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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0656190 | XP_013446497.1 | 100.000 | 69 | 0 | 0 | 1 | 69 | 1 | 69 | 7.43e-41 | 138 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0656190 | sp|O22860|RL38_ARATH | 91.304 | 69 | 6 | 0 | 1 | 69 | 1 | 69 | 1.31e-40 | 130 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0656190 | A0A2Z6P5F7 | 100.000 | 69 | 0 | 0 | 1 | 69 | 1 | 69 | 3.55e-41 | 138 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0617180 | Msa0656190 | 0.921199 | 4.858245e-88 | -8.615850e-47 |
| Msa0656190 | Msa1301640 | 0.803011 | 4.272459e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0656190 | MtrunA17_Chr8g0376751 | 100.000 | 69 | 0 | 0 | 1 | 69 | 1 | 69 | 6.83e-45 | 138 |
| Msa0656190 | MtrunA17_Chr4g0033761 | 94.203 | 69 | 4 | 0 | 1 | 69 | 1 | 69 | 3.74e-42 | 131 |
| Msa0656190 | MtrunA17_Chr2g0285451 | 89.855 | 69 | 7 | 0 | 1 | 69 | 1 | 69 | 6.17e-40 | 125 |
| Msa0656190 | MtrunA17_Chr7g0216191 | 85.507 | 69 | 10 | 0 | 1 | 69 | 1 | 69 | 3.44e-35 | 113 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0656190 | AT2G43460.1 | 91.304 | 69 | 6 | 0 | 1 | 69 | 1 | 69 | 1.33e-41 | 130 |
| Msa0656190 | AT3G59540.1 | 91.304 | 69 | 6 | 0 | 1 | 69 | 1 | 69 | 1.33e-41 | 130 |
Find 22 sgRNAs with CRISPR-Local
Find 29 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AATTGATGTTATGGTTAATA+TGG | 0.267232 | 4_3:-65417380 | Msa0656190:three_prime_UTR |
| ATTTAGCTTAATTGATGTTA+TGG | 0.292742 | 4_3:-65417389 | Msa0656190:three_prime_UTR |
| GTTTCTTGTGGCTGCAAATA+GGG | 0.313902 | 4_3:+65417907 | None:intergenic |
| CTATGAGATTTGAAGATGTT+TGG | 0.339052 | 4_3:-65417428 | Msa0656190:three_prime_UTR |
| AATTCCAAGTCACAAAATCT+AGG | 0.350296 | 4_3:+65417495 | None:intergenic |
| GGTTTCTTGTGGCTGCAAAT+AGG | 0.362063 | 4_3:+65417906 | None:intergenic |
| GAAGAAAATCCTTGATTTCG+TGG | 0.412070 | 4_3:+65417754 | None:intergenic |
| TCTTCTGACAGCGCGTAGAA+AGG | 0.474822 | 4_3:-65417736 | Msa0656190:CDS |
| ACCATTGATGTGGTTTCTTG+TGG | 0.506319 | 4_3:+65417895 | None:intergenic |
| AGTGAAAATCAAGAGAAGTA+AGG | 0.506775 | 4_3:-65417703 | Msa0656190:CDS |
| GATATTTATTGCTTATATGA+TGG | 0.507627 | 4_3:-65417320 | Msa0656190:three_prime_UTR |
| TAAGGATGTGGTGAAGTTCA+AGG | 0.511754 | 4_3:-65417685 | Msa0656190:CDS |
| ATTCCAAGTCACAAAATCTA+GGG | 0.522380 | 4_3:+65417496 | None:intergenic |
| TTCTGAAGCTTATTCCAAAG+AGG | 0.534150 | 4_3:-65417941 | None:intergenic |
| GAAGCAGATCCACGAAATCA+AGG | 0.537316 | 4_3:-65417763 | Msa0656190:CDS |
| GCCACAAGAAACCACATCAA+TGG | 0.560468 | 4_3:-65417896 | Msa0656190:intron |
| TTGAAGCAATCTCTTCCACC+TGG | 0.570275 | 4_3:-65417603 | Msa0656190:CDS |
| AATCAAGAGAAGTAAGGATG+TGG | 0.579591 | 4_3:-65417697 | Msa0656190:CDS |
| AGTGGGAAGTACCATTGATG+TGG | 0.614301 | 4_3:+65417885 | None:intergenic |
| AGATCTTGAACAGTCAAACC+AGG | 0.648645 | 4_3:+65417585 | None:intergenic |
| AAGCTTATTCCAAAGAGGCG+AGG | 0.662331 | 4_3:-65417936 | Msa0656190:five_prime_UTR |
| TCTTGAACAGTCAAACCAGG+TGG | 0.706952 | 4_3:+65417588 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TAGTATTTTTTGTGTTAATA+TGG | - | chr4_3:65417835-65417854 | Msa0656190:intron | 15.0% |
| !!! | TTGGAATTATGTTTTGTAAT+TGG | - | chr4_3:65417712-65417731 | Msa0656190:CDS | 20.0% |
| !!! | ATTTAGCTTAATTGATGTTA+TGG | - | chr4_3:65417803-65417822 | Msa0656190:intron | 20.0% |
| !! | AATTGATGTTATGGTTAATA+TGG | - | chr4_3:65417812-65417831 | Msa0656190:intron | 20.0% |
| !! | GATATTTATTGCTTATATGA+TGG | - | chr4_3:65417872-65417891 | Msa0656190:intron | 20.0% |
| !!! | ATGTATTGTGTTGTTTTTTC+AGG | - | chr4_3:65417405-65417424 | Msa0656190:three_prime_UTR | 25.0% |
| TCCAATTAACGAAAGAAAGT+GGG | + | chr4_3:65417327-65417346 | None:intergenic | 30.0% | |
| AGTGAAAATCAAGAGAAGTA+AGG | - | chr4_3:65417489-65417508 | Msa0656190:three_prime_UTR | 30.0% | |
| ATTCCAAGTCACAAAATCTA+GGG | + | chr4_3:65417699-65417718 | None:intergenic | 30.0% | |
| AATTCCAAGTCACAAAATCT+AGG | + | chr4_3:65417700-65417719 | None:intergenic | 30.0% | |
| CTATGAGATTTGAAGATGTT+TGG | - | chr4_3:65417764-65417783 | Msa0656190:CDS | 30.0% | |
| TCCCACTTTCTTTCGTTAAT+TGG | - | chr4_3:65417323-65417342 | Msa0656190:three_prime_UTR | 35.0% | |
| CTCCAATTAACGAAAGAAAG+TGG | + | chr4_3:65417328-65417347 | None:intergenic | 35.0% | |
| GAAGAAAATCCTTGATTTCG+TGG | + | chr4_3:65417441-65417460 | None:intergenic | 35.0% | |
| AATCAAGAGAAGTAAGGATG+TGG | - | chr4_3:65417495-65417514 | Msa0656190:three_prime_UTR | 35.0% | |
| ! | AAACCCTAGATTTTGTGACT+TGG | - | chr4_3:65417693-65417712 | Msa0656190:CDS | 35.0% |
| GTTTCTTGTGGCTGCAAATA+GGG | + | chr4_3:65417288-65417307 | None:intergenic | 40.0% | |
| ACCATTGATGTGGTTTCTTG+TGG | + | chr4_3:65417300-65417319 | None:intergenic | 40.0% | |
| TAAGGATGTGGTGAAGTTCA+AGG | - | chr4_3:65417507-65417526 | Msa0656190:three_prime_UTR | 40.0% | |
| AGATCTTGAACAGTCAAACC+AGG | + | chr4_3:65417610-65417629 | None:intergenic | 40.0% | |
| AAGCTTATTCCAAAGAGGCG+AGG | - | chr4_3:65417256-65417275 | Msa0656190:three_prime_UTR | 45.0% | |
| GGTTTCTTGTGGCTGCAAAT+AGG | + | chr4_3:65417289-65417308 | None:intergenic | 45.0% | |
| GCCACAAGAAACCACATCAA+TGG | - | chr4_3:65417296-65417315 | Msa0656190:three_prime_UTR | 45.0% | |
| !! | AGTGGGAAGTACCATTGATG+TGG | + | chr4_3:65417310-65417329 | None:intergenic | 45.0% |
| GAAGCAGATCCACGAAATCA+AGG | - | chr4_3:65417429-65417448 | Msa0656190:three_prime_UTR | 45.0% | |
| TTGAAGCAATCTCTTCCACC+TGG | - | chr4_3:65417589-65417608 | Msa0656190:CDS | 45.0% | |
| TCTTGAACAGTCAAACCAGG+TGG | + | chr4_3:65417607-65417626 | None:intergenic | 45.0% | |
| !!! | GGGTTTTTTCCTCGCCTCTT+TGG | + | chr4_3:65417268-65417287 | None:intergenic | 50.0% |
| TCTTCTGACAGCGCGTAGAA+AGG | - | chr4_3:65417456-65417475 | Msa0656190:three_prime_UTR | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_3 | gene | 65417255 | 65417959 | 65417255 | ID=Msa0656190;Name=Msa0656190 |
| chr4_3 | mRNA | 65417255 | 65417959 | 65417255 | ID=Msa0656190-mRNA-1;Parent=Msa0656190;Name=Msa0656190-mRNA-1;_AED=0.00;_eAED=0.00;_QI=60|1|1|1|1|1|2|326|69 |
| chr4_3 | exon | 65417255 | 65417787 | 65417255 | ID=Msa0656190-mRNA-1:exon:18552;Parent=Msa0656190-mRNA-1 |
| chr4_3 | exon | 65417897 | 65417959 | 65417897 | ID=Msa0656190-mRNA-1:exon:18551;Parent=Msa0656190-mRNA-1 |
| chr4_3 | five_prime_UTR | 65417900 | 65417959 | 65417900 | ID=Msa0656190-mRNA-1:five_prime_utr;Parent=Msa0656190-mRNA-1 |
| chr4_3 | CDS | 65417897 | 65417899 | 65417897 | ID=Msa0656190-mRNA-1:cds;Parent=Msa0656190-mRNA-1 |
| chr4_3 | CDS | 65417581 | 65417787 | 65417581 | ID=Msa0656190-mRNA-1:cds;Parent=Msa0656190-mRNA-1 |
| chr4_3 | three_prime_UTR | 65417255 | 65417580 | 65417255 | ID=Msa0656190-mRNA-1:three_prime_utr;Parent=Msa0656190-mRNA-1 |
| Gene Sequence |
| Protein sequence |
