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 |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1286720 | A0A3Q7XN13 | 38.281 | 128 | 74 | 4 | 1 | 127 | 1 | 124 | 7.52e-16 | 78.2 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1246470 | Msa1286720 | 0.846037 | 2.792815e-59 | -8.615850e-47 |
PPI
| Gene1 | Gene2 | Type |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1286720 | MtrunA17_Chr2g0298491 | 35.821 | 134 | 77 | 5 | 1 | 127 | 1 | 132 | 1.67e-14 | 65.5 |
| Msa1286720 | MtrunA17_Chr2g0298331 | 32.331 | 133 | 80 | 4 | 1 | 127 | 1 | 129 | 4.79e-13 | 61.6 |
| Msa1286720 | MtrunA17_Chr2g0298321 | 34.586 | 133 | 76 | 6 | 1 | 127 | 1 | 128 | 1.11e-12 | 60.5 |
| Msa1286720 | MtrunA17_Chr2g0298351 | 33.071 | 127 | 76 | 5 | 7 | 127 | 3 | 126 | 1.44e-11 | 57.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 22 sgRNAs with CRISPR-Local
Find 32 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCACAACAGATTTGCATAAA+TGG | 0.197881 | 8_3:+35443848 | Msa1286720:CDS |
| CTTTACTGATATTATGTTAA+AGG | 0.221893 | 8_3:-35443499 | None:intergenic |
| AATATTATGTTTAATTATAA+AGG | 0.231984 | 8_3:-35444016 | None:intergenic |
| GCCATGAAACAACAATTCTT+TGG | 0.256444 | 8_3:-35443524 | None:intergenic |
| CAGATTTGCATAAATGGATT+TGG | 0.269049 | 8_3:+35443854 | Msa1286720:CDS |
| TCCAAAGAATTGTTGTTTCA+TGG | 0.276843 | 8_3:+35443523 | Msa1286720:exon |
| GACATCTAGATTGCACAAAT+AGG | 0.327131 | 8_3:-35443715 | None:intergenic |
| GAAAGACAATTCTGTTGGTC+AGG | 0.394083 | 8_3:-35443737 | None:intergenic |
| ACATCTAGATTGCACAAATA+GGG | 0.428059 | 8_3:-35443714 | None:intergenic |
| TACACACAAAGACACTTAAT+CGG | 0.445050 | 8_3:-35443980 | None:intergenic |
| TAGATTGCACTCAGCAGAGC+AGG | 0.480112 | 8_3:-35443879 | None:intergenic |
| TCAAAGTGTAAGAACAAATA+CGG | 0.506661 | 8_3:+35443914 | Msa1286720:CDS |
| AATTTGAAAGACAATTCTGT+TGG | 0.539357 | 8_3:-35443742 | None:intergenic |
| AAATACGGTGGACCTCGTAC+TGG | 0.555797 | 8_3:+35443929 | Msa1286720:CDS |
| ACAGTGGAATTCATAGCAGA+AGG | 0.572584 | 8_3:+35443680 | Msa1286720:intron |
| TACGGTGGACCTCGTACTGG+TGG | 0.588057 | 8_3:+35443932 | Msa1286720:CDS |
| ATATGTAACTCAAATGTACC+TGG | 0.597283 | 8_3:+35443956 | Msa1286720:CDS |
| CAAAGACACTTAATCGGACC+AGG | 0.601774 | 8_3:-35443974 | None:intergenic |
| CCATTTATGCAAATCTGTTG+TGG | 0.611972 | 8_3:-35443848 | None:intergenic |
| GATTGCACAAATAGGGAACA+TGG | 0.649315 | 8_3:-35443707 | None:intergenic |
| AAGTGTAAGAACAAATACGG+TGG | 0.715335 | 8_3:+35443917 | Msa1286720:CDS |
| TTACATATTCCACCAGTACG+AGG | 0.722086 | 8_3:-35443941 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTGATGAAATATATCATTTA+TGG | - | chr8_3:35443620-35443639 | None:intergenic | 15.0% |
| !!! | TTTTTTTCTAATTAATTTGC+TGG | + | chr8_3:35443654-35443673 | Msa1286720:intron | 15.0% |
| !! | CTTTACTGATATTATGTTAA+AGG | - | chr8_3:35443502-35443521 | None:intergenic | 20.0% |
| !!! | ACAAAAAAGTAGAAAGATTT+TGG | - | chr8_3:35443560-35443579 | None:intergenic | 20.0% |
| !!! | ATCTTTCTACTTTTTTGTTG+TGG | + | chr8_3:35443562-35443581 | Msa1286720:CDS | 25.0% |
| ! | AATTTGAAAGACAATTCTGT+TGG | - | chr8_3:35443745-35443764 | None:intergenic | 25.0% |
| ! | TCAAAGTGTAAGAACAAATA+CGG | + | chr8_3:35443914-35443933 | Msa1286720:CDS | 25.0% |
| !! | TCCAAAGAATTGTTGTTTCA+TGG | + | chr8_3:35443523-35443542 | Msa1286720:exon | 30.0% |
| !! | AGTAGAAAGATTTTGGAGAA+TGG | - | chr8_3:35443553-35443572 | None:intergenic | 30.0% |
| !! | ATTAATTTGCTGGTTTACAG+TGG | + | chr8_3:35443664-35443683 | Msa1286720:intron | 30.0% |
| ACATCTAGATTGCACAAATA+GGG | - | chr8_3:35443717-35443736 | None:intergenic | 30.0% | |
| TCCAAATTCAAAAATGTCTC+TGG | + | chr8_3:35443770-35443789 | Msa1286720:CDS | 30.0% | |
| CCAAATTCAAAAATGTCTCT+GGG | + | chr8_3:35443771-35443790 | Msa1286720:CDS | 30.0% | |
| ! | CAGATTTGCATAAATGGATT+TGG | + | chr8_3:35443854-35443873 | Msa1286720:CDS | 30.0% |
| ATATGTAACTCAAATGTACC+TGG | + | chr8_3:35443956-35443975 | Msa1286720:CDS | 30.0% | |
| TACACACAAAGACACTTAAT+CGG | - | chr8_3:35443983-35444002 | None:intergenic | 30.0% | |
| GCCATGAAACAACAATTCTT+TGG | - | chr8_3:35443527-35443546 | None:intergenic | 35.0% | |
| GACATCTAGATTGCACAAAT+AGG | - | chr8_3:35443718-35443737 | None:intergenic | 35.0% | |
| ! | CCCAGAGACATTTTTGAATT+TGG | - | chr8_3:35443774-35443793 | None:intergenic | 35.0% |
| CGTCAAAAAAACATGTGCAT+TGG | - | chr8_3:35443817-35443836 | None:intergenic | 35.0% | |
| CCATTTATGCAAATCTGTTG+TGG | - | chr8_3:35443851-35443870 | None:intergenic | 35.0% | |
| CCACAACAGATTTGCATAAA+TGG | + | chr8_3:35443848-35443867 | Msa1286720:CDS | 35.0% | |
| AAGTGTAAGAACAAATACGG+TGG | + | chr8_3:35443917-35443936 | Msa1286720:CDS | 35.0% | |
| ACAGTGGAATTCATAGCAGA+AGG | + | chr8_3:35443680-35443699 | Msa1286720:intron | 40.0% | |
| GATTGCACAAATAGGGAACA+TGG | - | chr8_3:35443710-35443729 | None:intergenic | 40.0% | |
| GAAAGACAATTCTGTTGGTC+AGG | - | chr8_3:35443740-35443759 | None:intergenic | 40.0% | |
| TTACATATTCCACCAGTACG+AGG | - | chr8_3:35443944-35443963 | None:intergenic | 40.0% | |
| CAAAGACACTTAATCGGACC+AGG | - | chr8_3:35443977-35443996 | None:intergenic | 45.0% | |
| !! | AATATTATGTTTAATTATAA+AGG | - | chr8_3:35444019-35444038 | None:intergenic | 5.0% |
| TAGATTGCACTCAGCAGAGC+AGG | - | chr8_3:35443882-35443901 | None:intergenic | 50.0% | |
| AAATACGGTGGACCTCGTAC+TGG | + | chr8_3:35443929-35443948 | Msa1286720:CDS | 50.0% | |
| TACGGTGGACCTCGTACTGG+TGG | + | chr8_3:35443932-35443951 | Msa1286720:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_3 | gene | 35443489 | 35444056 | 35443489 | ID=Msa1286720;Name=Msa1286720 |
| chr8_3 | mRNA | 35443489 | 35444056 | 35443489 | ID=Msa1286720-mRNA-1;Parent=Msa1286720;Name=Msa1286720-mRNA-1;_AED=0.00;_eAED=0.00;_QI=53|1|1|1|0|0.5|2|50|127 |
| chr8_3 | exon | 35443489 | 35443602 | 35443489 | ID=Msa1286720-mRNA-1:exon:10405;Parent=Msa1286720-mRNA-1 |
| chr8_3 | exon | 35443684 | 35444056 | 35443684 | ID=Msa1286720-mRNA-1:exon:10406;Parent=Msa1286720-mRNA-1 |
| chr8_3 | five_prime_UTR | 35443489 | 35443541 | 35443489 | ID=Msa1286720-mRNA-1:five_prime_utr;Parent=Msa1286720-mRNA-1 |
| chr8_3 | CDS | 35443542 | 35443602 | 35443542 | ID=Msa1286720-mRNA-1:cds;Parent=Msa1286720-mRNA-1 |
| chr8_3 | CDS | 35443684 | 35444006 | 35443684 | ID=Msa1286720-mRNA-1:cds;Parent=Msa1286720-mRNA-1 |
| chr8_3 | three_prime_UTR | 35444007 | 35444056 | 35444007 | ID=Msa1286720-mRNA-1:three_prime_utr;Parent=Msa1286720-mRNA-1 |
| Gene Sequence |
| Protein sequence |
