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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0298500 | XP_003596932.1 | 91.626 | 406 | 14 | 5 | 1 | 389 | 1 | 403 | 0.0 | 646 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0298500 | sp|Q8RWC5|FLA16_ARATH | 69.786 | 374 | 92 | 6 | 28 | 381 | 33 | 405 | 1.09e-162 | 468 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0005890 | Msa0298500 | 0.802571 | 5.266768e-49 | -8.615850e-47 |
| Msa0039790 | Msa0298500 | 0.849041 | 4.170047e-60 | -8.615850e-47 |
| Msa0050740 | Msa0298500 | 0.801458 | 8.919331e-49 | -8.615850e-47 |
| Msa0050750 | Msa0298500 | 0.837735 | 4.361722e-57 | -8.615850e-47 |
| Msa0054690 | Msa0298500 | 0.806347 | 8.596647e-50 | -8.615850e-47 |
| Msa0054880 | Msa0298500 | 0.862720 | 4.149325e-64 | -8.615850e-47 |
| Msa0081520 | Msa0298500 | 0.838589 | 2.629658e-57 | -8.615850e-47 |
| Msa0087450 | Msa0298500 | 0.823678 | 1.216970e-53 | -8.615850e-47 |
| Msa0090400 | Msa0298500 | 0.816797 | 4.594985e-52 | -8.615850e-47 |
| Msa0094780 | Msa0298500 | 0.812898 | 3.361906e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0298500 | MtrunA17_Chr2g0322251 | 91.626 | 406 | 14 | 5 | 1 | 389 | 1 | 403 | 0.0 | 646 |
| Msa0298500 | MtrunA17_Chr4g0025311 | 72.063 | 383 | 84 | 5 | 26 | 385 | 39 | 421 | 1.38e-169 | 484 |
| Msa0298500 | MtrunA17_Chr7g0267811 | 69.761 | 377 | 93 | 5 | 26 | 382 | 29 | 404 | 7.22e-160 | 458 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0298500 | AT2G35860.1 | 69.786 | 374 | 92 | 6 | 28 | 381 | 33 | 405 | 1.11e-163 | 468 |
| Msa0298500 | AT3G52370.1 | 64.593 | 418 | 125 | 6 | 14 | 409 | 14 | 430 | 9.82e-163 | 465 |
| Msa0298500 | AT3G52370.2 | 64.593 | 418 | 125 | 6 | 14 | 409 | 67 | 483 | 1.65e-162 | 467 |
| Msa0298500 | AT5G06390.1 | 63.196 | 413 | 118 | 6 | 9 | 389 | 14 | 424 | 8.24e-162 | 464 |
| Msa0298500 | AT3G11700.1 | 65.111 | 407 | 106 | 8 | 8 | 378 | 10 | 416 | 1.12e-159 | 459 |
| Msa0298500 | AT5G05650.1 | 52.809 | 89 | 35 | 2 | 302 | 384 | 5 | 92 | 1.73e-24 | 98.2 |
Find 165 sgRNAs with CRISPR-Local
Find 264 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATCACACCCATAATAGC+TGG | 0.538570 | 2_3:+52532727 | None:intergenic |
| AAACACTTTCTTCTCCAACC+CGG | 0.635314 | 2_3:-52535256 | Msa0298500:CDS |
| AAACCTAACGTCGTTAGCGA+CGG | 0.600354 | 2_3:-52534705 | Msa0298500:CDS |
| AAATAAATAATTGCCTAGCC+AGG | 0.537622 | 2_3:+52532390 | None:intergenic |
| AAATCATCCACAACGGCGCG+TGG | 0.552381 | 2_3:+52535016 | None:intergenic |
| AACTACTGGAAACAGCATGC+TGG | 0.545401 | 2_3:-52533083 | Msa0298500:CDS |
| AAGACATTACTGCATTACGG+TGG | 0.719316 | 2_3:-52534755 | Msa0298500:CDS |
| AAGAGGTTGTGCCGGTGGAG+CGG | 0.568322 | 2_3:-52534322 | Msa0298500:CDS |
| AAGTGAACCGGGTTCACCGG+AGG | 0.679744 | 2_3:-52534594 | Msa0298500:CDS |
| AAGTGATGGTGTGGTCCTCC+TGG | 0.454718 | 2_3:+52534809 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TGAAGATGAAGAAGAAAGAA+TGG | + | chr2_3:52532445-52532464 | None:intergenic | 30.0% | |
| ATCAAGACATTACTGCATTA+CGG | - | chr2_3:52533152-52533171 | Msa0298500:intron | 30.0% | |
| TTTGATACTCAGGGATAATA+TGG | + | chr2_3:52533355-52533374 | None:intergenic | 30.0% | |
| TATTATCCCTGAGTATCAAA+CGG | - | chr2_3:52533355-52533374 | Msa0298500:intron | 30.0% | |
| AGAGTATGTATAATGCTGTT+AGG | - | chr2_3:52533381-52533400 | Msa0298500:intron | 30.0% | |
| TATAATGCTGTTAGGAGATT+TGG | - | chr2_3:52533389-52533408 | Msa0298500:intron | 30.0% | |
| ATAATGCTGTTAGGAGATTT+GGG | - | chr2_3:52533390-52533409 | Msa0298500:intron | 30.0% | |
| TTAAATTTGGAGATGGTGAT+GGG | - | chr2_3:52533477-52533496 | Msa0298500:intron | 30.0% | |
| GTTTGATCCGGATATTTATA+CGG | - | chr2_3:52533511-52533530 | Msa0298500:intron | 30.0% | |
| AAAACAAACAAACCAGAACA+AGG | + | chr2_3:52533993-52534012 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_3 | gene | 52532396 | 52535536 | 52532396 | ID=Msa0298500;Name=Msa0298500 |
| chr2_3 | mRNA | 52532396 | 52535536 | 52532396 | ID=Msa0298500-mRNA-1;Parent=Msa0298500;Name=Msa0298500-mRNA-1;_AED=0.06;_eAED=0.06;_QI=0|0|0.2|1|0|0.2|5|587|430 |
| chr2_3 | exon | 52532396 | 52533108 | 52532396 | ID=Msa0298500-mRNA-1:exon:16771;Parent=Msa0298500-mRNA-1 |
| chr2_3 | exon | 52534322 | 52534516 | 52534322 | ID=Msa0298500-mRNA-1:exon:16770;Parent=Msa0298500-mRNA-1 |
| chr2_3 | exon | 52534535 | 52535104 | 52534535 | ID=Msa0298500-mRNA-1:exon:16769;Parent=Msa0298500-mRNA-1 |
| chr2_3 | exon | 52535120 | 52535283 | 52535120 | ID=Msa0298500-mRNA-1:exon:16768;Parent=Msa0298500-mRNA-1 |
| chr2_3 | exon | 52535299 | 52535536 | 52535299 | ID=Msa0298500-mRNA-1:exon:16767;Parent=Msa0298500-mRNA-1 |
| chr2_3 | CDS | 52535299 | 52535536 | 52535299 | ID=Msa0298500-mRNA-1:cds;Parent=Msa0298500-mRNA-1 |
| chr2_3 | CDS | 52535120 | 52535283 | 52535120 | ID=Msa0298500-mRNA-1:cds;Parent=Msa0298500-mRNA-1 |
| chr2_3 | CDS | 52534535 | 52535104 | 52534535 | ID=Msa0298500-mRNA-1:cds;Parent=Msa0298500-mRNA-1 |
| chr2_3 | CDS | 52534322 | 52534516 | 52534322 | ID=Msa0298500-mRNA-1:cds;Parent=Msa0298500-mRNA-1 |
| chr2_3 | CDS | 52532983 | 52533108 | 52532983 | ID=Msa0298500-mRNA-1:cds;Parent=Msa0298500-mRNA-1 |
| chr2_3 | three_prime_UTR | 52532396 | 52532982 | 52532396 | ID=Msa0298500-mRNA-1:three_prime_utr;Parent=Msa0298500-mRNA-1 |
| Gene Sequence |
>Msa0298500 ATGGCTCACCACATCTCTTGCATTCTTCTTCTTCTTTTCTCTCTATCCATTCTTTCTTCTTCATCTTCATCACCAACGAGTCAAATAAACTCAAACTCAATCCTAATAGCACTACTCGACTCACATTACACTGAACTCACCTACCTAATCGAAAAAGCAAACCTCTTACAAACACTAGAAAACACTGTCTCAAAACACAACATTACAATCTTTGCACCAAACAACGTAGCCCTCGAACATTTCAAACACTTTCTTCTCCAACCCGGTAACATTCTTTCCCTCCAAACCCTCCTTCTTTCCCACGTCATTCCAACCCGAATTCATTCCGGGTCAACCCGTTTTAAATCCATCTCCGACCATCACCTCCACCTTGAAACAAATGTCACCACCGGAGAATTCACGGTAACCCACCCGAATGATATAACCCGACCCGACGGTGTCATCCATGGTATTCAGAAAATTCTTATCCCACGCGCCGTTGTGGATGATTTCAACAACCGTCGTAGTCTCCGTTCAATCACCGCCGTAAAACCAGAAGGTGCACCAGAAGCTGACACAAGAAAATTGAAAAAATTAAAAAAATCTTCACCGGAAAAACCAGGCTCACCACCGGAGATTCCGATTTACGAAGCTTTAGCTCCGGGACCATCACTAGCTCCGGCACCGGCGCCGGGACCAGGAGGACCACACCATCACTTCAACGGAGAGTTACAAGTGAAGGATTTCATCAAGACATTACTGCATTACGGTGGTTACAACGAAATGGCGGATATACTCGTAAACCTAACGTCGTTAGCGACGGAGATGAGTCGTTTAGTTTCAGAGGGTTATGTTTTAACCGTTTTGGCTCCGAATGACGAAGCGATGGCGAAGTTAACGACGGAGGAGTTAAGTGAACCGGGTTCACCGGAGGAGATAATGTATTACCATATTATCCCTGAGTATCAAACGGAAGAGAGTATGTATAATGCTGTTAGTTATGAGACTTTGAGGTTGAAGTATAAGGTTGTGGCTCAGGAAGCTGATGGGTCGGTTAAATTTGGAGATGGTGATGGGTCGGGTTATTTGTTTGATCCGGATATTTATACGGATGGGAGGATTTCTGTTCAAGGGATTGATGGGGTTTTGTTTCCTGTGAAGGAGAAAGAGGTTGTGCCGGTGGAGCGGGGAAACTACTGGAAACAGCATGCTGGATGCTTGGAACCTTTAGTAACCATTCTAGATTCACCTCTTGTCAATGAAAAACCCCACGTTTTTTTATGGCTAGCAAAGTTCCTTAAAACAAGGTATTGA |
| Protein sequence |
>Msa0298500 MAHHISCILLLLFSLSILSSSSSSPTSQINSNSILIALLDSHYTELTYLIEKANLLQTLENTVSKHNITIFAPNNVALEHFKHFLLQPGNILSLQTLLLSHVIPTRIHSGSTRFKSISDHHLHLETNVTTGEFTVTHPNDITRPDGVIHGIQKILIPRAVVDDFNNRRSLRSITAVKPEGAPEADTRKLKKLKKSSPEKPGSPPEIPIYEALAPGPSLAPAPAPGPGGPHHHFNGELQVKDFIKTLLHYGGYNEMADILVNLTSLATEMSRLVSEGYVLTVLAPNDEAMAKLTTEELSEPGSPEEIMYYHIIPEYQTEESMYNAVSYETLRLKYKVVAQEADGSVKFGDGDGSGYLFDPDIYTDGRISVQGIDGVLFPVKEKEVVPVERGNYWKQHAGCLEPLVTILDSPLVNEKPHVFLWLAKFLKTRY* |
