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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0656360 | KEH20550.1 | 88.679 | 53 | 6 | 0 | 3 | 55 | 59 | 111 | 1.68e-26 | 103 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0656360 | A0A072U3Y4 | 88.679 | 53 | 6 | 0 | 3 | 55 | 59 | 111 | 8.03e-27 | 103 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0656360 | Msa0700160 | 0.997237 | 4.223596e-239 | -8.615850e-47 |
| Msa0656360 | Msa0968590 | 0.802575 | 5.257616e-49 | -8.615850e-47 |
| Msa0385580 | Msa0656360 | 0.809057 | 2.283405e-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 |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 8 sgRNAs with CRISPR-Local
Find 138 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGTTTCAGGTTTCTTCTTAT+TGG | 0.157724 | 4_3:+65641835 | None:intergenic |
| TCAAAACTTCAAAATGTTTC+AGG | 0.190026 | 4_3:+65641821 | None:intergenic |
| TTATTGGAGCTTTGAAGATA+TGG | 0.315067 | 4_3:+65641851 | None:intergenic |
| ATCTTACTTCATCTTGTAGT+AGG | 0.421868 | 4_3:+65641734 | None:intergenic |
| ACAAGCAACAATTACTTCCA+CGG | 0.542293 | 4_3:-65641910 | Msa0656360:CDS |
| ATTACTTCCACGGAACGAGC+TGG | 0.555290 | 4_3:-65641900 | Msa0656360:CDS |
| AGCTTTGAAGATATGGACGT+TGG | 0.560270 | 4_3:+65641858 | None:intergenic |
| TCAATATCCAGCTCGTTCCG+TGG | 0.603928 | 4_3:+65641893 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATATAAAATCAACAAAATAA+AGG | + | chr4_3:65641772-65641791 | None:intergenic | 10.0% |
| !! | ATATAAAATCAACAAAATAA+AGG | + | chr4_3:65641772-65641791 | None:intergenic | 10.0% |
| !! | CAAAATAAAGGAATTATAAA+TGG | + | chr4_3:65641760-65641779 | None:intergenic | 15.0% |
| !! | TCAAAACATATTAAATTCTA+GGG | + | chr4_3:65642200-65642219 | None:intergenic | 15.0% |
| !! | CAAAATAAAGGAATTATAAA+TGG | + | chr4_3:65641760-65641779 | None:intergenic | 15.0% |
| !! | TCAAAACATATTAAATTCTA+GGG | + | chr4_3:65642200-65642219 | None:intergenic | 15.0% |
| !! | TGTTCCTTTAATATATTACA+GGG | + | chr4_3:65641827-65641846 | None:intergenic | 20.0% |
| !! | ATGTTCCTTTAATATATTAC+AGG | + | chr4_3:65641828-65641847 | None:intergenic | 20.0% |
| !! | ATTAGTTAGAGAAACAAATA+AGG | - | chr4_3:65642092-65642111 | Msa0656360:intron | 20.0% |
| !! | TTAGTTAGAGAAACAAATAA+GGG | - | chr4_3:65642093-65642112 | Msa0656360:intron | 20.0% |
| !! | GTCAAAACATATTAAATTCT+AGG | + | chr4_3:65642201-65642220 | None:intergenic | 20.0% |
| !! | ATATAACATGATTATCATCT+AGG | + | chr4_3:65642473-65642492 | None:intergenic | 20.0% |
| !! | ATGGAAATGTTATATTAGAA+TGG | + | chr4_3:65642633-65642652 | None:intergenic | 20.0% |
| !! | ACATAAAAAATTCCCTAATA+CGG | - | chr4_3:65642657-65642676 | Msa0656360:intron | 20.0% |
| !! | TGTTCCTTTAATATATTACA+GGG | + | chr4_3:65641827-65641846 | None:intergenic | 20.0% |
| !! | ATGTTCCTTTAATATATTAC+AGG | + | chr4_3:65641828-65641847 | None:intergenic | 20.0% |
| !! | ATTAGTTAGAGAAACAAATA+AGG | - | chr4_3:65642092-65642111 | Msa0656360:intron | 20.0% |
| !! | TTAGTTAGAGAAACAAATAA+GGG | - | chr4_3:65642093-65642112 | Msa0656360:intron | 20.0% |
| !! | GTCAAAACATATTAAATTCT+AGG | + | chr4_3:65642201-65642220 | None:intergenic | 20.0% |
| !! | ATATAACATGATTATCATCT+AGG | + | chr4_3:65642473-65642492 | None:intergenic | 20.0% |
| !! | ATGGAAATGTTATATTAGAA+TGG | + | chr4_3:65642633-65642652 | None:intergenic | 20.0% |
| !! | ACATAAAAAATTCCCTAATA+CGG | - | chr4_3:65642657-65642676 | Msa0656360:intron | 20.0% |
| ! | AACTGATTAATGGTATAAAC+AGG | + | chr4_3:65641804-65641823 | None:intergenic | 25.0% |
| ! | AGTTCCCTGTAATATATTAA+AGG | - | chr4_3:65641820-65641839 | Msa0656360:CDS | 25.0% |
| ! | AAATCGACAAAAATTACACT+GGG | + | chr4_3:65641948-65641967 | None:intergenic | 25.0% |
| !!! | AGTGTTCATTTTTAAACTAG+AGG | - | chr4_3:65642121-65642140 | Msa0656360:intron | 25.0% |
| !!! | GTGTTCATTTTTAAACTAGA+GGG | - | chr4_3:65642122-65642141 | Msa0656360:intron | 25.0% |
| !!! | TGTTCATTTTTAAACTAGAG+GGG | - | chr4_3:65642123-65642142 | Msa0656360:intron | 25.0% |
| !! | CATTTTCAATGAATTGACAT+GGG | - | chr4_3:65642356-65642375 | Msa0656360:intron | 25.0% |
| ! | TGATCTGTCTCTTAATATTT+CGG | + | chr4_3:65642499-65642518 | None:intergenic | 25.0% |
| !!! | TGTACTGATTTCTAAGTTTA+GGG | + | chr4_3:65642524-65642543 | None:intergenic | 25.0% |
| !!! | TTGTACTGATTTCTAAGTTT+AGG | + | chr4_3:65642525-65642544 | None:intergenic | 25.0% |
| !! | TATATTAGAATGGCATGTTT+TGG | + | chr4_3:65642623-65642642 | None:intergenic | 25.0% |
| ! | CTTGAATTATTACCGTATTA+GGG | + | chr4_3:65642672-65642691 | None:intergenic | 25.0% |
| ! | TCAAAACTTCAAAATGTTTC+AGG | + | chr4_3:65642789-65642808 | None:intergenic | 25.0% |
| ! | AACTGATTAATGGTATAAAC+AGG | + | chr4_3:65641804-65641823 | None:intergenic | 25.0% |
| ! | AGTTCCCTGTAATATATTAA+AGG | - | chr4_3:65641820-65641839 | Msa0656360:CDS | 25.0% |
| ! | AAATCGACAAAAATTACACT+GGG | + | chr4_3:65641948-65641967 | None:intergenic | 25.0% |
| !!! | AGTGTTCATTTTTAAACTAG+AGG | - | chr4_3:65642121-65642140 | Msa0656360:intron | 25.0% |
| !!! | GTGTTCATTTTTAAACTAGA+GGG | - | chr4_3:65642122-65642141 | Msa0656360:intron | 25.0% |
| !!! | TGTTCATTTTTAAACTAGAG+GGG | - | chr4_3:65642123-65642142 | Msa0656360:intron | 25.0% |
| !! | CATTTTCAATGAATTGACAT+GGG | - | chr4_3:65642356-65642375 | Msa0656360:intron | 25.0% |
| ! | TGATCTGTCTCTTAATATTT+CGG | + | chr4_3:65642499-65642518 | None:intergenic | 25.0% |
| !!! | TGTACTGATTTCTAAGTTTA+GGG | + | chr4_3:65642524-65642543 | None:intergenic | 25.0% |
| !!! | TTGTACTGATTTCTAAGTTT+AGG | + | chr4_3:65642525-65642544 | None:intergenic | 25.0% |
| !! | TATATTAGAATGGCATGTTT+TGG | + | chr4_3:65642623-65642642 | None:intergenic | 25.0% |
| ! | CTTGAATTATTACCGTATTA+GGG | + | chr4_3:65642672-65642691 | None:intergenic | 25.0% |
| ! | TCAAAACTTCAAAATGTTTC+AGG | + | chr4_3:65642789-65642808 | None:intergenic | 25.0% |
| TATTACAGGGAACTGATTAA+TGG | + | chr4_3:65641814-65641833 | None:intergenic | 30.0% | |
| AATCGACAAAAATTACACTG+GGG | + | chr4_3:65641947-65641966 | None:intergenic | 30.0% | |
| CAAATCGACAAAAATTACAC+TGG | + | chr4_3:65641949-65641968 | None:intergenic | 30.0% | |
| TGTTAACTTCTTTGCTACAA+TGG | + | chr4_3:65642036-65642055 | None:intergenic | 30.0% | |
| !! | GTTCATTTTTAAACTAGAGG+GGG | - | chr4_3:65642124-65642143 | Msa0656360:intron | 30.0% |
| !! | TTCATTTTTAAACTAGAGGG+GGG | - | chr4_3:65642125-65642144 | Msa0656360:intron | 30.0% |
| ACTTAAACGCATTTCATAAG+AGG | + | chr4_3:65642246-65642265 | None:intergenic | 30.0% | |
| CCATGTCAATTCATTGAAAA+TGG | + | chr4_3:65642358-65642377 | None:intergenic | 30.0% | |
| ! | CCATTTTCAATGAATTGACA+TGG | - | chr4_3:65642355-65642374 | Msa0656360:intron | 30.0% |
| GATCTGTCTCTTAATATTTC+GGG | + | chr4_3:65642498-65642517 | None:intergenic | 30.0% | |
| AAACAACTGTGTAGATTGTT+GGG | + | chr4_3:65642561-65642580 | None:intergenic | 30.0% | |
| AAAACAACTGTGTAGATTGT+TGG | + | chr4_3:65642562-65642581 | None:intergenic | 30.0% | |
| CCTTGAATTATTACCGTATT+AGG | + | chr4_3:65642673-65642692 | None:intergenic | 30.0% | |
| CCTAATACGGTAATAATTCA+AGG | - | chr4_3:65642670-65642689 | Msa0656360:intron | 30.0% | |
| !! | TTATTGGAGCTTTGAAGATA+TGG | + | chr4_3:65642759-65642778 | None:intergenic | 30.0% |
| !! | TGTTTCAGGTTTCTTCTTAT+TGG | + | chr4_3:65642775-65642794 | None:intergenic | 30.0% |
| ATCTTACTTCATCTTGTAGT+AGG | + | chr4_3:65642876-65642895 | None:intergenic | 30.0% | |
| TATTACAGGGAACTGATTAA+TGG | + | chr4_3:65641814-65641833 | None:intergenic | 30.0% | |
| AATCGACAAAAATTACACTG+GGG | + | chr4_3:65641947-65641966 | None:intergenic | 30.0% | |
| CAAATCGACAAAAATTACAC+TGG | + | chr4_3:65641949-65641968 | None:intergenic | 30.0% | |
| TGTTAACTTCTTTGCTACAA+TGG | + | chr4_3:65642036-65642055 | None:intergenic | 30.0% | |
| !! | GTTCATTTTTAAACTAGAGG+GGG | - | chr4_3:65642124-65642143 | Msa0656360:intron | 30.0% |
| !! | TTCATTTTTAAACTAGAGGG+GGG | - | chr4_3:65642125-65642144 | Msa0656360:intron | 30.0% |
| ACTTAAACGCATTTCATAAG+AGG | + | chr4_3:65642246-65642265 | None:intergenic | 30.0% | |
| CCATGTCAATTCATTGAAAA+TGG | + | chr4_3:65642358-65642377 | None:intergenic | 30.0% | |
| ! | CCATTTTCAATGAATTGACA+TGG | - | chr4_3:65642355-65642374 | Msa0656360:intron | 30.0% |
| GATCTGTCTCTTAATATTTC+GGG | + | chr4_3:65642498-65642517 | None:intergenic | 30.0% | |
| AAACAACTGTGTAGATTGTT+GGG | + | chr4_3:65642561-65642580 | None:intergenic | 30.0% | |
| AAAACAACTGTGTAGATTGT+TGG | + | chr4_3:65642562-65642581 | None:intergenic | 30.0% | |
| CCTTGAATTATTACCGTATT+AGG | + | chr4_3:65642673-65642692 | None:intergenic | 30.0% | |
| CCTAATACGGTAATAATTCA+AGG | - | chr4_3:65642670-65642689 | Msa0656360:intron | 30.0% | |
| !! | TTATTGGAGCTTTGAAGATA+TGG | + | chr4_3:65642759-65642778 | None:intergenic | 30.0% |
| !! | TGTTTCAGGTTTCTTCTTAT+TGG | + | chr4_3:65642775-65642794 | None:intergenic | 30.0% |
| ATCTTACTTCATCTTGTAGT+AGG | + | chr4_3:65642876-65642895 | None:intergenic | 30.0% | |
| ! | GATACGTTGTTTGAGTTCTA+TGG | - | chr4_3:65641887-65641906 | Msa0656360:CDS | 35.0% |
| !!! | TTTTGTCGATTTGCAAGAGA+TGG | - | chr4_3:65641956-65641975 | Msa0656360:intron | 35.0% |
| !! | TTTGTCGATTTGCAAGAGAT+GGG | - | chr4_3:65641957-65641976 | Msa0656360:intron | 35.0% |
| ACAGTGTTAACTTACAAGAG+AGG | - | chr4_3:65642064-65642083 | Msa0656360:intron | 35.0% | |
| GTTAGAGAAACAAATAAGGG+AGG | - | chr4_3:65642096-65642115 | Msa0656360:intron | 35.0% | |
| ! | TTTAAGTTTGCAGTTAGCTG+AGG | - | chr4_3:65642259-65642278 | Msa0656360:intron | 35.0% |
| !! | ATTAGAATGGCATGTTTTGG+AGG | + | chr4_3:65642620-65642639 | None:intergenic | 35.0% |
| !!! | GGGAATTTTTTATGTCGTGA+TGG | + | chr4_3:65642652-65642671 | None:intergenic | 35.0% |
| ACAAGCAACAATTACTTCCA+CGG | - | chr4_3:65642697-65642716 | Msa0656360:intron | 35.0% | |
| ! | GACATTTTTGTTACACACAC+AGG | - | chr4_3:65642831-65642850 | Msa0656360:intron | 35.0% |
| ! | GATACGTTGTTTGAGTTCTA+TGG | - | chr4_3:65641887-65641906 | Msa0656360:CDS | 35.0% |
| !!! | TTTTGTCGATTTGCAAGAGA+TGG | - | chr4_3:65641956-65641975 | Msa0656360:intron | 35.0% |
| !! | TTTGTCGATTTGCAAGAGAT+GGG | - | chr4_3:65641957-65641976 | Msa0656360:intron | 35.0% |
| ACAGTGTTAACTTACAAGAG+AGG | - | chr4_3:65642064-65642083 | Msa0656360:intron | 35.0% | |
| GTTAGAGAAACAAATAAGGG+AGG | - | chr4_3:65642096-65642115 | Msa0656360:intron | 35.0% | |
| ! | TTTAAGTTTGCAGTTAGCTG+AGG | - | chr4_3:65642259-65642278 | Msa0656360:intron | 35.0% |
| !! | ATTAGAATGGCATGTTTTGG+AGG | + | chr4_3:65642620-65642639 | None:intergenic | 35.0% |
| !!! | GGGAATTTTTTATGTCGTGA+TGG | + | chr4_3:65642652-65642671 | None:intergenic | 35.0% |
| ACAAGCAACAATTACTTCCA+CGG | - | chr4_3:65642697-65642716 | Msa0656360:intron | 35.0% | |
| ! | GACATTTTTGTTACACACAC+AGG | - | chr4_3:65642831-65642850 | Msa0656360:intron | 35.0% |
| !! | TTGTCGATTTGCAAGAGATG+GGG | - | chr4_3:65641958-65641977 | Msa0656360:intron | 40.0% |
| GGATACCAATTTCACATGCA+AGG | - | chr4_3:65641979-65641998 | Msa0656360:intron | 40.0% | |
| TGCATCCTTGCATGTGAAAT+TGG | + | chr4_3:65641987-65642006 | None:intergenic | 40.0% | |
| TGTTGTCTAAGGAAGTCTCA+GGG | - | chr4_3:65642154-65642173 | Msa0656360:intron | 40.0% | |
| TTTCATAAGAGGCAGGCAAA+GGG | + | chr4_3:65642235-65642254 | None:intergenic | 40.0% | |
| ATTTCATAAGAGGCAGGCAA+AGG | + | chr4_3:65642236-65642255 | None:intergenic | 40.0% | |
| AAACGCATTTCATAAGAGGC+AGG | + | chr4_3:65642242-65642261 | None:intergenic | 40.0% | |
| ! | CACTGTTCTGAGCATGATTT+AGG | + | chr4_3:65642419-65642438 | None:intergenic | 40.0% |
| !! | AGCTTTGAAGATATGGACGT+TGG | + | chr4_3:65642752-65642771 | None:intergenic | 40.0% |
| !! | TTGTCGATTTGCAAGAGATG+GGG | - | chr4_3:65641958-65641977 | Msa0656360:intron | 40.0% |
| GGATACCAATTTCACATGCA+AGG | - | chr4_3:65641979-65641998 | Msa0656360:intron | 40.0% | |
| TGCATCCTTGCATGTGAAAT+TGG | + | chr4_3:65641987-65642006 | None:intergenic | 40.0% | |
| TGTTGTCTAAGGAAGTCTCA+GGG | - | chr4_3:65642154-65642173 | Msa0656360:intron | 40.0% | |
| TTTCATAAGAGGCAGGCAAA+GGG | + | chr4_3:65642235-65642254 | None:intergenic | 40.0% | |
| ATTTCATAAGAGGCAGGCAA+AGG | + | chr4_3:65642236-65642255 | None:intergenic | 40.0% | |
| AAACGCATTTCATAAGAGGC+AGG | + | chr4_3:65642242-65642261 | None:intergenic | 40.0% | |
| ! | CACTGTTCTGAGCATGATTT+AGG | + | chr4_3:65642419-65642438 | None:intergenic | 40.0% |
| !! | AGCTTTGAAGATATGGACGT+TGG | + | chr4_3:65642752-65642771 | None:intergenic | 40.0% |
| GTGTTGTCTAAGGAAGTCTC+AGG | - | chr4_3:65642153-65642172 | Msa0656360:intron | 45.0% | |
| GTTGTCTAAGGAAGTCTCAG+GGG | - | chr4_3:65642155-65642174 | Msa0656360:intron | 45.0% | |
| TTGTCTAAGGAAGTCTCAGG+GGG | - | chr4_3:65642156-65642175 | Msa0656360:intron | 45.0% | |
| TTCATAAGAGGCAGGCAAAG+GGG | + | chr4_3:65642234-65642253 | None:intergenic | 45.0% | |
| GTGTTGTCTAAGGAAGTCTC+AGG | - | chr4_3:65642153-65642172 | Msa0656360:intron | 45.0% | |
| GTTGTCTAAGGAAGTCTCAG+GGG | - | chr4_3:65642155-65642174 | Msa0656360:intron | 45.0% | |
| TTGTCTAAGGAAGTCTCAGG+GGG | - | chr4_3:65642156-65642175 | Msa0656360:intron | 45.0% | |
| TTCATAAGAGGCAGGCAAAG+GGG | + | chr4_3:65642234-65642253 | None:intergenic | 45.0% | |
| ! | GGGGGTATGTGTGTTGTCTA+AGG | - | chr4_3:65642143-65642162 | Msa0656360:intron | 50.0% |
| TGTCTAAGGAAGTCTCAGGG+GGG | - | chr4_3:65642157-65642176 | Msa0656360:intron | 50.0% | |
| ATTACTTCCACGGAACGAGC+TGG | - | chr4_3:65642707-65642726 | Msa0656360:intron | 50.0% | |
| TCAATATCCAGCTCGTTCCG+TGG | + | chr4_3:65642717-65642736 | None:intergenic | 50.0% | |
| ! | GGGGGTATGTGTGTTGTCTA+AGG | - | chr4_3:65642143-65642162 | Msa0656360:intron | 50.0% |
| TGTCTAAGGAAGTCTCAGGG+GGG | - | chr4_3:65642157-65642176 | Msa0656360:intron | 50.0% | |
| ATTACTTCCACGGAACGAGC+TGG | - | chr4_3:65642707-65642726 | Msa0656360:intron | 50.0% | |
| TCAATATCCAGCTCGTTCCG+TGG | + | chr4_3:65642717-65642736 | None:intergenic | 50.0% | |
| CTAAGGAAGTCTCAGGGGGG+AGG | - | chr4_3:65642160-65642179 | Msa0656360:intron | 60.0% | |
| CTAAGGAAGTCTCAGGGGGG+AGG | - | chr4_3:65642160-65642179 | Msa0656360:intron | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_3 | gene | 65641732 | 65642897 | 65641732 | ID=Msa0656360;Name=Msa0656360 |
| chr4_3 | mRNA | 65641732 | 65642897 | 65641732 | ID=Msa0656360-mRNA-1;Parent=Msa0656360;Name=Msa0656360-mRNA-1;_AED=0.42;_eAED=0.42;_QI=0|0|0|1|0|0|2|0|69 |
| chr4_3 | exon | 65642894 | 65642897 | 65642894 | ID=Msa0656360-mRNA-1:exon:18674;Parent=Msa0656360-mRNA-1 |
| chr4_3 | exon | 65641732 | 65641937 | 65641732 | ID=Msa0656360-mRNA-1:exon:18673;Parent=Msa0656360-mRNA-1 |
| chr4_3 | CDS | 65642894 | 65642897 | 65642894 | ID=Msa0656360-mRNA-1:cds;Parent=Msa0656360-mRNA-1 |
| chr4_3 | CDS | 65641732 | 65641937 | 65641732 | ID=Msa0656360-mRNA-1:cds;Parent=Msa0656360-mRNA-1 |
| Gene Sequence |
| Protein sequence |
