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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0447040 | PNX54969.1 | 81.250 | 64 | 12 | 0 | 2 | 65 | 5 | 68 | 8.94e-27 | 102 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0447040 | A0A2K3JLR2 | 81.250 | 64 | 12 | 0 | 2 | 65 | 5 | 68 | 4.27e-27 | 102 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0036610 | Msa0447040 | 0.801900 | 7.238512e-49 | -8.615850e-47 |
| Msa0447040 | Msa0494560 | 0.908666 | 1.331940e-81 | -8.615850e-47 |
| Msa0447040 | Msa0509020 | -0.823440 | 1.383394e-53 | -8.615850e-47 |
| Msa0447040 | Msa0691080 | -0.800055 | 1.724570e-48 | -8.615850e-47 |
| Msa0447040 | Msa0886660 | -0.805851 | 1.093541e-49 | -8.615850e-47 |
| Msa0447040 | Msa0968320 | 0.813259 | 2.801950e-51 | -8.615850e-47 |
| Msa0447040 | Msa1249370 | 0.809671 | 1.686293e-50 | -8.615850e-47 |
| Msa0447040 | Msa1371080 | 0.806589 | 7.643989e-50 | -8.615850e-47 |
| Msa0353240 | Msa0447040 | 0.844721 | 6.343414e-59 | -8.615850e-47 |
| Msa0353250 | Msa0447040 | 0.832252 | 1.051294e-55 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0447040 | MtrunA17_Chr3g0088011 | 81.250 | 64 | 12 | 0 | 2 | 65 | 3 | 66 | 9.71e-31 | 102 |
| Msa0447040 | MtrunA17_Chr3g0088251 | 81.250 | 64 | 12 | 0 | 2 | 65 | 3 | 66 | 1.59e-30 | 101 |
| Msa0447040 | MtrunA17_Chr3g0088031 | 81.967 | 61 | 11 | 0 | 5 | 65 | 1 | 61 | 3.51e-30 | 100 |
| Msa0447040 | MtrunA17_Chr3g0087981 | 76.562 | 64 | 15 | 0 | 2 | 65 | 5 | 68 | 5.56e-30 | 100 |
| Msa0447040 | MtrunA17_Chr3g0088021 | 79.688 | 64 | 13 | 0 | 2 | 65 | 3 | 66 | 1.38e-29 | 99.4 |
| Msa0447040 | MtrunA17_Chr3g0087921 | 82.812 | 64 | 9 | 2 | 2 | 65 | 6 | 67 | 4.38e-27 | 92.8 |
| Msa0447040 | MtrunA17_Chr3g0087931 | 80.952 | 63 | 10 | 2 | 3 | 65 | 7 | 67 | 5.70e-27 | 92.8 |
| Msa0447040 | MtrunA17_Chr3g0088071 | 81.250 | 64 | 12 | 0 | 2 | 65 | 3 | 66 | 5.91e-24 | 85.1 |
| Msa0447040 | MtrunA17_Chr3g0088081 | 93.846 | 65 | 4 | 0 | 1 | 65 | 1 | 65 | 7.17e-24 | 84.7 |
| Msa0447040 | MtrunA17_Chr3g0088271 | 83.077 | 65 | 11 | 0 | 1 | 65 | 1 | 65 | 6.37e-23 | 82.4 |
| Msa0447040 | MtrunA17_Chr3g0087911 | 91.111 | 45 | 4 | 0 | 21 | 65 | 23 | 67 | 8.01e-22 | 79.7 |
| Msa0447040 | MtrunA17_Chr3g0088041 | 88.636 | 44 | 5 | 0 | 22 | 65 | 23 | 66 | 6.48e-21 | 77.4 |
| Msa0447040 | MtrunA17_Chr3g0087941 | 84.091 | 44 | 7 | 0 | 22 | 65 | 25 | 68 | 1.55e-19 | 73.9 |
| Msa0447040 | MtrunA17_Chr3g0088001 | 85.714 | 42 | 6 | 0 | 24 | 65 | 26 | 67 | 2.06e-19 | 73.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 18 sgRNAs with CRISPR-Local
Find 17 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACAAATTCAGTTGCTATGAT+TGG | 0.314744 | 3_3:+24332808 | Msa0447040:CDS |
| CCCTCGTTGGCTCCGGCACC+AGG | 0.346432 | 3_3:+24332757 | Msa0447040:CDS |
| GGTCCCGATGCTGGTGCTGC+TGG | 0.375754 | 3_3:+24332778 | Msa0447040:CDS |
| CTTCGCAGCAGCCGTGGCTT+CGG | 0.433639 | 3_3:+24332720 | Msa0447040:CDS |
| CCGGCACCAGGTCCCGATGC+TGG | 0.434291 | 3_3:+24332769 | Msa0447040:CDS |
| AGTTGCTATGATTGGAGCTT+CGG | 0.447713 | 3_3:+24332816 | Msa0447040:CDS |
| GATCCAGCAGCACCAGCATC+GGG | 0.449538 | 3_3:-24332781 | None:intergenic |
| TCTTAATTAGTTCTTGAAGA+TGG | 0.464203 | 3_3:-24332857 | None:intergenic |
| CCAGCATCGGGACCTGGTGC+CGG | 0.481084 | 3_3:-24332769 | None:intergenic |
| GCAGCACCAGCATCGGGACC+TGG | 0.523593 | 3_3:-24332775 | None:intergenic |
| CCTCAGTCCCTCGTTGGCTC+CGG | 0.529105 | 3_3:+24332750 | Msa0447040:CDS |
| TCAAGACCTCAGTCCCTCGT+TGG | 0.572881 | 3_3:+24332744 | Msa0447040:CDS |
| CGTTGTCTTCGCAGCAGCCG+TGG | 0.595727 | 3_3:+24332714 | Msa0447040:CDS |
| AGATCCAGCAGCACCAGCAT+CGG | 0.601129 | 3_3:-24332782 | None:intergenic |
| GAGGTCTTGAGCCGAAGCCA+CGG | 0.614751 | 3_3:-24332731 | None:intergenic |
| CCGGAGCCAACGAGGGACTG+AGG | 0.619509 | 3_3:-24332750 | None:intergenic |
| CCTGGTGCCGGAGCCAACGA+GGG | 0.645258 | 3_3:-24332757 | None:intergenic |
| ACCTGGTGCCGGAGCCAACG+AGG | 0.656634 | 3_3:-24332758 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ACAAATTCAGTTGCTATGAT+TGG | + | chr3_3:24332808-24332827 | Msa0447040:CDS | 30.0% | |
| AGTTGCTATGATTGGAGCTT+CGG | + | chr3_3:24332816-24332835 | Msa0447040:CDS | 40.0% | |
| TCAAGACCTCAGTCCCTCGT+TGG | + | chr3_3:24332744-24332763 | Msa0447040:CDS | 55.0% | |
| AGATCCAGCAGCACCAGCAT+CGG | - | chr3_3:24332785-24332804 | None:intergenic | 55.0% | |
| GAGGTCTTGAGCCGAAGCCA+CGG | - | chr3_3:24332734-24332753 | None:intergenic | 60.0% | |
| GATCCAGCAGCACCAGCATC+GGG | - | chr3_3:24332784-24332803 | None:intergenic | 60.0% | |
| CGTTGTCTTCGCAGCAGCCG+TGG | + | chr3_3:24332714-24332733 | Msa0447040:CDS | 65.0% | |
| CTTCGCAGCAGCCGTGGCTT+CGG | + | chr3_3:24332720-24332739 | Msa0447040:CDS | 65.0% | |
| !! | CCTCAGTCCCTCGTTGGCTC+CGG | + | chr3_3:24332750-24332769 | Msa0447040:CDS | 65.0% |
| CCGGAGCCAACGAGGGACTG+AGG | - | chr3_3:24332753-24332772 | None:intergenic | 70.0% | |
| ! | CCTGGTGCCGGAGCCAACGA+GGG | - | chr3_3:24332760-24332779 | None:intergenic | 70.0% |
| ! | ACCTGGTGCCGGAGCCAACG+AGG | - | chr3_3:24332761-24332780 | None:intergenic | 70.0% |
| ! | CCAGCATCGGGACCTGGTGC+CGG | - | chr3_3:24332772-24332791 | None:intergenic | 70.0% |
| ! | GCAGCACCAGCATCGGGACC+TGG | - | chr3_3:24332778-24332797 | None:intergenic | 70.0% |
| !! | GGTCCCGATGCTGGTGCTGC+TGG | + | chr3_3:24332778-24332797 | Msa0447040:CDS | 70.0% |
| !! | CCCTCGTTGGCTCCGGCACC+AGG | + | chr3_3:24332757-24332776 | Msa0447040:CDS | 75.0% |
| CCGGCACCAGGTCCCGATGC+TGG | + | chr3_3:24332769-24332788 | Msa0447040:CDS | 75.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_3 | gene | 24332676 | 24332873 | 24332676 | ID=Msa0447040;Name=Msa0447040 |
| chr3_3 | mRNA | 24332676 | 24332873 | 24332676 | ID=Msa0447040-mRNA-1;Parent=Msa0447040;Name=Msa0447040-mRNA-1;_AED=0.27;_eAED=0.27;_QI=0|-1|0|1|-1|1|1|0|65 |
| chr3_3 | exon | 24332676 | 24332873 | 24332676 | ID=Msa0447040-mRNA-1:exon:4840;Parent=Msa0447040-mRNA-1 |
| chr3_3 | CDS | 24332676 | 24332873 | 24332676 | ID=Msa0447040-mRNA-1:cds;Parent=Msa0447040-mRNA-1 |
| Gene Sequence |
| Protein sequence |
