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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1102800 | XP_013442848.1 | 94.492 | 472 | 26 | 0 | 1 | 472 | 1 | 472 | 0.0 | 915 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1102800 | sp|Q9AR73|HQGT_RAUSE | 47.872 | 470 | 238 | 5 | 1 | 468 | 1 | 465 | 5.36e-159 | 461 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1102800 | A0A072TJ24 | 94.492 | 472 | 26 | 0 | 1 | 472 | 1 | 472 | 0.0 | 915 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0077330 | Msa1102800 | 0.800082 | 1.702947e-48 | -8.615850e-47 |
| Msa0245350 | Msa1102800 | 0.819565 | 1.086494e-52 | -8.615850e-47 |
| Msa0256170 | Msa1102800 | 0.805804 | 1.118312e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1102800 | MtrunA17_Chr7g0232341 | 94.492 | 472 | 26 | 0 | 1 | 472 | 1 | 472 | 0.0 | 915 |
| Msa1102800 | MtrunA17_Chr7g0232331 | 93.008 | 472 | 33 | 0 | 1 | 472 | 1 | 472 | 0.0 | 900 |
| Msa1102800 | MtrunA17_Chr7g0232411 | 82.415 | 472 | 82 | 1 | 1 | 472 | 1 | 471 | 0.0 | 801 |
| Msa1102800 | MtrunA17_Chr7g0232391 | 83.439 | 471 | 77 | 1 | 1 | 471 | 1 | 470 | 0.0 | 795 |
| Msa1102800 | MtrunA17_Chr7g0232351 | 85.488 | 379 | 54 | 1 | 1 | 379 | 1 | 378 | 0.0 | 650 |
| Msa1102800 | MtrunA17_Chr7g0232401 | 54.947 | 475 | 205 | 5 | 1 | 470 | 1 | 471 | 0.0 | 531 |
| Msa1102800 | MtrunA17_Chr8g0336741 | 56.114 | 458 | 199 | 2 | 6 | 463 | 13 | 468 | 0.0 | 527 |
| Msa1102800 | MtrunA17_Chr1g0153451 | 55.532 | 470 | 204 | 3 | 1 | 469 | 1 | 466 | 0.0 | 525 |
| Msa1102800 | MtrunA17_Chr8g0336731 | 55.195 | 462 | 205 | 2 | 9 | 470 | 35 | 494 | 0.0 | 520 |
| Msa1102800 | MtrunA17_Chr8g0336651 | 55.106 | 470 | 209 | 2 | 1 | 470 | 1 | 468 | 4.80e-180 | 537 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1102800 | AT4G01070.1 | 47.629 | 464 | 238 | 5 | 2 | 463 | 4 | 464 | 2.14e-153 | 445 |
| Msa1102800 | AT1G01390.1 | 49.220 | 449 | 224 | 4 | 2 | 448 | 4 | 450 | 1.00e-146 | 428 |
| Msa1102800 | AT1G01390.2 | 49.220 | 449 | 224 | 4 | 2 | 448 | 21 | 467 | 1.46e-146 | 428 |
| Msa1102800 | AT1G01420.1 | 46.121 | 464 | 244 | 6 | 2 | 463 | 4 | 463 | 2.95e-145 | 424 |
| Msa1102800 | AT1G01420.2 | 46.121 | 464 | 244 | 6 | 2 | 463 | 7 | 466 | 4.05e-145 | 424 |
| Msa1102800 | AT4G01070.2 | 46.398 | 347 | 180 | 5 | 2 | 346 | 4 | 346 | 1.05e-99 | 303 |
| Msa1102800 | AT5G66690.1 | 37.634 | 465 | 255 | 13 | 6 | 453 | 7 | 453 | 8.89e-98 | 303 |
| Msa1102800 | AT3G50740.1 | 37.029 | 478 | 279 | 12 | 6 | 469 | 7 | 476 | 3.10e-97 | 301 |
| Msa1102800 | AT5G26310.1 | 37.419 | 465 | 260 | 11 | 6 | 455 | 7 | 455 | 6.21e-94 | 293 |
| Msa1102800 | AT2G18570.1 | 34.249 | 473 | 286 | 14 | 6 | 465 | 5 | 465 | 1.31e-89 | 281 |
Find 84 sgRNAs with CRISPR-Local
Find 214 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACTAAGTTTATGTTTGG+TGG | 0.393290 | 7_3:-36884992 | None:intergenic |
| AAAGAACAAAAGCTGAACAA+GGG | 0.625122 | 7_3:-36885225 | None:intergenic |
| AAAGATGATTAAGTGTGTGA+TGG | 0.554553 | 7_3:+36886071 | Msa1102800:CDS |
| AACAAACAAGACTTACCTCA+AGG | 0.611556 | 7_3:+36885028 | Msa1102800:CDS |
| AACAGCATTCATTGCTTGTT+CGG | 0.413693 | 7_3:-36885971 | None:intergenic |
| AACTTTGGAAAGTATACAAG+AGG | 0.590085 | 7_3:+36885918 | Msa1102800:CDS |
| AAGTCTTGTTTGTTGATTGG+TGG | 0.544881 | 7_3:-36885019 | None:intergenic |
| AATAATGGCCAAGCTACTAT+TGG | 0.457994 | 7_3:-36885946 | None:intergenic |
| AATACAAACTATTTCACACT+TGG | 0.521278 | 7_3:+36886182 | Msa1102800:CDS |
| AATGCTGTTATGTTATGTGA+TGG | 0.661412 | 7_3:+36885985 | Msa1102800:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TTTGGAGAATTCTACTATTG+GGG | - | chr7_3:36884876-36884895 | None:intergenic | 30.0% | |
| ATGCAAGTGACATGAAAATT+TGG | - | chr7_3:36884917-36884936 | None:intergenic | 30.0% | |
| TCAGCAATTATAGCAACTAA+AGG | - | chr7_3:36885142-36885161 | None:intergenic | 30.0% | |
| AAAGAACAAAAGCTGAACAA+GGG | - | chr7_3:36885228-36885247 | None:intergenic | 30.0% | |
| TGAAGATCAATACCATTGAT+TGG | - | chr7_3:36885340-36885359 | None:intergenic | 30.0% | |
| ACAGTAACAAAAGATAGATC+AGG | + | chr7_3:36885361-36885380 | Msa1102800:CDS | 30.0% | |
| TCAAGTAACAATGATGTTGT+TGG | + | chr7_3:36885550-36885569 | Msa1102800:CDS | 30.0% | |
| CAAATGAATGAACTAGCATT+TGG | + | chr7_3:36885667-36885686 | Msa1102800:CDS | 30.0% | |
| CCTTTAGGTAAAAATTTCAG+TGG | - | chr7_3:36885784-36885803 | None:intergenic | 30.0% | |
| TTGGAAAGAACCAAAGAAAA+AGG | + | chr7_3:36885808-36885827 | Msa1102800:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_3 | gene | 36884818 | 36886236 | 36884818 | ID=Msa1102800;Name=Msa1102800 |
| chr7_3 | mRNA | 36884818 | 36886236 | 36884818 | ID=Msa1102800-mRNA-1;Parent=Msa1102800;Name=Msa1102800-mRNA-1;_AED=0.11;_eAED=0.11;_QI=0|-1|0|1|-1|1|1|0|472 |
| chr7_3 | exon | 36884818 | 36886236 | 36884818 | ID=Msa1102800-mRNA-1:exon:7636;Parent=Msa1102800-mRNA-1 |
| chr7_3 | CDS | 36884818 | 36886236 | 36884818 | ID=Msa1102800-mRNA-1:cds;Parent=Msa1102800-mRNA-1 |
| Gene Sequence |
>Msa1102800 ATGGCAAAAACAACTCACATAGCTGTTATTTCAAGCCCTGGTTTCAGCCACATAGCCCCAATAGTAGAATTCTCCAAAAGATTAGTCACAAATCATCCAAATTTTCATGTCACTTGCATCATTCCCTCACTTGGTTCATTACCAGATTCATCAAAATCATACCTTGAAACAATTCCACCAAACATAAACTTAGTTTTTCTTCCACCAATCAACAAACAAGACTTACCTCAAGGAGTATACCCAGGAATCCTAATTCAACTCACAGTTACACGCTCTCTACCATCAATTCATGAAGCTCTCAAATCAATAACTTCAAAAGCACCTTTAGTTGCTATAATTGCTGATAAATTTGCATTGGAAGCACTAGATTTTGCCAAAGAATTCAATTCTTTGTCTTATCTTTACTTCCCTTGTTCAGCTTTTGTTCTTTCTTTTTATTTACATTGGCCAAAACTTGATGAAGAGGTTTCATGTAAATACAAAGAATTACAAGAACCTATAAAGTTACCAGGATGTGTACCAATCAATGGTATTGATCTTCATACAGTAACAAAAGATAGATCAGGTCAAGCTTACAAAATGTATCTTGAACGTGCTAAAGGTATGTATTTTGTTGATGGAATCTTGTTTAACAGTTTCCTTGCATTAGAATCAAGTGCTATAAAAGCATTGGAACAAAAGGGTGATGGAAAAATCAGTTTTTTTCCTGTGGGACCCATTACACAAATAGGGTCAAGTAACAATGATGTTGTTGGTGATGAACTTGAATGTTTGAAATGGTTGAAAAACCAACCACAAAATTCTGTTTTGTATGTTTCTTTTGGAAGTGGTGGAACACTTTCTCAGAGACAAATGAATGAACTAGCATTTGGTTTGGAATTGAGTGGTCAAAGATTCATTTGGGTTGTGAGACAACCAAGTGATTCAGTTAGTGCTGCTTATCTTGAAGATGCAAATGAAGATCCACTGAAATTTTTACCTAAAGGGTTTTTGGAAAGAACCAAAGAAAAAGGTTTGATTTTGCCATCATGGGCACCTCAAGTTGAAATACTAAAGCAAAATTCAGTTGGTGGATTTTTAAGTCATTGTGGTTGGAATTCAACTTTGGAAAGTATACAAGAGGGGGTGCCAATAGTAGCTTGGCCATTATTTGCCGAACAAGCAATGAATGCTGTTATGTTATGTGATGGTCTTAAAGTGGCTTTAAGGTTGAAATTTGAAGATGATGAAATTGTGGAAAAGGAGAAAATTTCAAAGATGATTAAGTGTGTGATGGAAGGGGAAGAAGGTAAAGCAATGTGTGATAGAATGAAGAGTTTAAGAGAATGTGTTGCTATGGCATTGAAAGTCAAAGATGGTTCTTCAATACAAACTATTTCACACTTGGCTACTCAGTTGGAAAAGATTGGTGGGATTTAG |
| Protein sequence |
>Msa1102800 MAKTTHIAVISSPGFSHIAPIVEFSKRLVTNHPNFHVTCIIPSLGSLPDSSKSYLETIPPNINLVFLPPINKQDLPQGVYPGILIQLTVTRSLPSIHEALKSITSKAPLVAIIADKFALEALDFAKEFNSLSYLYFPCSAFVLSFYLHWPKLDEEVSCKYKELQEPIKLPGCVPINGIDLHTVTKDRSGQAYKMYLERAKGMYFVDGILFNSFLALESSAIKALEQKGDGKISFFPVGPITQIGSSNNDVVGDELECLKWLKNQPQNSVLYVSFGSGGTLSQRQMNELAFGLELSGQRFIWVVRQPSDSVSAAYLEDANEDPLKFLPKGFLERTKEKGLILPSWAPQVEILKQNSVGGFLSHCGWNSTLESIQEGVPIVAWPLFAEQAMNAVMLCDGLKVALRLKFEDDEIVEKEKISKMIKCVMEGEEGKAMCDRMKSLRECVAMALKVKDGSSIQTISHLATQLEKIGGI* |
