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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0016380 | XP_013470086.1 | 98.031 | 254 | 5 | 0 | 1 | 254 | 1 | 254 | 0.0 | 512 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0016380 | sp|Q94JT5|CYL2_ARATH | 79.574 | 235 | 46 | 1 | 20 | 252 | 37 | 271 | 1.35e-138 | 393 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000610 | Msa0016380 | 0.861096 | 1.304356e-63 | -8.615850e-47 |
| Msa0000800 | Msa0016380 | -0.831093 | 2.029064e-55 | -8.615850e-47 |
| Msa0001040 | Msa0016380 | 0.803704 | 3.070778e-49 | -8.615850e-47 |
| Msa0001510 | Msa0016380 | 0.869385 | 3.220474e-66 | -8.615850e-47 |
| Msa0002110 | Msa0016380 | 0.898031 | 7.901511e-77 | -8.615850e-47 |
| Msa0002690 | Msa0016380 | 0.871749 | 5.388781e-67 | -8.615850e-47 |
| Msa0002700 | Msa0016380 | 0.860710 | 1.708009e-63 | -8.615850e-47 |
| Msa0003340 | Msa0016380 | 0.908537 | 1.534201e-81 | -8.615850e-47 |
| Msa0004180 | Msa0016380 | 0.899012 | 3.018126e-77 | -8.615850e-47 |
| Msa0005190 | Msa0016380 | 0.806540 | 7.829800e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0016380 | MtrunA17_Chr1g0208221 | 98.031 | 254 | 5 | 0 | 1 | 254 | 1 | 254 | 0.0 | 512 |
| Msa0016380 | MtrunA17_Chr1g0208201 | 70.472 | 254 | 67 | 1 | 7 | 252 | 80 | 333 | 5.38e-124 | 355 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0016380 | AT4G35220.1 | 79.574 | 235 | 46 | 1 | 20 | 252 | 37 | 271 | 1.37e-139 | 393 |
| Msa0016380 | AT4G34180.1 | 68.966 | 232 | 71 | 1 | 23 | 253 | 24 | 255 | 7.99e-117 | 335 |
| Msa0016380 | AT1G44542.1 | 68.722 | 227 | 70 | 1 | 28 | 253 | 45 | 271 | 6.74e-115 | 330 |
Find 82 sgRNAs with CRISPR-Local
Find 301 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAACTTGATGATGTCCCAGC+AGG | 0.554591 | 1_1:-27187389 | Msa0016380:CDS |
| AACACTGATATTAAACTTGT+TGG | 0.407040 | 1_1:-27189765 | Msa0016380:intron |
| AACCAAATAAATTGCCGCAA+TGG | 0.546249 | 1_1:-27186975 | Msa0016380:three_prime_UTR |
| AAGTCATTAAATATTCCCAG+AGG | 0.764509 | 1_1:-27190429 | Msa0016380:CDS |
| AATAAACAAACACTCCAATA+AGG | 0.369224 | 1_1:-27186873 | Msa0016380:three_prime_UTR |
| AATCATAAGAAGCAACAGAT+AGG | 0.460354 | 1_1:+27188633 | None:intergenic |
| ACAAACAATGAGCGTATGTT+TGG | 0.387643 | 1_1:-27186761 | Msa0016380:three_prime_UTR |
| ACATGAGTACCAGTATGAGT+TGG | 0.596387 | 1_1:+27191680 | None:intergenic |
| ACCTGTCGGTATTCAATGTT+CGG | 0.395211 | 1_1:+27190388 | None:intergenic |
| AGCGGTAGTAGCGTTAGCCT+TGG | 0.620390 | 1_1:-27191915 | Msa0016380:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| CCAGTTATATTAGAATCTCT+TGG | + | chr1_1:27187307-27187326 | None:intergenic | 30.0% | |
| CCAAGAGATTCTAATATAAC+TGG | - | chr1_1:27187304-27187323 | Msa0016380:exon | 30.0% | |
| TTCACACTTATTAAGGATGA+CGG | - | chr1_1:27187608-27187627 | Msa0016380:intron | 30.0% | |
| ACAAAACAGTTGGAAATTTG+GGG | + | chr1_1:27187946-27187965 | None:intergenic | 30.0% | |
| CACAAAACAGTTGGAAATTT+GGG | + | chr1_1:27187947-27187966 | None:intergenic | 30.0% | |
| TCACAAAACAGTTGGAAATT+TGG | + | chr1_1:27187948-27187967 | None:intergenic | 30.0% | |
| AAGTCATTAAATATTCCCAG+AGG | - | chr1_1:27188327-27188346 | Msa0016380:intron | 30.0% | |
| AGTTGAGACAAACACATAAT+TGG | + | chr1_1:27188581-27188600 | None:intergenic | 30.0% | |
| TACATTCAGATAACACATAC+AGG | + | chr1_1:27188632-27188651 | None:intergenic | 30.0% | |
| GCAATGTAGCATATTAAAGT+TGG | - | chr1_1:27188711-27188730 | Msa0016380:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_1 | gene | 27186754 | 27192024 | 27186754 | ID=Msa0016380;Name=Msa0016380 |
| chr1_1 | mRNA | 27186754 | 27192024 | 27186754 | ID=Msa0016380-mRNA-1;Parent=Msa0016380;Name=Msa0016380-mRNA-1;_AED=0.28;_eAED=0.28;_QI=76|1|1|1|0.83|0.85|7|391|254 |
| chr1_1 | exon | 27186754 | 27187126 | 27186754 | ID=Msa0016380-mRNA-1:exon:9217;Parent=Msa0016380-mRNA-1 |
| chr1_1 | exon | 27187289 | 27187435 | 27187289 | ID=Msa0016380-mRNA-1:exon:9216;Parent=Msa0016380-mRNA-1 |
| chr1_1 | exon | 27188595 | 27188665 | 27188595 | ID=Msa0016380-mRNA-1:exon:9215;Parent=Msa0016380-mRNA-1 |
| chr1_1 | exon | 27189766 | 27189863 | 27189766 | ID=Msa0016380-mRNA-1:exon:9214;Parent=Msa0016380-mRNA-1 |
| chr1_1 | exon | 27190390 | 27190462 | 27190390 | ID=Msa0016380-mRNA-1:exon:9213;Parent=Msa0016380-mRNA-1 |
| chr1_1 | exon | 27191453 | 27191497 | 27191453 | ID=Msa0016380-mRNA-1:exon:9212;Parent=Msa0016380-mRNA-1 |
| chr1_1 | exon | 27191600 | 27192024 | 27191600 | ID=Msa0016380-mRNA-1:exon:9211;Parent=Msa0016380-mRNA-1 |
| chr1_1 | five_prime_UTR | 27191949 | 27192024 | 27191949 | ID=Msa0016380-mRNA-1:five_prime_utr;Parent=Msa0016380-mRNA-1 |
| chr1_1 | CDS | 27191600 | 27191948 | 27191600 | ID=Msa0016380-mRNA-1:cds;Parent=Msa0016380-mRNA-1 |
| chr1_1 | CDS | 27191453 | 27191497 | 27191453 | ID=Msa0016380-mRNA-1:cds;Parent=Msa0016380-mRNA-1 |
| chr1_1 | CDS | 27190390 | 27190462 | 27190390 | ID=Msa0016380-mRNA-1:cds;Parent=Msa0016380-mRNA-1 |
| chr1_1 | CDS | 27189766 | 27189863 | 27189766 | ID=Msa0016380-mRNA-1:cds;Parent=Msa0016380-mRNA-1 |
| chr1_1 | CDS | 27188595 | 27188665 | 27188595 | ID=Msa0016380-mRNA-1:cds;Parent=Msa0016380-mRNA-1 |
| chr1_1 | CDS | 27187307 | 27187435 | 27187307 | ID=Msa0016380-mRNA-1:cds;Parent=Msa0016380-mRNA-1 |
| chr1_1 | three_prime_UTR | 27187289 | 27187306 | 27187289 | ID=Msa0016380-mRNA-1:three_prime_utr;Parent=Msa0016380-mRNA-1 |
| chr1_1 | three_prime_UTR | 27186754 | 27187126 | 27186754 | ID=Msa0016380-mRNA-1:three_prime_utr;Parent=Msa0016380-mRNA-1 |
| Gene Sequence |
>Msa0016380 ATGAAGTATCAAGCGGTAGTAGCGTTAGCCTTGGTGGTTACAATCTCCGTAACGGCGGTGAACGGCGGAGATAACCTTATCCCTCCTCGCCGGGAAGTATACGACAATGGAAGAATCTTCGATATCACTCACAGGTATCAACCAGACATGCCAGCTTTTGAGACTAAAGATGGTATCGGTCAATTCTTGTGGCTTCCAAAAAGCATGAAGAACGGTTCCATCGCTAATAACTCTGAAATGAAGCTTCCAACTCATACTGGTACTCATGTTGATGCTCCTGGACATGTCTTCGATCATTACTTCGATGCTGGATTCGATGTCGATTCTCTCGACTTGCACGTCCTCAATGGCCCTGCTCTATTAGTTGATGTTCCAAGAGATTCTAATATAACTGCTGAAGTTATGAAGTCATTAAATATTCCCAGAGGTGTAAAGCGTGTACTCTTCCGAACATTGAATACCGACAGGCGGCTTATGTTTCAGAAGGAATTTGACTCGAGCTATGTGGGATTCACTGTGGATGGCGCAAAGTGGCTAGTGGAGAACACTGATATTAAACTTGTTGGTATTGATTACCTATCTGTTGCTTCTTATGATTACTTGATTCCATCTCACCTTGTGTTTTTAAAAGACAGGGAAAGCATTCTCGTCGAAAGCCTGAAACTTGATGATGTCCCAGCAGGATTATATTCAGTCCATTGCTTACCTCTTAGGTTGGCTGGTGCTGAGGGATCACCAATACGATGCATTCTAATCAAGTATTAG |
| Protein sequence |
>Msa0016380 MKYQAVVALALVVTISVTAVNGGDNLIPPRREVYDNGRIFDITHRYQPDMPAFETKDGIGQFLWLPKSMKNGSIANNSEMKLPTHTGTHVDAPGHVFDHYFDAGFDVDSLDLHVLNGPALLVDVPRDSNITAEVMKSLNIPRGVKRVLFRTLNTDRRLMFQKEFDSSYVGFTVDGAKWLVENTDIKLVGIDYLSVASYDYLIPSHLVFLKDRESILVESLKLDDVPAGLYSVHCLPLRLAGAEGSPIRCILIKY* |
