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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0943870 | A0A072U783 | 90.789 | 152 | 13 | 1 | 1 | 152 | 1 | 151 | 8.45e-94 | 277 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0001510 | Msa0943870 | 0.813590 | 2.370072e-51 | -8.615850e-47 |
| Msa0002110 | Msa0943870 | 0.826657 | 2.405160e-54 | -8.615850e-47 |
| Msa0002690 | Msa0943870 | 0.863553 | 2.292395e-64 | -8.615850e-47 |
| Msa0002700 | Msa0943870 | 0.862854 | 3.773266e-64 | -8.615850e-47 |
| Msa0004180 | Msa0943870 | 0.837558 | 4.843805e-57 | -8.615850e-47 |
| Msa0005500 | Msa0943870 | 0.832688 | 8.193515e-56 | -8.615850e-47 |
| Msa0007570 | Msa0943870 | 0.812537 | 4.033306e-51 | -8.615850e-47 |
| Msa0007810 | Msa0943870 | 0.883628 | 3.818438e-71 | -8.615850e-47 |
| Msa0009530 | Msa0943870 | 0.805294 | 1.431113e-49 | -8.615850e-47 |
| Msa0011060 | Msa0943870 | 0.881993 | 1.511424e-70 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0943870 | MtrunA17_Chr6g0460641 | 90.588 | 85 | 8 | 0 | 1 | 85 | 1 | 85 | 3.15e-50 | 155 |
| Msa0943870 | MtrunA17_Chr6g0460651 | 53.289 | 152 | 15 | 3 | 1 | 152 | 4 | 99 | 4.78e-42 | 135 |
Find 40 sgRNAs with CRISPR-Local
Find 310 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAACAACCACCATGATCCTA+AGG | 0.578374 | 6_3:+19933179 | Msa0943870:CDS |
| AAAGAATAAGAGGCAGTGCA+GGG | 0.628073 | 6_3:-19928507 | None:intergenic |
| AAAGGAAACAAGAATGAATT+TGG | 0.262043 | 6_3:+19933128 | Msa0943870:CDS |
| AACAAATTTCATGTCTTATG+AGG | 0.357442 | 6_3:+19928377 | Msa0943870:five_prime_UTR |
| AAGAATTCAGGGTAAAGGAA+AGG | 0.570547 | 6_3:+19928960 | Msa0943870:CDS |
| AAGAGAAGAGTTCTTGGTAA+AGG | 0.486551 | 6_3:+19933110 | Msa0943870:CDS |
| AAGTAATGGAGAAGATTTGT+TGG | 0.504754 | 6_3:+19933083 | Msa0943870:CDS |
| AATGCAAACTTCAATGGTTA+AGG | 0.330001 | 6_3:+19928733 | Msa0943870:CDS |
| AATGTTATTGGATTAAGTAT+TGG | 0.412576 | 6_3:+19928914 | Msa0943870:CDS |
| AGAAAACCATAAAGAATAAG+AGG | 0.424821 | 6_3:-19928517 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GTTGAACAAAAAAGAAAACG+TGG | - | chr6_3:19928471-19928490 | None:intergenic | 30.0% | |
| AATGCAAACTTCAATGGTTA+AGG | + | chr6_3:19928733-19928752 | Msa0943870:CDS | 30.0% | |
| TAGAAGCAAAATATAGAGCT+TGG | - | chr6_3:19928840-19928859 | None:intergenic | 30.0% | |
| TTGATAAAGGAGAAGAATTC+AGG | + | chr6_3:19928948-19928967 | Msa0943870:CDS | 30.0% | |
| TGATAAAGGAGAAGAATTCA+GGG | + | chr6_3:19928949-19928968 | Msa0943870:CDS | 30.0% | |
| ACTTGCATTAAAATGAAGAG+TGG | + | chr6_3:19929317-19929336 | Msa0943870:intron | 30.0% | |
| AGCGATCCAAATCATATTAA+GGG | - | chr6_3:19929483-19929502 | None:intergenic | 30.0% | |
| ACATTCATGCACTTTGTAAA+AGG | + | chr6_3:19929561-19929580 | Msa0943870:intron | 30.0% | |
| CATTCATGCACTTTGTAAAA+GGG | + | chr6_3:19929562-19929581 | Msa0943870:intron | 30.0% | |
| TTTCGACTTTAACCATCAAA+AGG | - | chr6_3:19929600-19929619 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_3 | gene | 19928375 | 19933272 | 19928375 | ID=Msa0943870;Name=Msa0943870 |
| chr6_3 | mRNA | 19928375 | 19933272 | 19928375 | ID=Msa0943870-mRNA-1;Parent=Msa0943870;Name=Msa0943870-mRNA-1;_AED=0.26;_eAED=0.26;_QI=116|0.5|0.6|1|1|1|5|54|152 |
| chr6_3 | exon | 19928375 | 19928578 | 19928375 | ID=Msa0943870-mRNA-1:exon:5978;Parent=Msa0943870-mRNA-1 |
| chr6_3 | exon | 19928699 | 19928757 | 19928699 | ID=Msa0943870-mRNA-1:exon:5979;Parent=Msa0943870-mRNA-1 |
| chr6_3 | exon | 19928911 | 19929016 | 19928911 | ID=Msa0943870-mRNA-1:exon:5980;Parent=Msa0943870-mRNA-1 |
| chr6_3 | exon | 19932873 | 19932925 | 19932873 | ID=Msa0943870-mRNA-1:exon:5981;Parent=Msa0943870-mRNA-1 |
| chr6_3 | exon | 19933066 | 19933272 | 19933066 | ID=Msa0943870-mRNA-1:exon:5982;Parent=Msa0943870-mRNA-1 |
| chr6_3 | five_prime_UTR | 19928375 | 19928490 | 19928375 | ID=Msa0943870-mRNA-1:five_prime_utr;Parent=Msa0943870-mRNA-1 |
| chr6_3 | CDS | 19928491 | 19928578 | 19928491 | ID=Msa0943870-mRNA-1:cds;Parent=Msa0943870-mRNA-1 |
| chr6_3 | CDS | 19928699 | 19928757 | 19928699 | ID=Msa0943870-mRNA-1:cds;Parent=Msa0943870-mRNA-1 |
| chr6_3 | CDS | 19928911 | 19929016 | 19928911 | ID=Msa0943870-mRNA-1:cds;Parent=Msa0943870-mRNA-1 |
| chr6_3 | CDS | 19932873 | 19932925 | 19932873 | ID=Msa0943870-mRNA-1:cds;Parent=Msa0943870-mRNA-1 |
| chr6_3 | CDS | 19933066 | 19933218 | 19933066 | ID=Msa0943870-mRNA-1:cds;Parent=Msa0943870-mRNA-1 |
| chr6_3 | three_prime_UTR | 19933219 | 19933272 | 19933219 | ID=Msa0943870-mRNA-1:three_prime_utr;Parent=Msa0943870-mRNA-1 |
| Gene Sequence |
>Msa0943870 ATGTTCAACAAATTTGCCCTGCACTGCCTCTTATTCTTTATGGTTTTCTCATGTCTTCTTCTTTCATCTTCTTCTCTACAAACAACAAGAAGATTTTTGTCAAAGGATGAAAAATCCACGTTAATGCAAACTTCAATGGTTAAGGTTGAAAATGTTATTGGATTAAGTATTGGGGAAGATTCATTTGATAAAGGAGAAGAATTCAGGGTAAAGGAAAGGATGAATTTGGAAATAGAAGACTATCCAGGGACAGGAAATTTTTTCTCAAAGGATGAAAAATCATCAGTTCAAACTACACTAGTTAAGGAGAGTGTTATTGGATTAAGTAATGGAGAAGATTTGTTGGATAAAAGAGAAGAGTTCTTGGTAAAGGAAACAAGAATGAATTTGGAAATAGAAGACTATCCAGGGACAGGAGCAAACAACCACCATGATCCTAAGGCACCAGGAAGAGTTTGA |
| Protein sequence |
>Msa0943870 MFNKFALHCLLFFMVFSCLLLSSSSLQTTRRFLSKDEKSTLMQTSMVKVENVIGLSIGEDSFDKGEEFRVKERMNLEIEDYPGTGNFFSKDEKSSVQTTLVKESVIGLSNGEDLLDKREEFLVKETRMNLEIEDYPGTGANNHHDPKAPGRV* |
