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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1153880 | XP_024634870.1 | 88.525 | 61 | 7 | 0 | 45 | 105 | 58 | 118 | 1.73e-26 | 113 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1153880 | A0A2Z6PUD4 | 70.492 | 61 | 18 | 0 | 45 | 105 | 58 | 118 | 2.78e-20 | 94.7 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa1153880 | TF | FAR1 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1153880 | MtrunA17_Chr8g0356091 | 64.286 | 42 | 15 | 0 | 5 | 46 | 7 | 48 | 2.14e-11 | 57.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 10 sgRNAs with CRISPR-Local
Find 16 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCTTGCTTCACAATTTGTTA+TGG | 0.340020 | 7_4:-41004963 | None:intergenic |
| GAATGTGGATGGAAAATTAA+TGG | 0.354697 | 7_4:+41004997 | Msa1153880:CDS |
| GACTTATCAATATTAACATT+AGG | 0.428185 | 7_4:-41004861 | None:intergenic |
| TTTGTTATGGTCTCTAGTCT+TGG | 0.429006 | 7_4:-41004950 | None:intergenic |
| ACAAATTGTGAAGCAAGATT+AGG | 0.443040 | 7_4:+41004968 | Msa1153880:CDS |
| ATTGATAAGTCACCTGTTGT+CGG | 0.544748 | 7_4:+41004873 | Msa1153880:CDS |
| TTAGGACTTAAGAATGTGGA+TGG | 0.548535 | 7_4:+41004986 | Msa1153880:CDS |
| TTATCAATATTAACATTAGG+TGG | 0.562186 | 7_4:-41004858 | None:intergenic |
| TTTCTAGCAAATGTAACTCG+AGG | 0.606419 | 7_4:-41005045 | None:intergenic |
| AAGATTAGGACTTAAGAATG+TGG | 0.659295 | 7_4:+41004982 | Msa1153880:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTTGATAATGTATGTTCAA+AGG | + | chr7_4:41004805-41004824 | Msa1153880:CDS | 20.0% |
| !! | TTATCAATATTAACATTAGG+TGG | - | chr7_4:41004861-41004880 | None:intergenic | 20.0% |
| !! | GACTTATCAATATTAACATT+AGG | - | chr7_4:41004864-41004883 | None:intergenic | 20.0% |
| !! | TCTTGCTTCACAATTTGTTA+TGG | - | chr7_4:41004966-41004985 | None:intergenic | 30.0% |
| ACAAATTGTGAAGCAAGATT+AGG | + | chr7_4:41004968-41004987 | Msa1153880:CDS | 30.0% | |
| AAGATTAGGACTTAAGAATG+TGG | + | chr7_4:41004982-41005001 | Msa1153880:CDS | 30.0% | |
| GAATGTGGATGGAAAATTAA+TGG | + | chr7_4:41004997-41005016 | Msa1153880:CDS | 30.0% | |
| ! | ATTAATGGTGCTTGATTTTG+TGG | + | chr7_4:41005012-41005031 | Msa1153880:CDS | 30.0% |
| ATTGATAAGTCACCTGTTGT+CGG | + | chr7_4:41004873-41004892 | Msa1153880:CDS | 35.0% | |
| ! | TTCTTTTCAATACCGACAAC+AGG | - | chr7_4:41004888-41004907 | None:intergenic | 35.0% |
| ! | TGTTGTCGGTATTGAAAAGA+AGG | + | chr7_4:41004887-41004906 | Msa1153880:intron | 35.0% |
| ! | TTTGTTATGGTCTCTAGTCT+TGG | - | chr7_4:41004953-41004972 | None:intergenic | 35.0% |
| TTAGGACTTAAGAATGTGGA+TGG | + | chr7_4:41004986-41005005 | Msa1153880:CDS | 35.0% | |
| ! | TTTCTAGCAAATGTAACTCG+AGG | - | chr7_4:41005048-41005067 | None:intergenic | 35.0% |
| ! | GTTTTATGATCTCGCTTGTC+TGG | - | chr7_4:41004923-41004942 | None:intergenic | 40.0% |
| ! | AATGGTGCTTGATTTTGTGG+AGG | + | chr7_4:41005015-41005034 | Msa1153880:CDS | 40.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_4 | gene | 41004762 | 41005093 | 41004762 | ID=Msa1153880;Name=Msa1153880 |
| chr7_4 | mRNA | 41004762 | 41005093 | 41004762 | ID=Msa1153880-mRNA-1;Parent=Msa1153880;Name=Msa1153880-mRNA-1;_AED=0.32;_eAED=0.38;_QI=0|0|0|1|0|0|2|0|105 |
| chr7_4 | exon | 41004762 | 41004894 | 41004762 | ID=Msa1153880-mRNA-1:exon:9939;Parent=Msa1153880-mRNA-1 |
| chr7_4 | exon | 41004909 | 41005093 | 41004909 | ID=Msa1153880-mRNA-1:exon:9940;Parent=Msa1153880-mRNA-1 |
| chr7_4 | CDS | 41004762 | 41004894 | 41004762 | ID=Msa1153880-mRNA-1:cds;Parent=Msa1153880-mRNA-1 |
| chr7_4 | CDS | 41004909 | 41005093 | 41004909 | ID=Msa1153880-mRNA-1:cds;Parent=Msa1153880-mRNA-1 |
| Gene Sequence |
| Protein sequence |
