGGAATGGGAAATTGGAATTCTTTGAAGAGAAAGATGAGAACCATGTTTATCATTTGCTTAAACCAGAATCTGAGAGTGGCAAGATATTGATCCAACGATTGGTTAGTTTTGTCCAAGAGTGA |
| Protein sequence |
>Msa0000290 MASTAPTTPKTVAKEIVTEFGTFVRIFSDGSVERPSQTPFVPPSLNDPNTGLSSKDIVIPHNPTISSRIYLPKITNPPSKLPILVYFHGGAFVFESAFSRLYHEHLNIFATQANVIVVSIEYSLAPEYPLPACYHECWAALKWVSSHSNNTINNPEPWLTEHGDFEKVFIGGDSAGANIAHNVAIQAGVENLPYDVKILGAILIHPYFQSSNPIGSEPIIEPENNLFHKVWHLVYPNAPFGIDNPLINPLGEGAPSLEKLGCSRIIICVAGKDKLRDRGVWYWECVKNSGWNGKLEFFEEKDENHVYHLLKPESESGKILIQRLVSFVQE* |
