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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0499640 | XP_039687709.1 | 92.308 | 39 | 3 | 0 | 1 | 39 | 1283 | 1321 | 2.10e-14 | 77.0 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0499640 | G7J5R6 | 92.308 | 39 | 3 | 0 | 1 | 39 | 1289 | 1327 | 1.01e-14 | 77.0 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0499640 | TR | TAZ |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0499640 | MtrunA17_Chr3g0133461 | 92.308 | 39 | 3 | 0 | 1 | 39 | 1237 | 1275 | 2.05e-18 | 77.0 |
| Msa0499640 | MtrunA17_Chr3g0138411 | 47.126 | 87 | 9 | 1 | 1 | 50 | 1100 | 1186 | 1.67e-16 | 71.6 |
| Msa0499640 | MtrunA17_Chr5g0438991 | 82.051 | 39 | 7 | 0 | 1 | 39 | 868 | 906 | 2.45e-16 | 70.9 |
| Msa0499640 | MtrunA17_Chr6g0456861 | 75.610 | 41 | 8 | 1 | 1 | 39 | 671 | 711 | 1.26e-13 | 63.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 4 sgRNAs with CRISPR-Local
Find 23 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTCTTGATTTGAGAACAGTT+TGG | 0.474837 | 3_4:-38926913 | None:intergenic |
| TTGAGAACAGTTTGGATGAG+AGG | 0.492281 | 3_4:-38926905 | None:intergenic |
| GAAAGTGACAAAGCAGTCGT+TGG | 0.555810 | 3_4:+38927264 | Msa0499640:CDS |
| AGCTGTTCTCTCATGCCAGT+AGG | 0.676221 | 3_4:+38926935 | Msa0499640:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTTAACCATAAAAAATGACT+TGG | - | chr3_4:38927156-38927175 | None:intergenic | 20.0% |
| !!! | TATATTTATGTTGATTTTGC+AGG | + | chr3_4:38927200-38927219 | Msa0499640:intron | 20.0% |
| !!! | ATATTTATGTTGATTTTGCA+GGG | + | chr3_4:38927201-38927220 | Msa0499640:intron | 20.0% |
| !!! | TTACTTTCTGACTTGTTTTT+TGG | + | chr3_4:38927125-38927144 | Msa0499640:intron | 25.0% |
| !!! | TACTTTCTGACTTGTTTTTT+GGG | + | chr3_4:38927126-38927145 | Msa0499640:intron | 25.0% |
| ! | TTCTTGATTTGAGAACAGTT+TGG | - | chr3_4:38926916-38926935 | None:intergenic | 30.0% |
| CAAAATCTCTCAAATTCTCT+AGG | - | chr3_4:38927098-38927117 | None:intergenic | 30.0% | |
| ! | CTAGAGAATTTGAGAGATTT+TGG | + | chr3_4:38927096-38927115 | Msa0499640:intron | 30.0% |
| !!! | GACAACCAAGTCATTTTTTA+TGG | + | chr3_4:38927148-38927167 | Msa0499640:intron | 30.0% |
| ! | ACCATATCTTTTTACACTGC+TGG | - | chr3_4:38926987-38927006 | None:intergenic | 35.0% |
| TTGAGAACAGTTTGGATGAG+AGG | - | chr3_4:38926908-38926927 | None:intergenic | 40.0% | |
| GGTGCGAAATTCTAGTGAAT+CGG | + | chr3_4:38926956-38926975 | Msa0499640:intron | 40.0% | |
| GTGCGAAATTCTAGTGAATC+GGG | + | chr3_4:38926957-38926976 | Msa0499640:intron | 40.0% | |
| TGCGAAATTCTAGTGAATCG+GGG | + | chr3_4:38926958-38926977 | Msa0499640:intron | 40.0% | |
| GCCAGCAGTGTAAAAAGATA+TGG | + | chr3_4:38926983-38927002 | Msa0499640:intron | 40.0% | |
| ! | TTATACTTGCTGCTCACTCT+AGG | + | chr3_4:38927007-38927026 | Msa0499640:intron | 40.0% |
| ! | CTCTAGGAATTGCAAAGACT+AGG | + | chr3_4:38927023-38927042 | Msa0499640:intron | 40.0% |
| CACTAGAATTTCGCACCTAC+TGG | - | chr3_4:38926953-38926972 | None:intergenic | 45.0% | |
| ! | ACTAGGAGTGTAGCATTCCA+CGG | + | chr3_4:38927040-38927059 | Msa0499640:intron | 45.0% |
| GAAAGTGACAAAGCAGTCGT+TGG | + | chr3_4:38927264-38927283 | Msa0499640:CDS | 45.0% | |
| AGCTGTTCTCTCATGCCAGT+AGG | + | chr3_4:38926935-38926954 | Msa0499640:CDS | 50.0% | |
| AGTGTAGCATTCCACGGTGC+AGG | + | chr3_4:38927046-38927065 | Msa0499640:intron | 55.0% | |
| ATAACAGCACACCTGCACCG+TGG | - | chr3_4:38927060-38927079 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_4 | gene | 38926841 | 38927303 | 38926841 | ID=Msa0499640;Name=Msa0499640 |
| chr3_4 | mRNA | 38926841 | 38927303 | 38926841 | ID=Msa0499640-mRNA-1;Parent=Msa0499640;Name=Msa0499640-mRNA-1;_AED=0.44;_eAED=0.45;_QI=0|0|0|1|1|1|2|0|65 |
| chr3_4 | exon | 38926841 | 38926956 | 38926841 | ID=Msa0499640-mRNA-1:exon:7964;Parent=Msa0499640-mRNA-1 |
| chr3_4 | exon | 38927222 | 38927303 | 38927222 | ID=Msa0499640-mRNA-1:exon:7965;Parent=Msa0499640-mRNA-1 |
| chr3_4 | CDS | 38926841 | 38926956 | 38926841 | ID=Msa0499640-mRNA-1:cds;Parent=Msa0499640-mRNA-1 |
| chr3_4 | CDS | 38927222 | 38927303 | 38927222 | ID=Msa0499640-mRNA-1:cds;Parent=Msa0499640-mRNA-1 |
| Gene Sequence |
| Protein sequence |
