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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0808080 | XP_003614537.1 | 70.000 | 120 | 6 | 1 | 1 | 90 | 1 | 120 | 4.04e-45 | 151 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0001450 | Msa0808080 | 0.814951 | 1.186119e-51 | -8.615850e-47 |
| Msa0002230 | Msa0808080 | 0.813433 | 2.566578e-51 | -8.615850e-47 |
| Msa0002240 | Msa0808080 | 0.815178 | 1.055896e-51 | -8.615850e-47 |
| Msa0003890 | Msa0808080 | 0.842757 | 2.128284e-58 | -8.615850e-47 |
| Msa0006070 | Msa0808080 | 0.817038 | 4.056294e-52 | -8.615850e-47 |
| Msa0006110 | Msa0808080 | 0.823998 | 1.024256e-53 | -8.615850e-47 |
| Msa0006380 | Msa0808080 | 0.822186 | 2.710134e-53 | -8.615850e-47 |
| Msa0011170 | Msa0808080 | 0.836847 | 7.360012e-57 | -8.615850e-47 |
| Msa0011660 | Msa0808080 | -0.832537 | 8.934369e-56 | -8.615850e-47 |
| Msa0011960 | Msa0808080 | 0.816225 | 6.171334e-52 | -8.615850e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0808080 | MtrunA17_Chr5g0422991 | 70.000 | 120 | 6 | 1 | 1 | 90 | 1 | 120 | 3.71e-49 | 151 |
| Msa0808080 | MtrunA17_Chr1g0210031 | 64.865 | 74 | 22 | 2 | 18 | 88 | 48 | 120 | 1.02e-24 | 89.7 |
Find 26 sgRNAs with CRISPR-Local
Find 283 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATAAATAAATAAAGCAA+TGG | 0.583234 | 5_3:-31814399 | Msa0808080:three_prime_UTR |
| AAATAATTTCCTTGATAATA+AGG | 0.225833 | 5_3:+31814283 | None:intergenic |
| AAGGATCTGTATGTTTAGAA+AGG | 0.501363 | 5_3:-31814499 | Msa0808080:three_prime_UTR |
| AGGCAGAGGATTCCTGTTGA+TGG | 0.425176 | 5_3:+31814579 | None:intergenic |
| AGTGTGAGAAGTGCCAAAAG+AGG | 0.617748 | 5_3:-31818654 | Msa0808080:CDS |
| ATATTACCAACTGTGGCTAA+AGG | 0.527091 | 5_3:-31814622 | Msa0808080:CDS |
| CCAAAATCACCTTATTATCA+AGG | 0.376723 | 5_3:-31814292 | Msa0808080:three_prime_UTR |
| CCTAAGGCTATGCTACATGC+CGG | 0.624972 | 5_3:+31814252 | None:intergenic |
| CCTTGATAATAAGGTGATTT+TGG | 0.110746 | 5_3:+31814292 | None:intergenic |
| CGTTTGGTAATTGCAACTTT+AGG | 0.425973 | 5_3:+31814559 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| CAACGAATTCAGCAAAATTA+TGG | - | chr5_3:31814425-31814444 | Msa0808080:three_prime_UTR | 30.0% | |
| GGTTATGTTGCTATAAAAAC+AGG | - | chr5_3:31814570-31814589 | Msa0808080:CDS | 30.0% | |
| CAAAACAAACTCACCTAAAT+TGG | - | chr5_3:31814847-31814866 | Msa0808080:intron | 30.0% | |
| AACATCAAATCTCTATTGGA+TGG | - | chr5_3:31815242-31815261 | Msa0808080:intron | 30.0% | |
| GGATATGCATTATTATATGC+AGG | + | chr5_3:31815644-31815663 | None:intergenic | 30.0% | |
| ACTATATTTAATACTCCCTC+CGG | - | chr5_3:31815690-31815709 | Msa0808080:intron | 30.0% | |
| CATTGAGTAGTTAATGTATC+TGG | - | chr5_3:31815747-31815766 | Msa0808080:intron | 30.0% | |
| CATATGTTTAGTATGACTGT+GGG | + | chr5_3:31815896-31815915 | None:intergenic | 30.0% | |
| ACATATGTTTAGTATGACTG+TGG | + | chr5_3:31815897-31815916 | None:intergenic | 30.0% | |
| TACATTAGTAAGTCAACCTT+TGG | - | chr5_3:31816120-31816139 | Msa0808080:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_3 | gene | 31814261 | 31819038 | 31814261 | ID=Msa0808080;Name=Msa0808080 |
| chr5_3 | mRNA | 31814261 | 31819038 | 31814261 | ID=Msa0808080-mRNA-1;Parent=Msa0808080;Name=Msa0808080-mRNA-1;_AED=0.19;_eAED=0.19;_QI=0|0.5|0.33|1|0|0|3|273|91 |
| chr5_3 | exon | 31814261 | 31814700 | 31814261 | ID=Msa0808080-mRNA-1:exon:10541;Parent=Msa0808080-mRNA-1 |
| chr5_3 | exon | 31818626 | 31818682 | 31818626 | ID=Msa0808080-mRNA-1:exon:10540;Parent=Msa0808080-mRNA-1 |
| chr5_3 | exon | 31818987 | 31819038 | 31818987 | ID=Msa0808080-mRNA-1:exon:10539;Parent=Msa0808080-mRNA-1 |
| chr5_3 | CDS | 31818987 | 31819038 | 31818987 | ID=Msa0808080-mRNA-1:cds;Parent=Msa0808080-mRNA-1 |
| chr5_3 | CDS | 31818626 | 31818682 | 31818626 | ID=Msa0808080-mRNA-1:cds;Parent=Msa0808080-mRNA-1 |
| chr5_3 | CDS | 31814534 | 31814700 | 31814534 | ID=Msa0808080-mRNA-1:cds;Parent=Msa0808080-mRNA-1 |
| chr5_3 | three_prime_UTR | 31814261 | 31814533 | 31814261 | ID=Msa0808080-mRNA-1:three_prime_utr;Parent=Msa0808080-mRNA-1 |
| Gene Sequence |
>Msa0808080 ATGGCTTTTAAAGATAGTGCTAAAAGCGAGCTTCACGAAATTGCTATAAAAAATATGCAGTGTGAGAAGTGCCAAAAGAGGGTTATTGACATTATTACAAAAATGAATGTAGAGACAGAGTCCATGGAAGTGAATGTGTTGGAAAAGAAAGTGACACTTACATTCATATTACCAACTGTGGCTAAAGGAATCACTAGGCAAATTATTCCCATCAACAGGAATCCTCTGCCTAAAGTTGCAATTACCAAACGTTTATTTCAATCTTTCCTTGATTAG |
| Protein sequence |
>Msa0808080 MAFKDSAKSELHEIAIKNMQCEKCQKRVIDIITKMNVETESMEVNVLEKKVTLTFILPTVAKGITRQIIPINRNPLPKVAITKRLFQSFLD* |
