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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1380940 | XP_013460423.1 | 69.333 | 75 | 23 | 0 | 65 | 139 | 371 | 445 | 5.87e-26 | 112 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1380940 | A0A072UYF4 | 69.333 | 75 | 23 | 0 | 65 | 139 | 371 | 445 | 2.80e-26 | 112 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1283860 | Msa1380940 | 0.806674 | 7.336099e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1380940 | MtrunA17_Chr3g0107251 | 69.333 | 75 | 23 | 0 | 65 | 139 | 371 | 445 | 5.40e-30 | 112 |
| Msa1380940 | MtrunA17_Chr3g0091831 | 68.000 | 75 | 24 | 0 | 65 | 139 | 378 | 452 | 5.67e-29 | 109 |
| Msa1380940 | MtrunA17_Chr7g0229941 | 90.244 | 41 | 4 | 0 | 1 | 41 | 504 | 544 | 9.09e-18 | 78.6 |
| Msa1380940 | MtrunA17_Chr6g0476611 | 50.794 | 63 | 30 | 1 | 1 | 63 | 516 | 577 | 7.70e-11 | 58.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 22 sgRNAs with CRISPR-Local
Find 38 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTTGGCAATGCCATGAATTA+TGG | 0.210252 | tig0020410:-3606 | Msa1380940:intergenic |
| GCGGAGTAATATGAAGATTT+TGG | 0.229854 | tig0020410:-3942 | Msa1380940:intergenic |
| GAGGAAAATTTGAATAAGAT+TGG | 0.396300 | tig0020410:+3740 | Msa1380940:CDS |
| ACTAGAATGTCCATAATTCA+TGG | 0.396680 | tig0020410:+3596 | None:intergenic |
| TCTTATCTGCATGGAAAGAA+AGG | 0.411899 | tig0020410:+3635 | Msa1380940:CDS |
| AGATTGCGTAAACATTCCTT+TGG | 0.430686 | tig0020410:+3716 | Msa1380940:CDS |
| TCTAGTTCATCAGAGTATAT+CGG | 0.447086 | tig0020410:+3670 | Msa1380940:CDS |
| TGCAGTGGAAAATGTGTTCA+AGG | 0.447182 | tig0020410:-3909 | Msa1380940:intergenic |
| TGGAACCAGAGTTATTGTTA+TGG | 0.455267 | tig0020410:+3760 | Msa1380940:CDS |
| ATGCAGATAAGAAATACCTT+TGG | 0.472321 | tig0020410:-3624 | Msa1380940:intergenic |
| TCAGAGTATATCGGCTGAAA+AGG | 0.479227 | tig0020410:+3679 | Msa1380940:CDS |
| GAAAAGGAGCAATCGAGATC+TGG | 0.484756 | tig0020410:+3811 | Msa1380940:CDS |
| AAAGGTATTTCTTATCTGCA+TGG | 0.523536 | tig0020410:+3626 | Msa1380940:CDS |
| TAATAGCAGACGATTTGAAA+AGG | 0.535415 | tig0020410:+3795 | Msa1380940:CDS |
| AATGCCACGGTCTACTCCCC+CGG | 0.543854 | tig0020410:-3855 | Msa1380940:intergenic |
| ATTCACCATAACAATAACTC+TGG | 0.560890 | tig0020410:-3765 | Msa1380940:intergenic |
| ATCTGCATGGAAAGAAAGGA+AGG | 0.564105 | tig0020410:+3639 | Msa1380940:CDS |
| TTTGGTGGCATAATTTGCAG+TGG | 0.573366 | tig0020410:-3924 | Msa1380940:intergenic |
| GCGTAAACATTCCTTTGGCG+AGG | 0.609744 | tig0020410:+3721 | Msa1380940:CDS |
| ATAATTCATGGCATTGCCAA+AGG | 0.611086 | tig0020410:+3608 | Msa1380940:CDS |
| AAGGAGCAATCGAGATCTGG+TGG | 0.632971 | tig0020410:+3814 | Msa1380940:CDS |
| GTTTGTGATCAATAATGCCA+CGG | 0.636773 | tig0020410:-3868 | Msa1380930:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | CTAAATTTTTGCTAAAAATA+TGG | - | tig0020410:3967-3986 | Msa1380940:intergenic | 15.0% |
| !!! | TTTTTAGCAAAAATTTAGAT+TGG | + | tig0020410:3969-3988 | Msa1380940:CDS | 15.0% |
| !!! | AATTTTTGCTAAAAATATGG+CGG | - | tig0020410:3964-3983 | Msa1380940:intergenic | 20.0% |
| ! | GAGGAAAATTTGAATAAGAT+TGG | + | tig0020410:3740-3759 | Msa1380940:CDS | 25.0% |
| ! | TTAGCAAAAATTTAGATTGG+TGG | + | tig0020410:3972-3991 | Msa1380940:CDS | 25.0% |
| ! | AACCATGCTTGAAAAAATTT+GGG | - | tig0020410:4007-4026 | Msa1380940:intergenic | 25.0% |
| ! | TAACCATGCTTGAAAAAATT+TGG | - | tig0020410:4008-4027 | Msa1380940:intergenic | 25.0% |
| ATGCAGATAAGAAATACCTT+TGG | - | tig0020410:3627-3646 | Msa1380940:intergenic | 30.0% | |
| !! | AAAGGTATTTCTTATCTGCA+TGG | + | tig0020410:3626-3645 | Msa1380940:CDS | 30.0% |
| ! | TCTAGTTCATCAGAGTATAT+CGG | + | tig0020410:3670-3689 | Msa1380940:CDS | 30.0% |
| ATTCACCATAACAATAACTC+TGG | - | tig0020410:3768-3787 | Msa1380940:intergenic | 30.0% | |
| TAATAGCAGACGATTTGAAA+AGG | + | tig0020410:3795-3814 | Msa1380940:CDS | 30.0% | |
| ! | GAGTAATATGAAGATTTTGG+TGG | - | tig0020410:3942-3961 | Msa1380940:intergenic | 30.0% |
| !!! | TTCCCAAATTTTTTCAAGCA+TGG | + | tig0020410:4002-4021 | Msa1380940:CDS | 30.0% |
| TTTGGCAATGCCATGAATTA+TGG | - | tig0020410:3609-3628 | Msa1095440:intergenic | 35.0% | |
| ATAATTCATGGCATTGCCAA+AGG | + | tig0020410:3608-3627 | Msa1380940:CDS | 35.0% | |
| TCTTATCTGCATGGAAAGAA+AGG | + | tig0020410:3635-3654 | Msa1380940:CDS | 35.0% | |
| AGATTGCGTAAACATTCCTT+TGG | + | tig0020410:3716-3735 | Msa1380940:CDS | 35.0% | |
| ! | ATTCAAATTTTCCTCGCCAA+AGG | - | tig0020410:3735-3754 | Msa1380940:intergenic | 35.0% |
| TGGAACCAGAGTTATTGTTA+TGG | + | tig0020410:3760-3779 | Msa1380940:CDS | 35.0% | |
| !!! | GCTTTTTTCCATTCAATTGC+CGG | + | tig0020410:3836-3855 | Msa1380940:CDS | 35.0% |
| !!! | CTTTTTTCCATTCAATTGCC+GGG | + | tig0020410:3837-3856 | Msa1380940:CDS | 35.0% |
| !!! | TTTTTTCCATTCAATTGCCG+GGG | + | tig0020410:3838-3857 | Msa1380940:CDS | 35.0% |
| GTTTGTGATCAATAATGCCA+CGG | - | tig0020410:3871-3890 | Msa1380940:intergenic | 35.0% | |
| TGTGTTCAAGGCAAAAAACA+TGG | - | tig0020410:3900-3919 | Msa1380940:intergenic | 35.0% | |
| ! | GCGGAGTAATATGAAGATTT+TGG | - | tig0020410:3945-3964 | Msa1380940:intergenic | 35.0% |
| ATCTGCATGGAAAGAAAGGA+AGG | + | tig0020410:3639-3658 | Msa1380940:CDS | 40.0% | |
| ! | TCAGAGTATATCGGCTGAAA+AGG | + | tig0020410:3679-3698 | Msa1380940:CDS | 40.0% |
| ! | TTTTTCCATTCAATTGCCGG+GGG | + | tig0020410:3839-3858 | Msa1380940:CDS | 40.0% |
| GTTCAAGGCAAAAAACATGG+TGG | - | tig0020410:3897-3916 | Msa1380940:intergenic | 40.0% | |
| TGCAGTGGAAAATGTGTTCA+AGG | - | tig0020410:3912-3931 | Msa1380940:intergenic | 40.0% | |
| ! | TTTGGTGGCATAATTTGCAG+TGG | - | tig0020410:3927-3946 | Msa1380940:intergenic | 40.0% |
| GAAAAGGAGCAATCGAGATC+TGG | + | tig0020410:3811-3830 | Msa1380940:CDS | 45.0% | |
| GCGTAAACATTCCTTTGGCG+AGG | + | tig0020410:3721-3740 | Msa1380940:CDS | 50.0% | |
| AAGGAGCAATCGAGATCTGG+TGG | + | tig0020410:3814-3833 | Msa1380940:CDS | 50.0% | |
| CTACTCCCCCGGCAATTGAA+TGG | - | tig0020410:3847-3866 | Msa1380940:intergenic | 55.0% | |
| AATGCCACGGTCTACTCCCC+CGG | - | tig0020410:3858-3877 | Msa1380940:intergenic | 60.0% | |
| ATTGCCGGGGGAGTAGACCG+TGG | + | tig0020410:3851-3870 | Msa1380940:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0020410 | gene | 3602 | 4030 | 3602 | ID=Msa1380940;Name=Msa1380940 |
| tig0020410 | mRNA | 3602 | 4030 | 3602 | ID=Msa1380940-mRNA-1;Parent=Msa1380940;Name=Msa1380940-mRNA-1;_AED=0.79;_eAED=0.79;_QI=0|-1|0|1|-1|1|1|0|142 |
| tig0020410 | exon | 3602 | 4030 | 3602 | ID=Msa1380940-mRNA-1:exon:7312;Parent=Msa1380940-mRNA-1 |
| tig0020410 | CDS | 3602 | 4030 | 3602 | ID=Msa1380940-mRNA-1:cds;Parent=Msa1380940-mRNA-1 |
| Gene Sequence |
| Protein sequence |
