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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0969740 | KEH24761.1 | 97.143 | 105 | 3 | 0 | 2 | 106 | 210 | 314 | 1.57e-69 | 220 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0969740 | A0A072U5Y5 | 97.143 | 105 | 3 | 0 | 2 | 106 | 210 | 314 | 7.48e-70 | 220 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0969740 | MtrunA17_Chr6g0449241 | 97.143 | 105 | 3 | 0 | 2 | 106 | 248 | 352 | 7.56e-73 | 219 |
| Msa0969740 | MtrunA17_Chr3g0116981 | 58.095 | 105 | 44 | 0 | 2 | 106 | 248 | 352 | 7.36e-43 | 143 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0969740 | AT5G50180.1 | 60.000 | 105 | 42 | 0 | 2 | 106 | 242 | 346 | 7.14e-43 | 143 |
| Msa0969740 | AT5G40540.3 | 65.385 | 104 | 33 | 2 | 2 | 102 | 151 | 254 | 4.73e-37 | 125 |
| Msa0969740 | AT5G40540.2 | 65.385 | 104 | 33 | 2 | 2 | 102 | 172 | 275 | 7.67e-37 | 125 |
| Msa0969740 | AT5G40540.1 | 65.385 | 104 | 33 | 2 | 2 | 102 | 248 | 351 | 3.75e-36 | 125 |
| Msa0969740 | AT3G27560.1 | 61.905 | 105 | 34 | 2 | 2 | 100 | 248 | 352 | 8.99e-35 | 122 |
Find 32 sgRNAs with CRISPR-Local
Find 46 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGTCTTCCACATTGGCTTTC+GGG | 0.175062 | 6_4:-1166793 | None:intergenic |
| CTGTCTTCCACATTGGCTTT+CGG | 0.211052 | 6_4:-1166794 | None:intergenic |
| CTAAAATTCGGCCTATCATT+TGG | 0.291837 | 6_4:-1166614 | None:intergenic |
| GCACTTGTACCGGGAGATTC+TGG | 0.306521 | 6_4:-1166737 | None:intergenic |
| TGTATGATTTCACTAAAATT+CGG | 0.393164 | 6_4:-1166626 | None:intergenic |
| TACCATTTCGCCATTAGAAC+CGG | 0.413669 | 6_4:+1166670 | Msa0969740:CDS |
| CCTAGTGCTGAAGATCTTCC+TGG | 0.417103 | 6_4:+1166551 | Msa0969740:CDS |
| ATTGGAACAACCGGTTCTAA+TGG | 0.431284 | 6_4:-1166680 | None:intergenic |
| GCCATCCGCATTGGAACAAC+CGG | 0.433409 | 6_4:-1166689 | None:intergenic |
| ATGTTTCGACGAGACGACTC+TGG | 0.468042 | 6_4:+1166764 | Msa0969740:CDS |
| AACCGGTTCTAATGGCGAAA+TGG | 0.471939 | 6_4:-1166672 | None:intergenic |
| AAACATTAATGCACTTGTAC+CGG | 0.492205 | 6_4:-1166747 | None:intergenic |
| AAATCATACAGATGCTCCTT+CGG | 0.494850 | 6_4:+1166639 | Msa0969740:CDS |
| GGAAAGAGGATCCAAATGAT+AGG | 0.498462 | 6_4:+1166603 | Msa0969740:CDS |
| CCAGGAAGATCTTCAGCACT+AGG | 0.503786 | 6_4:-1166551 | None:intergenic |
| TTTGATTATTTCAGAATACA+AGG | 0.504680 | 6_4:+1166528 | Msa0969740:intron |
| ATGTGGAAGACAGGTTCAAA+GGG | 0.506061 | 6_4:+1166804 | Msa0969740:CDS |
| TTTGAACCTGTCTTCCACAT+TGG | 0.512154 | 6_4:-1166801 | None:intergenic |
| GTCTTCCACATTGGCTTTCG+GGG | 0.519836 | 6_4:-1166792 | None:intergenic |
| CGAAAGCCAATGTGGAAGAC+AGG | 0.526697 | 6_4:+1166795 | Msa0969740:CDS |
| AATGTGGAAGACAGGTTCAA+AGG | 0.531304 | 6_4:+1166803 | Msa0969740:CDS |
| TCAGATGAAGCCATCCGCAT+TGG | 0.535963 | 6_4:-1166698 | None:intergenic |
| AACATTAATGCACTTGTACC+GGG | 0.545157 | 6_4:-1166746 | None:intergenic |
| ACCGGTTGTTCCAATGCGGA+TGG | 0.555137 | 6_4:+1166688 | Msa0969740:CDS |
| CTATGATTGTAACATCATGT+TGG | 0.563458 | 6_4:+1166582 | Msa0969740:CDS |
| TGTAACATCATGTTGGAAAG+AGG | 0.566604 | 6_4:+1166589 | Msa0969740:CDS |
| ACAATCATAGCTAAATCACC+AGG | 0.643445 | 6_4:-1166569 | None:intergenic |
| GTATTGCCACCAGAATCTCC+CGG | 0.659621 | 6_4:+1166728 | Msa0969740:CDS |
| AGAAACCCCGAAAGCCAATG+TGG | 0.669643 | 6_4:+1166787 | Msa0969740:CDS |
| CTTGTACCGGGAGATTCTGG+TGG | 0.683137 | 6_4:-1166734 | None:intergenic |
| AAATGGTAGAGAGATACCGA+AGG | 0.694007 | 6_4:-1166655 | None:intergenic |
| TAGAACCGGTTGTTCCAATG+CGG | 0.695897 | 6_4:+1166684 | Msa0969740:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AGTTAAATTATGATTATAGT+CGG | - | chr6_4:1166448-1166467 | None:intergenic | 15.0% |
| !!! | TGATAAGTTATTCTTTTCTT+TGG | - | chr6_4:1166259-1166278 | None:intergenic | 20.0% |
| !!! | GGTAACAAATTTTACATAAA+CGG | - | chr6_4:1166322-1166341 | None:intergenic | 20.0% |
| !!! | GTTTATGTAAAATTTGTTAC+CGG | + | chr6_4:1166321-1166340 | Msa0969740:intron | 20.0% |
| !! | TTTGATTATTTCAGAATACA+AGG | + | chr6_4:1166528-1166547 | Msa0969740:intron | 20.0% |
| !! | TGTATGATTTCACTAAAATT+CGG | - | chr6_4:1166629-1166648 | None:intergenic | 20.0% |
| ! | ATTTTACATAAACGGTGATG+TGG | - | chr6_4:1166314-1166333 | None:intergenic | 30.0% |
| AGTTTAGACAATAGGTAAAC+CGG | - | chr6_4:1166343-1166362 | None:intergenic | 30.0% | |
| ACACAATCAGTTTAGACAAT+AGG | - | chr6_4:1166351-1166370 | None:intergenic | 30.0% | |
| CTATGATTGTAACATCATGT+TGG | + | chr6_4:1166582-1166601 | Msa0969740:CDS | 30.0% | |
| AAACATTAATGCACTTGTAC+CGG | - | chr6_4:1166750-1166769 | None:intergenic | 30.0% | |
| AGCATGCTGACATATATTCT+AGG | + | chr6_4:1166177-1166196 | Msa0969740:intron | 35.0% | |
| AAAGCTACTTGAGACGTATA+TGG | + | chr6_4:1166392-1166411 | Msa0969740:intron | 35.0% | |
| GACGTATATGGTTTCTATTC+TGG | + | chr6_4:1166404-1166423 | Msa0969740:intron | 35.0% | |
| ACAATCATAGCTAAATCACC+AGG | - | chr6_4:1166572-1166591 | None:intergenic | 35.0% | |
| TGTAACATCATGTTGGAAAG+AGG | + | chr6_4:1166589-1166608 | Msa0969740:CDS | 35.0% | |
| CTAAAATTCGGCCTATCATT+TGG | - | chr6_4:1166617-1166636 | None:intergenic | 35.0% | |
| AAATCATACAGATGCTCCTT+CGG | + | chr6_4:1166639-1166658 | Msa0969740:CDS | 35.0% | |
| AACATTAATGCACTTGTACC+GGG | - | chr6_4:1166749-1166768 | None:intergenic | 35.0% | |
| CATGCTCAATAGAGATGAGT+TGG | - | chr6_4:1166163-1166182 | None:intergenic | 40.0% | |
| TAAACGGTGATGTGGATCAA+TGG | - | chr6_4:1166306-1166325 | None:intergenic | 40.0% | |
| ! | CTGCTGCTTGAAGTTTACTA+AGG | + | chr6_4:1166488-1166507 | Msa0969740:intron | 40.0% |
| GGAAAGAGGATCCAAATGAT+AGG | + | chr6_4:1166603-1166622 | Msa0969740:CDS | 40.0% | |
| AAATGGTAGAGAGATACCGA+AGG | - | chr6_4:1166658-1166677 | None:intergenic | 40.0% | |
| TACCATTTCGCCATTAGAAC+CGG | + | chr6_4:1166670-1166689 | Msa0969740:CDS | 40.0% | |
| ! | ATTGGAACAACCGGTTCTAA+TGG | - | chr6_4:1166683-1166702 | None:intergenic | 40.0% |
| TTTGAACCTGTCTTCCACAT+TGG | - | chr6_4:1166804-1166823 | None:intergenic | 40.0% | |
| AATGTGGAAGACAGGTTCAA+AGG | + | chr6_4:1166803-1166822 | Msa0969740:CDS | 40.0% | |
| ATGTGGAAGACAGGTTCAAA+GGG | + | chr6_4:1166804-1166823 | Msa0969740:CDS | 40.0% | |
| TCAAGCAGCAGTGAATTCAG+TGG | - | chr6_4:1166479-1166498 | None:intergenic | 45.0% | |
| ! | AACCGGTTCTAATGGCGAAA+TGG | - | chr6_4:1166675-1166694 | None:intergenic | 45.0% |
| TAGAACCGGTTGTTCCAATG+CGG | + | chr6_4:1166684-1166703 | Msa0969740:CDS | 45.0% | |
| !! | TGTCTTCCACATTGGCTTTC+GGG | - | chr6_4:1166796-1166815 | None:intergenic | 45.0% |
| !! | CTGTCTTCCACATTGGCTTT+CGG | - | chr6_4:1166797-1166816 | None:intergenic | 45.0% |
| CCAGGAAGATCTTCAGCACT+AGG | - | chr6_4:1166554-1166573 | None:intergenic | 50.0% | |
| ! | CCTAGTGCTGAAGATCTTCC+TGG | + | chr6_4:1166551-1166570 | Msa0969740:CDS | 50.0% |
| TCAGATGAAGCCATCCGCAT+TGG | - | chr6_4:1166701-1166720 | None:intergenic | 50.0% | |
| GTATTGCCACCAGAATCTCC+CGG | + | chr6_4:1166728-1166747 | Msa0969740:CDS | 50.0% | |
| ATGTTTCGACGAGACGACTC+TGG | + | chr6_4:1166764-1166783 | Msa0969740:CDS | 50.0% | |
| AGAAACCCCGAAAGCCAATG+TGG | + | chr6_4:1166787-1166806 | Msa0969740:CDS | 50.0% | |
| !! | GTCTTCCACATTGGCTTTCG+GGG | - | chr6_4:1166795-1166814 | None:intergenic | 50.0% |
| CGAAAGCCAATGTGGAAGAC+AGG | + | chr6_4:1166795-1166814 | Msa0969740:CDS | 50.0% | |
| ACCGGTTGTTCCAATGCGGA+TGG | + | chr6_4:1166688-1166707 | Msa0969740:CDS | 55.0% | |
| GCCATCCGCATTGGAACAAC+CGG | - | chr6_4:1166692-1166711 | None:intergenic | 55.0% | |
| CTTGTACCGGGAGATTCTGG+TGG | - | chr6_4:1166737-1166756 | None:intergenic | 55.0% | |
| GCACTTGTACCGGGAGATTC+TGG | - | chr6_4:1166740-1166759 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_4 | gene | 1166140 | 1166856 | 1166140 | ID=Msa0969740;Name=Msa0969740 |
| chr6_4 | mRNA | 1166140 | 1166856 | 1166140 | ID=Msa0969740-mRNA-1;Parent=Msa0969740;Name=Msa0969740-mRNA-1;_AED=0.47;_eAED=0.47;_QI=0|0|0|0.5|1|1|2|0|106 |
| chr6_4 | exon | 1166140 | 1166145 | 1166140 | ID=Msa0969740-mRNA-1:exon:601;Parent=Msa0969740-mRNA-1 |
| chr6_4 | exon | 1166542 | 1166856 | 1166542 | ID=Msa0969740-mRNA-1:exon:602;Parent=Msa0969740-mRNA-1 |
| chr6_4 | CDS | 1166140 | 1166145 | 1166140 | ID=Msa0969740-mRNA-1:cds;Parent=Msa0969740-mRNA-1 |
| chr6_4 | CDS | 1166542 | 1166856 | 1166542 | ID=Msa0969740-mRNA-1:cds;Parent=Msa0969740-mRNA-1 |
| Gene Sequence |
| Protein sequence |
