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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0244750 | XP_003593861.1 | 77.778 | 441 | 26 | 5 | 1 | 371 | 1 | 439 | 0.0 | 654 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0244750 | sp|O64811|SCP9_ARATH | 47.470 | 415 | 150 | 9 | 16 | 371 | 7 | 412 | 1.37e-123 | 367 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0001460 | Msa0244750 | 0.811659 | 6.266958e-51 | -8.615850e-47 |
| Msa0003470 | Msa0244750 | 0.868158 | 8.035643e-66 | -8.615850e-47 |
| Msa0004350 | Msa0244750 | 0.811879 | 5.612897e-51 | -8.615850e-47 |
| Msa0007450 | Msa0244750 | 0.843172 | 1.650017e-58 | -8.615850e-47 |
| Msa0012460 | Msa0244750 | 0.822117 | 2.812813e-53 | -8.615850e-47 |
| Msa0017120 | Msa0244750 | 0.840857 | 6.753041e-58 | -8.615850e-47 |
| Msa0017940 | Msa0244750 | 0.805231 | 1.475049e-49 | -8.615850e-47 |
| Msa0018220 | Msa0244750 | 0.835772 | 1.380939e-56 | -8.615850e-47 |
| Msa0024680 | Msa0244750 | 0.810876 | 9.269963e-51 | -8.615850e-47 |
| Msa0029620 | Msa0244750 | 0.825196 | 5.348368e-54 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0244750 | MtrunA17_Chr2g0285381 | 77.778 | 441 | 26 | 5 | 1 | 371 | 1 | 439 | 0.0 | 654 |
| Msa0244750 | MtrunA17_Chr2g0285351 | 58.314 | 439 | 102 | 9 | 11 | 371 | 8 | 443 | 3.58e-163 | 466 |
| Msa0244750 | MtrunA17_Chr2g0285371 | 60.047 | 423 | 90 | 10 | 27 | 371 | 22 | 443 | 5.12e-162 | 463 |
| Msa0244750 | MtrunA17_Chr4g0009701 | 49.762 | 420 | 135 | 7 | 27 | 372 | 28 | 445 | 9.57e-133 | 388 |
| Msa0244750 | MtrunA17_Chr4g0009661 | 50.118 | 425 | 126 | 10 | 27 | 372 | 28 | 445 | 1.78e-131 | 385 |
| Msa0244750 | MtrunA17_Chr4g0009651 | 49.052 | 422 | 135 | 10 | 27 | 372 | 28 | 445 | 4.88e-125 | 369 |
| Msa0244750 | MtrunA17_Chr3g0133011 | 55.589 | 331 | 115 | 7 | 10 | 309 | 22 | 351 | 7.91e-117 | 348 |
| Msa0244750 | MtrunA17_Chr3g0133011 | 71.186 | 59 | 17 | 0 | 314 | 372 | 413 | 471 | 1.22e-22 | 99.4 |
| Msa0244750 | MtrunA17_Chr4g0009681 | 51.320 | 341 | 137 | 7 | 7 | 324 | 6 | 340 | 7.84e-108 | 325 |
| Msa0244750 | MtrunA17_Chr4g0009681 | 69.492 | 59 | 18 | 0 | 314 | 372 | 384 | 442 | 2.82e-20 | 92.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0244750 | AT2G23010.2 | 47.837 | 416 | 149 | 9 | 16 | 372 | 7 | 413 | 7.99e-126 | 370 |
| Msa0244750 | AT2G22970.4 | 48.974 | 390 | 148 | 7 | 36 | 374 | 22 | 411 | 4.82e-125 | 367 |
| Msa0244750 | AT2G23010.1 | 47.470 | 415 | 150 | 9 | 16 | 371 | 7 | 412 | 1.39e-124 | 367 |
| Msa0244750 | AT2G22970.3 | 48.837 | 387 | 147 | 7 | 36 | 371 | 22 | 408 | 3.82e-124 | 366 |
| Msa0244750 | AT2G22920.2 | 48.974 | 390 | 146 | 8 | 36 | 372 | 22 | 411 | 4.47e-124 | 365 |
| Msa0244750 | AT2G22970.1 | 48.711 | 388 | 148 | 7 | 36 | 372 | 22 | 409 | 8.68e-124 | 365 |
| Msa0244750 | AT1G73270.1 | 49.742 | 388 | 142 | 7 | 36 | 371 | 30 | 416 | 3.13e-123 | 364 |
| Msa0244750 | AT1G73300.1 | 48.601 | 393 | 149 | 6 | 31 | 371 | 25 | 416 | 3.19e-123 | 363 |
| Msa0244750 | AT1G73300.2 | 48.601 | 393 | 149 | 6 | 31 | 371 | 25 | 416 | 3.19e-123 | 363 |
| Msa0244750 | AT1G73270.2 | 49.742 | 388 | 142 | 7 | 36 | 371 | 30 | 416 | 3.26e-123 | 363 |
Find 110 sgRNAs with CRISPR-Local
Find 556 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACTGAAATAAACTAATG+AGG | 0.566182 | 2_2:-23524539 | None:intergenic |
| AAGTTTCTTCCTGGATTCCA+AGG | 0.515199 | 2_2:+23516633 | Msa0244750:CDS |
| AATAAACTAATGAGGAGTTA+AGG | 0.453258 | 2_2:-23524531 | None:intergenic |
| AATATAGGCAATGGACGAAA+TGG | 0.338994 | 2_2:-23516403 | None:intergenic |
| AATATTACCGGACAGCTTAA+GGG | 0.459289 | 2_2:-23520305 | None:intergenic |
| AATCCCATTCCATGAGCATA+AGG | 0.472861 | 2_2:-23519360 | None:intergenic |
| AATTACCTATTTCGTACACA+AGG | 0.619712 | 2_2:-23516902 | None:intergenic |
| AATTATAGTTGTAGCAGTTG+AGG | 0.555670 | 2_2:-23524224 | None:intergenic |
| AATTCCTTATGCTCATGGAA+TGG | 0.503216 | 2_2:+23519356 | Msa0244750:CDS |
| ACAACAAGGGACAATAATAT+AGG | 0.429851 | 2_2:-23516418 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ATGATAATTGGGTGAAGAAA+CGG | - | chr2_2:23516348-23516367 | None:intergenic | 30.0% | |
| ACAACAAGGGACAATAATAT+AGG | - | chr2_2:23516421-23516440 | None:intergenic | 30.0% | |
| AGATTTCATGATTTCCTCTT+TGG | + | chr2_2:23516528-23516547 | Msa0244750:CDS | 30.0% | |
| AGAAGAAGAAGAAGAAGAAA+AGG | - | chr2_2:23516561-23516580 | None:intergenic | 30.0% | |
| TCTATTGTAAAGTTTCTTCC+TGG | + | chr2_2:23516624-23516643 | Msa0244750:CDS | 30.0% | |
| AATTACCTATTTCGTACACA+AGG | - | chr2_2:23516905-23516924 | None:intergenic | 30.0% | |
| TACTATCACATTGTCATCAA+AGG | - | chr2_2:23516983-23517002 | None:intergenic | 30.0% | |
| GGATACTCATTGAATAATTG+AGG | + | chr2_2:23517573-23517592 | Msa0244750:intron | 30.0% | |
| ATTGAAACTTGAGATATTGC+AGG | + | chr2_2:23518142-23518161 | Msa0244750:intron | 30.0% | |
| TCAAATGAAGTTTACATTGC+TGG | + | chr2_2:23518784-23518803 | Msa0244750:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_2 | gene | 23516218 | 23524791 | 23516218 | ID=Msa0244750;Name=Msa0244750 |
| chr2_2 | mRNA | 23516218 | 23524791 | 23516218 | ID=Msa0244750-mRNA-1;Parent=Msa0244750;Name=Msa0244750-mRNA-1;_AED=0.21;_eAED=0.21;_QI=298|0.83|0.84|1|0.5|0.61|13|387|390 |
| chr2_2 | exon | 23516218 | 23516682 | 23516218 | ID=Msa0244750-mRNA-1:exon:8956;Parent=Msa0244750-mRNA-1 |
| chr2_2 | exon | 23516773 | 23516918 | 23516773 | ID=Msa0244750-mRNA-1:exon:8957;Parent=Msa0244750-mRNA-1 |
| chr2_2 | exon | 23518164 | 23518201 | 23518164 | ID=Msa0244750-mRNA-1:exon:8958;Parent=Msa0244750-mRNA-1 |
| chr2_2 | exon | 23518505 | 23518627 | 23518505 | ID=Msa0244750-mRNA-1:exon:8959;Parent=Msa0244750-mRNA-1 |
| chr2_2 | exon | 23518757 | 23518859 | 23518757 | ID=Msa0244750-mRNA-1:exon:8960;Parent=Msa0244750-mRNA-1 |
| chr2_2 | exon | 23519180 | 23519217 | 23519180 | ID=Msa0244750-mRNA-1:exon:8961;Parent=Msa0244750-mRNA-1 |
| chr2_2 | exon | 23519306 | 23519404 | 23519306 | ID=Msa0244750-mRNA-1:exon:8962;Parent=Msa0244750-mRNA-1 |
| chr2_2 | exon | 23519471 | 23519557 | 23519471 | ID=Msa0244750-mRNA-1:exon:8963;Parent=Msa0244750-mRNA-1 |
| chr2_2 | exon | 23520191 | 23520319 | 23520191 | ID=Msa0244750-mRNA-1:exon:8964;Parent=Msa0244750-mRNA-1 |
| chr2_2 | exon | 23523720 | 23523853 | 23523720 | ID=Msa0244750-mRNA-1:exon:8965;Parent=Msa0244750-mRNA-1 |
| chr2_2 | exon | 23524164 | 23524374 | 23524164 | ID=Msa0244750-mRNA-1:exon:8966;Parent=Msa0244750-mRNA-1 |
| chr2_2 | exon | 23524475 | 23524677 | 23524475 | ID=Msa0244750-mRNA-1:exon:8967;Parent=Msa0244750-mRNA-1 |
| chr2_2 | exon | 23524710 | 23524791 | 23524710 | ID=Msa0244750-mRNA-1:exon:8968;Parent=Msa0244750-mRNA-1 |
| chr2_2 | five_prime_UTR | 23516218 | 23516515 | 23516218 | ID=Msa0244750-mRNA-1:five_prime_utr;Parent=Msa0244750-mRNA-1 |
| chr2_2 | CDS | 23516516 | 23516682 | 23516516 | ID=Msa0244750-mRNA-1:cds;Parent=Msa0244750-mRNA-1 |
| chr2_2 | CDS | 23516773 | 23516918 | 23516773 | ID=Msa0244750-mRNA-1:cds;Parent=Msa0244750-mRNA-1 |
| chr2_2 | CDS | 23518164 | 23518201 | 23518164 | ID=Msa0244750-mRNA-1:cds;Parent=Msa0244750-mRNA-1 |
| chr2_2 | CDS | 23518505 | 23518627 | 23518505 | ID=Msa0244750-mRNA-1:cds;Parent=Msa0244750-mRNA-1 |
| chr2_2 | CDS | 23518757 | 23518859 | 23518757 | ID=Msa0244750-mRNA-1:cds;Parent=Msa0244750-mRNA-1 |
| chr2_2 | CDS | 23519180 | 23519217 | 23519180 | ID=Msa0244750-mRNA-1:cds;Parent=Msa0244750-mRNA-1 |
| chr2_2 | CDS | 23519306 | 23519404 | 23519306 | ID=Msa0244750-mRNA-1:cds;Parent=Msa0244750-mRNA-1 |
| chr2_2 | CDS | 23519471 | 23519557 | 23519471 | ID=Msa0244750-mRNA-1:cds;Parent=Msa0244750-mRNA-1 |
| chr2_2 | CDS | 23520191 | 23520319 | 23520191 | ID=Msa0244750-mRNA-1:cds;Parent=Msa0244750-mRNA-1 |
| chr2_2 | CDS | 23523720 | 23523853 | 23523720 | ID=Msa0244750-mRNA-1:cds;Parent=Msa0244750-mRNA-1 |
| chr2_2 | CDS | 23524164 | 23524272 | 23524164 | ID=Msa0244750-mRNA-1:cds;Parent=Msa0244750-mRNA-1 |
| chr2_2 | three_prime_UTR | 23524273 | 23524374 | 23524273 | ID=Msa0244750-mRNA-1:three_prime_utr;Parent=Msa0244750-mRNA-1 |
| chr2_2 | three_prime_UTR | 23524475 | 23524677 | 23524475 | ID=Msa0244750-mRNA-1:three_prime_utr;Parent=Msa0244750-mRNA-1 |
| chr2_2 | three_prime_UTR | 23524710 | 23524791 | 23524710 | ID=Msa0244750-mRNA-1:three_prime_utr;Parent=Msa0244750-mRNA-1 |
| Gene Sequence |
>Msa0244750 ATGGCAAAGTTTAGATTTCATGATTTCCTCTTTGGAAAGGTTCCTTTTCTTCTTCTTCTTCTTCTTCTTTTACTATCACATATTTGCTTTCAAGTTGCAACATGCGGCTCTATTGTAAAGTTTCTTCCTGGATTCCAAGGACCCCTTCCTTTTGTACTTAAAACCGGGTATGTTGGAGTGGGTGAACAAGAGGATGTGCAAGTGTTCTACTACTTCATTGAATCAGAGAGGAATCCAAAGGATGATCCTCTCTTGCTTTGGCTAACTGGTGGACCTGGTTGTTCTGCTTTATCTGGCCTTGTGTACGAAATAGGTCCAATTATGTTTAAAAAGGAGTATTACAATGGAAGCGTGAGCAGCGTTATATTTGCAGATTTGCCTGTTTCCACAGGCTTCACTTATGCCACCACAGAATCTGGTGCTCAACGAAGCGATTTGATACAAGTTAACCAAGCCCATGAGTTTCTCAGGAAGTGGTTGGTTGAACATCCAGAATTTCAATCAAATGAAGTTTACATTGCTGGTGATTCGTACTCTGGCATTACTATTCCGCCAATTGTTCAAGAAATTGCACAAGGAAATGAAAAAGGGTTCCAACCAAAGATAAATCTCCAGGGATACGTGTTGGGGAATCCTCTAACAATTAGAACGGAAAAGAATTATCAAATTCCTTATGCTCATGGAATGGGATTCATAACTGATGAACTATATGAGTCGCTGCAAAAAAATTGCAATGGAGACTATACAAATGTAGACCCCAAAAATCTTTTATGTTCCAGAGATATCAACTCATACGACGAGGTAATAAAGGGAATTAATACAGCCCATATTTTATACCCGACCGAATGCCGCTGGCTTCGCCCTGAAAGTACTCCAAGGAGATCTCTAATTAAGAAATATCTCTCCAGAGTACCTCCCTTAAGCTGTCCGATTTTATATATTGTTAACAGTGGCGATCATGACATTTCTATTCCATTCTTGGATACAAAAGCATGGATAAAATCTTTAAACTACTCCATTGTTGATGATTGGAGGCAGTGGCATACAGAGGGCCAAGTTGCAGGATACACAAGGACATACTCGAATGGGATGACATTTGCAACTGTGAAGGCAAGTCACTTGTACCTCAACTGCTACAACTATAATTTACAAACACATATTTCACTTGATTAG |
| Protein sequence |
>Msa0244750 MAKFRFHDFLFGKVPFLLLLLLLLLSHICFQVATCGSIVKFLPGFQGPLPFVLKTGYVGVGEQEDVQVFYYFIESERNPKDDPLLLWLTGGPGCSALSGLVYEIGPIMFKKEYYNGSVSSVIFADLPVSTGFTYATTESGAQRSDLIQVNQAHEFLRKWLVEHPEFQSNEVYIAGDSYSGITIPPIVQEIAQGNEKGFQPKINLQGYVLGNPLTIRTEKNYQIPYAHGMGFITDELYESLQKNCNGDYTNVDPKNLLCSRDINSYDEVIKGINTAHILYPTECRWLRPESTPRRSLIKKYLSRVPPLSCPILYIVNSGDHDISIPFLDTKAWIKSLNYSIVDDWRQWHTEGQVAGYTRTYSNGMTFATVKASHLYLNCYNYNLQTHISLD* |
