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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0439170 | XP_003602368.1 | 96.825 | 63 | 2 | 0 | 1 | 63 | 1 | 63 | 2.57e-37 | 130 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0439170 | sp|P52855|RLA1_MAIZE | 67.188 | 64 | 21 | 0 | 1 | 64 | 1 | 64 | 1.51e-26 | 95.5 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0439170 | G7J8Y6 | 96.825 | 63 | 2 | 0 | 1 | 63 | 1 | 63 | 1.23e-37 | 130 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0439160 | Msa0439170 | 0.853577 | 2.179364e-61 | -8.615850e-47 |
| Msa0439170 | Msa1012290 | 0.874083 | 8.910051e-68 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0439170 | MtrunA17_Chr3g0127831 | 96.825 | 63 | 2 | 0 | 1 | 63 | 1 | 63 | 2.36e-41 | 130 |
| Msa0439170 | MtrunA17_Chr2g0311301 | 96.825 | 63 | 2 | 0 | 1 | 63 | 1 | 63 | 2.64e-41 | 130 |
| Msa0439170 | MtrunA17_Chr4g0013621 | 93.443 | 61 | 4 | 0 | 1 | 61 | 1 | 61 | 3.88e-37 | 119 |
| Msa0439170 | MtrunA17_Chr8g0345951 | 70.968 | 62 | 18 | 0 | 1 | 62 | 1 | 62 | 1.02e-27 | 95.9 |
| Msa0439170 | MtrunA17_Chr7g0276131 | 66.102 | 59 | 20 | 0 | 1 | 59 | 1 | 59 | 1.01e-21 | 80.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0439170 | AT5G24510.1 | 73.016 | 63 | 17 | 0 | 1 | 63 | 1 | 63 | 1.51e-28 | 98.2 |
| Msa0439170 | AT5G47700.1 | 65.517 | 58 | 20 | 0 | 4 | 61 | 5 | 62 | 3.91e-24 | 87.0 |
| Msa0439170 | AT5G47700.2 | 65.517 | 58 | 20 | 0 | 4 | 61 | 5 | 62 | 3.91e-24 | 87.0 |
| Msa0439170 | AT1G01100.3 | 63.793 | 58 | 21 | 0 | 4 | 61 | 5 | 62 | 7.68e-24 | 85.9 |
| Msa0439170 | AT1G01100.4 | 63.793 | 58 | 21 | 0 | 4 | 61 | 5 | 62 | 1.23e-23 | 85.9 |
| Msa0439170 | AT1G01100.1 | 63.793 | 58 | 21 | 0 | 4 | 61 | 5 | 62 | 1.23e-23 | 85.9 |
| Msa0439170 | AT1G01100.2 | 63.793 | 58 | 21 | 0 | 4 | 61 | 5 | 62 | 1.23e-23 | 85.9 |
| Msa0439170 | AT4G00810.1 | 62.069 | 58 | 22 | 0 | 4 | 61 | 5 | 62 | 7.00e-23 | 84.0 |
| Msa0439170 | AT4G00810.2 | 62.069 | 58 | 22 | 0 | 4 | 61 | 5 | 62 | 7.00e-23 | 84.0 |
Find 18 sgRNAs with CRISPR-Local
Find 20 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GATAATAGACTTACGGTGAT+TGG | 0.316212 | 3_3:+4675728 | None:intergenic |
| TTTGAGCAAGCTTAGCGAAT+AGG | 0.381330 | 3_3:+4675594 | None:intergenic |
| AAAATGAGTTCCGGCGAGTT+GGG | 0.395726 | 3_3:-4675791 | Msa0439170:CDS |
| CAAAATGAGTTCCGGCGAGT+TGG | 0.444981 | 3_3:-4675792 | None:intergenic |
| ATAATAGACTTACGGTGATT+GGG | 0.445449 | 3_3:+4675729 | None:intergenic |
| GAAGATCGGCACTTTGTTGA+AGG | 0.446681 | 3_3:-4675651 | Msa0439170:CDS |
| AAGTAAAACTCAACAATTGC+CGG | 0.451280 | 3_3:+4675541 | None:intergenic |
| GCAAGCTTAGCGAATAGGCT+TGG | 0.513800 | 3_3:+4675599 | None:intergenic |
| ACAATTCACAAAATGAGTTC+CGG | 0.522809 | 3_3:-4675800 | None:intergenic |
| ACGTCACCGTTGAATCCTAC+TGG | 0.524586 | 3_3:-4675622 | Msa0439170:CDS |
| TCCATCGTCGTGGAGGATCA+AGG | 0.532980 | 3_3:+4675754 | None:intergenic |
| ACCTTGATCCTCCACGACGA+TGG | 0.571946 | 3_3:-4675755 | Msa0439170:CDS |
| ATAAATGCAACCCAACTCGC+CGG | 0.591882 | 3_3:+4675781 | None:intergenic |
| AGCGAATAGGCTTGGCCAGT+AGG | 0.600509 | 3_3:+4675607 | None:intergenic |
| GCTTGGCCAGTAGGATTCAA+CGG | 0.611797 | 3_3:+4675616 | None:intergenic |
| TTGGGATTCCATCGTCGTGG+AGG | 0.650788 | 3_3:+4675747 | None:intergenic |
| TGATTGGGATTCCATCGTCG+TGG | 0.662981 | 3_3:+4675744 | None:intergenic |
| ATCGTCGTGGAGGATCAAGG+TGG | 0.762210 | 3_3:+4675757 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | GAAAAAAGATAATAGACTTA+CGG | + | chr3_3:4675620-4675639 | None:intergenic | 20.0% |
| ! | CTAAAAAAAAGAGAGCAATT+TGG | + | chr3_3:4675662-4675681 | None:intergenic | 25.0% |
| !!! | CAAATTGCTCTCTTTTTTTT+AGG | - | chr3_3:4675660-4675679 | Msa0439170:intron | 25.0% |
| ATAATAGACTTACGGTGATT+GGG | + | chr3_3:4675612-4675631 | None:intergenic | 30.0% | |
| !!! | ATTGCTCTCTTTTTTTTAGG+CGG | - | chr3_3:4675663-4675682 | Msa0439170:intron | 30.0% |
| ! | GATGATCTCATTTTGAATTC+CGG | - | chr3_3:4675778-4675797 | Msa0439170:CDS | 30.0% |
| GATAATAGACTTACGGTGAT+TGG | + | chr3_3:4675613-4675632 | None:intergenic | 35.0% | |
| !!! | TTTTTTTAGGCGGAGAAGAT+CGG | - | chr3_3:4675673-4675692 | Msa0439170:intron | 35.0% |
| TTTGAGCAAGCTTAGCGAAT+AGG | + | chr3_3:4675747-4675766 | None:intergenic | 40.0% | |
| ATAAATGCAACCCAACTCGC+CGG | + | chr3_3:4675560-4675579 | None:intergenic | 45.0% | |
| GAAGATCGGCACTTTGTTGA+AGG | - | chr3_3:4675687-4675706 | Msa0439170:intron | 45.0% | |
| TGATTGGGATTCCATCGTCG+TGG | + | chr3_3:4675597-4675616 | None:intergenic | 50.0% | |
| ACGTCACCGTTGAATCCTAC+TGG | - | chr3_3:4675716-4675735 | Msa0439170:intron | 50.0% | |
| GCTTGGCCAGTAGGATTCAA+CGG | + | chr3_3:4675725-4675744 | None:intergenic | 50.0% | |
| GCAAGCTTAGCGAATAGGCT+TGG | + | chr3_3:4675742-4675761 | None:intergenic | 50.0% | |
| ATCGTCGTGGAGGATCAAGG+TGG | + | chr3_3:4675584-4675603 | None:intergenic | 55.0% | |
| ACCTTGATCCTCCACGACGA+TGG | - | chr3_3:4675583-4675602 | Msa0439170:CDS | 55.0% | |
| TCCATCGTCGTGGAGGATCA+AGG | + | chr3_3:4675587-4675606 | None:intergenic | 55.0% | |
| TTGGGATTCCATCGTCGTGG+AGG | + | chr3_3:4675594-4675613 | None:intergenic | 55.0% | |
| AGCGAATAGGCTTGGCCAGT+AGG | + | chr3_3:4675734-4675753 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_3 | gene | 4675550 | 4675810 | 4675550 | ID=Msa0439170;Name=Msa0439170 |
| chr3_3 | mRNA | 4675550 | 4675810 | 4675550 | ID=Msa0439170-mRNA-1;Parent=Msa0439170;Name=Msa0439170-mRNA-1;_AED=0.40;_eAED=0.40;_QI=0|0|0|1|1|1|2|0|65 |
| chr3_3 | exon | 4675742 | 4675810 | 4675742 | ID=Msa0439170-mRNA-1:exon:1033;Parent=Msa0439170-mRNA-1 |
| chr3_3 | exon | 4675550 | 4675678 | 4675550 | ID=Msa0439170-mRNA-1:exon:1032;Parent=Msa0439170-mRNA-1 |
| chr3_3 | CDS | 4675742 | 4675810 | 4675742 | ID=Msa0439170-mRNA-1:cds;Parent=Msa0439170-mRNA-1 |
| chr3_3 | CDS | 4675550 | 4675678 | 4675550 | ID=Msa0439170-mRNA-1:cds;Parent=Msa0439170-mRNA-1 |
| Gene Sequence |
| Protein sequence |
