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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1287400 | A0A3Q7XN13 | 38.281 | 128 | 74 | 4 | 1 | 127 | 1 | 124 | 6.47e-16 | 78.2 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1246470 | Msa1287400 | 0.835676 | 1.460569e-56 | -8.615850e-47 |
| Msa1127140 | Msa1287400 | 0.801774 | 7.683340e-49 | -8.615850e-47 |
| Msa1166400 | Msa1287400 | 0.806517 | 7.917749e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1287400 | MtrunA17_Chr2g0298491 | 35.821 | 134 | 77 | 5 | 1 | 127 | 1 | 132 | 1.58e-14 | 65.5 |
| Msa1287400 | MtrunA17_Chr2g0298331 | 33.083 | 133 | 79 | 4 | 1 | 127 | 1 | 129 | 3.40e-13 | 62.0 |
| Msa1287400 | MtrunA17_Chr2g0298321 | 34.783 | 115 | 68 | 3 | 1 | 110 | 1 | 113 | 5.62e-13 | 61.2 |
| Msa1287400 | MtrunA17_Chr2g0298351 | 33.858 | 127 | 75 | 5 | 7 | 127 | 3 | 126 | 1.12e-11 | 57.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 20 sgRNAs with CRISPR-Local
Find 31 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCACAACAGATTTGCATAAA+TGG | 0.197881 | 8_3:+37730644 | Msa1287400:CDS |
| AATATTATGTTTAATTATAA+AGG | 0.231984 | 8_3:-37730812 | None:intergenic |
| TCCAAAGAATTGTTGTTTCA+TGG | 0.263434 | 8_3:+37730319 | Msa1287400:exon |
| CAGATTTGCATAAATGGATT+TGG | 0.269049 | 8_3:+37730650 | Msa1287400:CDS |
| GCCATGAAACAACAATTCTT+TGG | 0.280902 | 8_3:-37730320 | None:intergenic |
| GACATCTAGATTGCACAAAT+AGG | 0.327131 | 8_3:-37730511 | None:intergenic |
| GAAAGACAATTCTGATGATC+AGG | 0.395700 | 8_3:-37730533 | None:intergenic |
| ACATCTAGATTGCACAAATA+GGG | 0.428059 | 8_3:-37730510 | None:intergenic |
| TACACACAAAGACACTTAAT+CGG | 0.445050 | 8_3:-37730776 | None:intergenic |
| TAGATTGCACTCAGCAGAGC+AGG | 0.480112 | 8_3:-37730675 | None:intergenic |
| TCAAAGTGTAAGAACAAATA+CGG | 0.506661 | 8_3:+37730710 | Msa1287400:CDS |
| AAATACGGTGGACCTCGTAC+TGG | 0.555797 | 8_3:+37730725 | Msa1287400:CDS |
| ACAGTGGAATTCATAGCAGA+AGG | 0.572584 | 8_3:+37730476 | Msa1287400:intron |
| TACGGTGGACCTCGTACTGG+TGG | 0.588057 | 8_3:+37730728 | Msa1287400:CDS |
| ATATGTAACTCAAATGTACC+TGG | 0.597283 | 8_3:+37730752 | Msa1287400:CDS |
| CAAAGACACTTAATCGGACC+AGG | 0.601774 | 8_3:-37730770 | None:intergenic |
| CCATTTATGCAAATCTGTTG+TGG | 0.611972 | 8_3:-37730644 | None:intergenic |
| GATTGCACAAATAGGGAACA+TGG | 0.649315 | 8_3:-37730503 | None:intergenic |
| AAGTGTAAGAACAAATACGG+TGG | 0.715335 | 8_3:+37730713 | Msa1287400:CDS |
| TTACATATTCCACCAGTACG+AGG | 0.722086 | 8_3:-37730737 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTGATGAAATATATCATTTA+TGG | - | chr8_3:37730416-37730435 | None:intergenic | 15.0% |
| !!! | TTTTACTGAGATTATGTTAA+AGG | - | chr8_3:37730298-37730317 | None:intergenic | 20.0% |
| !!! | ACAAAAAAGTAGAAAGATTT+TGG | - | chr8_3:37730356-37730375 | None:intergenic | 20.0% |
| !!! | TTTTTTCCTAATTAATTTGC+TGG | + | chr8_3:37730450-37730469 | Msa1287400:intron | 20.0% |
| ! | TGTAAACCAGCAAATTAATT+AGG | - | chr8_3:37730459-37730478 | None:intergenic | 25.0% |
| ! | TCAAAGTGTAAGAACAAATA+CGG | + | chr8_3:37730710-37730729 | Msa1287400:CDS | 25.0% |
| !! | TCCAAAGAATTGTTGTTTCA+TGG | + | chr8_3:37730319-37730338 | Msa1287400:exon | 30.0% |
| !! | AGTAGAAAGATTTTGGAGAA+TGG | - | chr8_3:37730349-37730368 | None:intergenic | 30.0% |
| !! | ATTAATTTGCTGGTTTACAG+TGG | + | chr8_3:37730460-37730479 | Msa1287400:intron | 30.0% |
| ACATCTAGATTGCACAAATA+GGG | - | chr8_3:37730513-37730532 | None:intergenic | 30.0% | |
| TCCAAATTCAAAAATGTCTC+TGG | + | chr8_3:37730566-37730585 | Msa1287400:CDS | 30.0% | |
| CCAAATTCAAAAATGTCTCT+GGG | + | chr8_3:37730567-37730586 | Msa1287400:CDS | 30.0% | |
| ! | CAGATTTGCATAAATGGATT+TGG | + | chr8_3:37730650-37730669 | Msa1287400:CDS | 30.0% |
| ATATGTAACTCAAATGTACC+TGG | + | chr8_3:37730752-37730771 | Msa1287400:CDS | 30.0% | |
| TACACACAAAGACACTTAAT+CGG | - | chr8_3:37730779-37730798 | None:intergenic | 30.0% | |
| GCCATGAAACAACAATTCTT+TGG | - | chr8_3:37730323-37730342 | None:intergenic | 35.0% | |
| GACATCTAGATTGCACAAAT+AGG | - | chr8_3:37730514-37730533 | None:intergenic | 35.0% | |
| GAAAGACAATTCTGATGATC+AGG | - | chr8_3:37730536-37730555 | None:intergenic | 35.0% | |
| ! | CCCAGAGACATTTTTGAATT+TGG | - | chr8_3:37730570-37730589 | None:intergenic | 35.0% |
| CGTCAAAAAAACATGTGCAT+TGG | - | chr8_3:37730613-37730632 | None:intergenic | 35.0% | |
| CCATTTATGCAAATCTGTTG+TGG | - | chr8_3:37730647-37730666 | None:intergenic | 35.0% | |
| CCACAACAGATTTGCATAAA+TGG | + | chr8_3:37730644-37730663 | Msa1287400:CDS | 35.0% | |
| AAGTGTAAGAACAAATACGG+TGG | + | chr8_3:37730713-37730732 | Msa1287400:CDS | 35.0% | |
| ACAGTGGAATTCATAGCAGA+AGG | + | chr8_3:37730476-37730495 | Msa1287400:intron | 40.0% | |
| GATTGCACAAATAGGGAACA+TGG | - | chr8_3:37730506-37730525 | None:intergenic | 40.0% | |
| TTACATATTCCACCAGTACG+AGG | - | chr8_3:37730740-37730759 | None:intergenic | 40.0% | |
| CAAAGACACTTAATCGGACC+AGG | - | chr8_3:37730773-37730792 | None:intergenic | 45.0% | |
| !! | AATATTATGTTTAATTATAA+AGG | - | chr8_3:37730815-37730834 | None:intergenic | 5.0% |
| TAGATTGCACTCAGCAGAGC+AGG | - | chr8_3:37730678-37730697 | None:intergenic | 50.0% | |
| AAATACGGTGGACCTCGTAC+TGG | + | chr8_3:37730725-37730744 | Msa1287400:CDS | 50.0% | |
| TACGGTGGACCTCGTACTGG+TGG | + | chr8_3:37730728-37730747 | Msa1287400:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_3 | gene | 37730285 | 37730852 | 37730285 | ID=Msa1287400;Name=Msa1287400 |
| chr8_3 | mRNA | 37730285 | 37730852 | 37730285 | ID=Msa1287400-mRNA-1;Parent=Msa1287400;Name=Msa1287400-mRNA-1;_AED=0.00;_eAED=0.00;_QI=53|1|1|1|0|0.5|2|50|127 |
| chr8_3 | exon | 37730285 | 37730398 | 37730285 | ID=Msa1287400-mRNA-1:exon:10795;Parent=Msa1287400-mRNA-1 |
| chr8_3 | exon | 37730480 | 37730852 | 37730480 | ID=Msa1287400-mRNA-1:exon:10796;Parent=Msa1287400-mRNA-1 |
| chr8_3 | five_prime_UTR | 37730285 | 37730337 | 37730285 | ID=Msa1287400-mRNA-1:five_prime_utr;Parent=Msa1287400-mRNA-1 |
| chr8_3 | CDS | 37730338 | 37730398 | 37730338 | ID=Msa1287400-mRNA-1:cds;Parent=Msa1287400-mRNA-1 |
| chr8_3 | CDS | 37730480 | 37730802 | 37730480 | ID=Msa1287400-mRNA-1:cds;Parent=Msa1287400-mRNA-1 |
| chr8_3 | three_prime_UTR | 37730803 | 37730852 | 37730803 | ID=Msa1287400-mRNA-1:three_prime_utr;Parent=Msa1287400-mRNA-1 |
| Gene Sequence |
| Protein sequence |
