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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0494560 | PNX54969.1 | 79.688 | 64 | 13 | 0 | 2 | 65 | 5 | 68 | 3.27e-26 | 100 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0494560 | A0A2K3JLR2 | 79.688 | 64 | 13 | 0 | 2 | 65 | 5 | 68 | 1.56e-26 | 100 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0036610 | Msa0494560 | 0.823073 | 1.685360e-53 | -8.615850e-47 |
| Msa0036690 | Msa0494560 | 0.815522 | 8.854528e-52 | -8.615850e-47 |
| Msa0130430 | Msa0494560 | 0.821761 | 3.400598e-53 | -8.615850e-47 |
| Msa0447040 | Msa0494560 | 0.908666 | 1.331940e-81 | -8.615850e-47 |
| Msa0329890 | Msa0494560 | 0.801839 | 7.450967e-49 | -8.615850e-47 |
| Msa0353240 | Msa0494560 | 0.818415 | 1.983654e-52 | -8.615850e-47 |
| Msa0353250 | Msa0494560 | 0.814536 | 1.465873e-51 | -8.615850e-47 |
| Msa0494560 | Msa0968320 | 0.811820 | 5.781285e-51 | -8.615850e-47 |
| Msa0494560 | Msa1443690 | 0.808027 | 3.789899e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0494560 | MtrunA17_Chr3g0088011 | 79.688 | 64 | 13 | 0 | 2 | 65 | 3 | 66 | 3.25e-30 | 100 |
| Msa0494560 | MtrunA17_Chr3g0088251 | 79.688 | 64 | 13 | 0 | 2 | 65 | 3 | 66 | 5.33e-30 | 100 |
| Msa0494560 | MtrunA17_Chr3g0088031 | 80.328 | 61 | 12 | 0 | 5 | 65 | 1 | 61 | 1.24e-29 | 99.4 |
| Msa0494560 | MtrunA17_Chr3g0087981 | 75.000 | 64 | 16 | 0 | 2 | 65 | 5 | 68 | 1.86e-29 | 99.0 |
| Msa0494560 | MtrunA17_Chr3g0088021 | 78.125 | 64 | 14 | 0 | 2 | 65 | 3 | 66 | 3.68e-29 | 98.2 |
| Msa0494560 | MtrunA17_Chr3g0087921 | 81.250 | 64 | 10 | 2 | 2 | 65 | 6 | 67 | 1.48e-26 | 91.7 |
| Msa0494560 | MtrunA17_Chr3g0087931 | 79.365 | 63 | 11 | 2 | 3 | 65 | 7 | 67 | 2.06e-26 | 91.3 |
| Msa0494560 | MtrunA17_Chr3g0088071 | 79.688 | 64 | 13 | 0 | 2 | 65 | 3 | 66 | 2.09e-23 | 83.6 |
| Msa0494560 | MtrunA17_Chr3g0088081 | 92.308 | 65 | 5 | 0 | 1 | 65 | 1 | 65 | 3.02e-23 | 83.2 |
| Msa0494560 | MtrunA17_Chr3g0088271 | 81.538 | 65 | 12 | 0 | 1 | 65 | 1 | 65 | 1.69e-22 | 81.3 |
| Msa0494560 | MtrunA17_Chr3g0087911 | 88.889 | 45 | 5 | 0 | 21 | 65 | 23 | 67 | 2.56e-21 | 78.2 |
| Msa0494560 | MtrunA17_Chr3g0088041 | 86.364 | 44 | 6 | 0 | 22 | 65 | 23 | 66 | 2.31e-20 | 75.9 |
| Msa0494560 | MtrunA17_Chr3g0087941 | 81.818 | 44 | 8 | 0 | 22 | 65 | 25 | 68 | 4.46e-19 | 72.8 |
| Msa0494560 | MtrunA17_Chr3g0088001 | 83.333 | 42 | 7 | 0 | 24 | 65 | 26 | 67 | 7.11e-19 | 72.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 19 sgRNAs with CRISPR-Local
Find 18 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACAAATTCAGTTGCTATGAT+TGG | 0.314744 | 3_4:+22795930 | Msa0494560:CDS |
| CCCTCGTTGGCTCCGGCACC+AGG | 0.346432 | 3_4:+22795879 | Msa0494560:CDS |
| GGTCCCGATGCTGGTGCTGC+TGG | 0.375754 | 3_4:+22795900 | Msa0494560:CDS |
| CTTCGCAGCAGCCGTGGCTT+CGG | 0.433639 | 3_4:+22795842 | Msa0494560:CDS |
| CCGGCACCAGGTCCCGATGC+TGG | 0.434291 | 3_4:+22795891 | Msa0494560:CDS |
| AGTTGCTATGATTGGAGCTT+CGG | 0.447713 | 3_4:+22795938 | Msa0494560:CDS |
| GATCCAGCAGCACCAGCATC+GGG | 0.449538 | 3_4:-22795903 | None:intergenic |
| TCTTAATTAGTTCTTGAAGA+TGG | 0.464203 | 3_4:-22795979 | None:intergenic |
| TGGCTTCGGCTCAAGACCTC+AGG | 0.477429 | 3_4:+22795856 | Msa0494560:CDS |
| CCAGCATCGGGACCTGGTGC+CGG | 0.481084 | 3_4:-22795891 | None:intergenic |
| GCAGCACCAGCATCGGGACC+TGG | 0.523593 | 3_4:-22795897 | None:intergenic |
| CCTCAGGCCCTCGTTGGCTC+CGG | 0.529105 | 3_4:+22795872 | Msa0494560:CDS |
| TCAAGACCTCAGGCCCTCGT+TGG | 0.537917 | 3_4:+22795866 | Msa0494560:CDS |
| ACCTGGTGCCGGAGCCAACG+AGG | 0.558829 | 3_4:-22795880 | None:intergenic |
| CCGGAGCCAACGAGGGCCTG+AGG | 0.588113 | 3_4:-22795872 | None:intergenic |
| CGTTGTCTTCGCAGCAGCCG+TGG | 0.595727 | 3_4:+22795836 | Msa0494560:CDS |
| AGATCCAGCAGCACCAGCAT+CGG | 0.601129 | 3_4:-22795904 | None:intergenic |
| GAGGTCTTGAGCCGAAGCCA+CGG | 0.602832 | 3_4:-22795853 | None:intergenic |
| CCTGGTGCCGGAGCCAACGA+GGG | 0.619649 | 3_4:-22795879 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ACAAATTCAGTTGCTATGAT+TGG | + | chr3_4:22795930-22795949 | Msa0494560:CDS | 30.0% | |
| AGTTGCTATGATTGGAGCTT+CGG | + | chr3_4:22795938-22795957 | Msa0494560:CDS | 40.0% | |
| AGATCCAGCAGCACCAGCAT+CGG | - | chr3_4:22795907-22795926 | None:intergenic | 55.0% | |
| GAGGTCTTGAGCCGAAGCCA+CGG | - | chr3_4:22795856-22795875 | None:intergenic | 60.0% | |
| TGGCTTCGGCTCAAGACCTC+AGG | + | chr3_4:22795856-22795875 | Msa0494560:CDS | 60.0% | |
| TCAAGACCTCAGGCCCTCGT+TGG | + | chr3_4:22795866-22795885 | Msa0494560:CDS | 60.0% | |
| GATCCAGCAGCACCAGCATC+GGG | - | chr3_4:22795906-22795925 | None:intergenic | 60.0% | |
| CGTTGTCTTCGCAGCAGCCG+TGG | + | chr3_4:22795836-22795855 | Msa0494560:CDS | 65.0% | |
| CTTCGCAGCAGCCGTGGCTT+CGG | + | chr3_4:22795842-22795861 | Msa0494560:CDS | 65.0% | |
| !! | CCTCAGGCCCTCGTTGGCTC+CGG | + | chr3_4:22795872-22795891 | Msa0494560:CDS | 70.0% |
| ! | CCTGGTGCCGGAGCCAACGA+GGG | - | chr3_4:22795882-22795901 | None:intergenic | 70.0% |
| ! | ACCTGGTGCCGGAGCCAACG+AGG | - | chr3_4:22795883-22795902 | None:intergenic | 70.0% |
| ! | CCAGCATCGGGACCTGGTGC+CGG | - | chr3_4:22795894-22795913 | None:intergenic | 70.0% |
| ! | GCAGCACCAGCATCGGGACC+TGG | - | chr3_4:22795900-22795919 | None:intergenic | 70.0% |
| !! | GGTCCCGATGCTGGTGCTGC+TGG | + | chr3_4:22795900-22795919 | Msa0494560:CDS | 70.0% |
| CCGGAGCCAACGAGGGCCTG+AGG | - | chr3_4:22795875-22795894 | None:intergenic | 75.0% | |
| !! | CCCTCGTTGGCTCCGGCACC+AGG | + | chr3_4:22795879-22795898 | Msa0494560:CDS | 75.0% |
| CCGGCACCAGGTCCCGATGC+TGG | + | chr3_4:22795891-22795910 | Msa0494560:CDS | 75.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_4 | gene | 22795798 | 22795995 | 22795798 | ID=Msa0494560;Name=Msa0494560 |
| chr3_4 | mRNA | 22795798 | 22795995 | 22795798 | ID=Msa0494560-mRNA-1;Parent=Msa0494560;Name=Msa0494560-mRNA-1;_AED=0.26;_eAED=0.26;_QI=0|-1|0|1|-1|1|1|0|65 |
| chr3_4 | exon | 22795798 | 22795995 | 22795798 | ID=Msa0494560-mRNA-1:exon:5658;Parent=Msa0494560-mRNA-1 |
| chr3_4 | CDS | 22795798 | 22795995 | 22795798 | ID=Msa0494560-mRNA-1:cds;Parent=Msa0494560-mRNA-1 |
| Gene Sequence |
| Protein sequence |
