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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0632830 | XP_013456236.1 | 95.238 | 84 | 2 | 1 | 1 | 84 | 1 | 82 | 2.23e-49 | 160 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0632830 | A0A072UKM6 | 95.238 | 84 | 2 | 1 | 1 | 84 | 1 | 82 | 1.07e-49 | 160 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0604070 | Msa0632830 | 0.873290 | 1.648666e-67 | -8.615850e-47 |
| Msa0632830 | Msa0684850 | 0.844060 | 9.553086e-59 | -8.615850e-47 |
| Msa0549040 | Msa0632830 | 0.851259 | 9.969317e-61 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0632830 | MtrunA17_Chr4g0033121 | 95.238 | 84 | 2 | 1 | 1 | 84 | 1 | 82 | 2.06e-53 | 160 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 17 sgRNAs with CRISPR-Local
Find 33 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GAAAGTTAACACTTTGTTCT+TGG | 0.265427 | 4_3:+17249122 | Msa0632830:CDS |
| TCATGAAACCTAACAACTTA+AGG | 0.327541 | 4_3:-17249575 | None:intergenic |
| TGAATAAGATATATCATATA+TGG | 0.347180 | 4_3:-17249710 | None:intergenic |
| CTAACAACTTAAGGTTCAAA+AGG | 0.365834 | 4_3:-17249566 | None:intergenic |
| TTTGCAAGGTTTAAGAATGA+AGG | 0.443415 | 4_3:+17249467 | Msa0632830:CDS |
| TTGTTGTGATGAAGAGGGTC+AGG | 0.472110 | 4_3:-17249539 | None:intergenic |
| TGTTGGAACAGTAGAAGATT+CGG | 0.478056 | 4_3:+17249496 | Msa0632830:CDS |
| GATATTAGGTTGCATTTGCA+AGG | 0.488673 | 4_3:+17249453 | Msa0632830:intron |
| TAACAACTTAAGGTTCAAAA+GGG | 0.507728 | 4_3:-17249565 | None:intergenic |
| TCGGCAAGAGAAGTTCCAAC+TGG | 0.518114 | 4_3:+17249515 | Msa0632830:CDS |
| AAGAATGAAGGAGTAACTGT+TGG | 0.526498 | 4_3:+17249479 | Msa0632830:CDS |
| GGGTTATTGTTGTGATGAAG+AGG | 0.548786 | 4_3:-17249545 | None:intergenic |
| GGTTATTGTTGTGATGAAGA+GGG | 0.581176 | 4_3:-17249544 | None:intergenic |
| TGAAGAGGGTCAGGTCCAGT+TGG | 0.596354 | 4_3:-17249530 | None:intergenic |
| ATTTATCGTTCAAACATGGA+AGG | 0.596798 | 4_3:+17249286 | Msa0632830:CDS |
| TCGTATTTATCGTTCAAACA+TGG | 0.631736 | 4_3:+17249282 | Msa0632830:CDS |
| TATCGTTCAAACATGGAAGG+AGG | 0.633179 | 4_3:+17249289 | Msa0632830:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATATTTTCAATTTTGATTTA+TGG | + | chr4_3:17249631-17249650 | Msa0632830:three_prime_UTR | 10.0% |
| !!! | AAAATGAAAACTTTGTTTTT+TGG | + | chr4_3:17249361-17249380 | Msa0632830:intron | 15.0% |
| !!! | CTTTTTTTTCTTTTGATATT+AGG | + | chr4_3:17249439-17249458 | Msa0632830:intron | 15.0% |
| !! | TGAATAAGATATATCATATA+TGG | - | chr4_3:17249713-17249732 | None:intergenic | 15.0% |
| !!! | ATTAGTTTTTCTTGGTTTTT+GGG | + | chr4_3:17249223-17249242 | Msa0632830:intron | 20.0% |
| !! | CAATAATGATATCAAAAACA+TGG | - | chr4_3:17249258-17249277 | None:intergenic | 20.0% |
| !! | TATTAACATAGACCAAAAAA+GGG | - | chr4_3:17249411-17249430 | None:intergenic | 20.0% |
| !! | TTATTAACATAGACCAAAAA+AGG | - | chr4_3:17249412-17249431 | None:intergenic | 20.0% |
| !! | TTGGTCTATGTTAATAAAAA+TGG | + | chr4_3:17249415-17249434 | Msa0632830:intron | 20.0% |
| !!! | CTTTTTTCTTCTCTTCTATT+TGG | + | chr4_3:17249063-17249082 | Msa0632830:five_prime_UTR | 25.0% |
| !! | TTCTTCATCTTCATTGTTTT+AGG | - | chr4_3:17249105-17249124 | None:intergenic | 25.0% |
| !!! | CATTAGTTTTTCTTGGTTTT+TGG | + | chr4_3:17249222-17249241 | Msa0632830:intron | 25.0% |
| ! | TAACAACTTAAGGTTCAAAA+GGG | - | chr4_3:17249568-17249587 | None:intergenic | 25.0% |
| GAAAGTTAACACTTTGTTCT+TGG | + | chr4_3:17249122-17249141 | Msa0632830:CDS | 30.0% | |
| TAATGAAGAGTGATTGAACA+TGG | - | chr4_3:17249207-17249226 | None:intergenic | 30.0% | |
| !!! | CACTCTTCATTAGTTTTTCT+TGG | + | chr4_3:17249215-17249234 | Msa0632830:intron | 30.0% |
| TCGTATTTATCGTTCAAACA+TGG | + | chr4_3:17249282-17249301 | Msa0632830:CDS | 30.0% | |
| ATTTATCGTTCAAACATGGA+AGG | + | chr4_3:17249286-17249305 | Msa0632830:CDS | 30.0% | |
| !! | AAACATAGCAAAAAGCATTG+AGG | + | chr4_3:17249318-17249337 | Msa0632830:CDS | 30.0% |
| !!! | GAACTTTCAAAACCCTTTTT+TGG | + | chr4_3:17249396-17249415 | Msa0632830:intron | 30.0% |
| TTTGCAAGGTTTAAGAATGA+AGG | + | chr4_3:17249467-17249486 | Msa0632830:CDS | 30.0% | |
| CTAACAACTTAAGGTTCAAA+AGG | - | chr4_3:17249569-17249588 | None:intergenic | 30.0% | |
| !! | CTTTTGAACCTTAAGTTGTT+AGG | + | chr4_3:17249567-17249586 | Msa0632830:exon | 30.0% |
| TCATGAAACCTAACAACTTA+AGG | - | chr4_3:17249578-17249597 | None:intergenic | 30.0% | |
| ! | GATATTAGGTTGCATTTGCA+AGG | + | chr4_3:17249453-17249472 | Msa0632830:intron | 35.0% |
| AAGAATGAAGGAGTAACTGT+TGG | + | chr4_3:17249479-17249498 | Msa0632830:CDS | 35.0% | |
| TGTTGGAACAGTAGAAGATT+CGG | + | chr4_3:17249496-17249515 | Msa0632830:CDS | 35.0% | |
| GGTTATTGTTGTGATGAAGA+GGG | - | chr4_3:17249547-17249566 | None:intergenic | 35.0% | |
| TATCGTTCAAACATGGAAGG+AGG | + | chr4_3:17249289-17249308 | Msa0632830:CDS | 40.0% | |
| GGGTTATTGTTGTGATGAAG+AGG | - | chr4_3:17249548-17249567 | None:intergenic | 40.0% | |
| TTGTTGTGATGAAGAGGGTC+AGG | - | chr4_3:17249542-17249561 | None:intergenic | 45.0% | |
| TCGGCAAGAGAAGTTCCAAC+TGG | + | chr4_3:17249515-17249534 | Msa0632830:CDS | 50.0% | |
| TGAAGAGGGTCAGGTCCAGT+TGG | - | chr4_3:17249533-17249552 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_3 | gene | 17249063 | 17249766 | 17249063 | ID=Msa0632830;Name=Msa0632830 |
| chr4_3 | mRNA | 17249063 | 17249766 | 17249063 | ID=Msa0632830-mRNA-1;Parent=Msa0632830;Name=Msa0632830-mRNA-1;_AED=0.01;_eAED=0.01;_QI=48|1|1|1|1|1|3|186|84 |
| chr4_3 | exon | 17249063 | 17249186 | 17249063 | ID=Msa0632830-mRNA-1:exon:4818;Parent=Msa0632830-mRNA-1 |
| chr4_3 | exon | 17249281 | 17249339 | 17249281 | ID=Msa0632830-mRNA-1:exon:4819;Parent=Msa0632830-mRNA-1 |
| chr4_3 | exon | 17249461 | 17249766 | 17249461 | ID=Msa0632830-mRNA-1:exon:4820;Parent=Msa0632830-mRNA-1 |
| chr4_3 | five_prime_UTR | 17249063 | 17249110 | 17249063 | ID=Msa0632830-mRNA-1:five_prime_utr;Parent=Msa0632830-mRNA-1 |
| chr4_3 | CDS | 17249111 | 17249186 | 17249111 | ID=Msa0632830-mRNA-1:cds;Parent=Msa0632830-mRNA-1 |
| chr4_3 | CDS | 17249281 | 17249339 | 17249281 | ID=Msa0632830-mRNA-1:cds;Parent=Msa0632830-mRNA-1 |
| chr4_3 | CDS | 17249461 | 17249580 | 17249461 | ID=Msa0632830-mRNA-1:cds;Parent=Msa0632830-mRNA-1 |
| chr4_3 | three_prime_UTR | 17249581 | 17249766 | 17249581 | ID=Msa0632830-mRNA-1:three_prime_utr;Parent=Msa0632830-mRNA-1 |
| Gene Sequence |
| Protein sequence |
