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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1047550 | RHN44047.1 | 92.857 | 56 | 2 | 1 | 22 | 75 | 38 | 93 | 1.23e-24 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1047550 | A0A396GZI3 | 92.857 | 56 | 2 | 1 | 22 | 75 | 38 | 93 | 5.88e-25 | 100 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0811080 | Msa1047550 | 0.802911 | 4.481639e-49 | -8.615850e-47 |
| Msa1047550 | Msa1047590 | 0.880137 | 7.030215e-70 | -8.615850e-47 |
| Msa1047550 | Msa1047620 | 0.866315 | 3.119680e-65 | -8.615850e-47 |
| Msa0306460 | Msa1047550 | 0.808491 | 3.017553e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1047550 | MtrunA17_Chr7g0215071 | 92.857 | 56 | 2 | 1 | 22 | 75 | 38 | 93 | 1.13e-28 | 100 |
| Msa1047550 | MtrunA17_Chr7g0215041 | 81.818 | 33 | 6 | 0 | 43 | 75 | 6 | 38 | 4.35e-12 | 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 14 sgRNAs with CRISPR-Local
Find 22 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GAACTTGGCTTCGCAGATAT+TGG | 0.249033 | 7_2:+8572325 | Msa1047550:CDS |
| TAAGGCTTCCTTTGGTACTA+TGG | 0.280084 | 7_2:-8572380 | None:intergenic |
| TCAGAACAAGGAAAGCATTC+AGG | 0.305653 | 7_2:-8572184 | None:intergenic |
| CTGTTCAGTAAGGCTTCCTT+TGG | 0.359970 | 7_2:-8572388 | None:intergenic |
| CATTGTTTACAACATGCAAT+TGG | 0.384209 | 7_2:+8572145 | None:intergenic |
| GATGTTTGTTTGAACTCAAC+TGG | 0.402822 | 7_2:+8572433 | Msa1047550:CDS |
| CTCACTGATGCTGTTCAGTA+AGG | 0.464330 | 7_2:-8572398 | None:intergenic |
| CAGAACAAGGAAAGCATTCA+GGG | 0.471110 | 7_2:-8572183 | None:intergenic |
| AATCAGATAGTTACTGAACT+TGG | 0.471447 | 7_2:+8572310 | Msa1047550:intron |
| TCTGAATTTCCCTGTAATGC+AGG | 0.489093 | 7_2:+8572202 | Msa1047550:CDS |
| TAATGTGAGTTCAGTTGATG+AGG | 0.584091 | 7_2:+8572351 | Msa1047550:CDS |
| TCTCTCAAATACATCATGCA+TGG | 0.589271 | 7_2:-8572471 | None:intergenic |
| GGAGATTTCCATAGTACCAA+AGG | 0.614566 | 7_2:+8572372 | Msa1047550:CDS |
| TTACAGGGAAATTCAGAACA+AGG | 0.641725 | 7_2:-8572196 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | CTTTTTTTACCTGCATTACA+GGG | - | chr7_2:8572214-8572233 | None:intergenic | 30.0% |
| !!! | ACTTTTTTTACCTGCATTAC+AGG | - | chr7_2:8572215-8572234 | None:intergenic | 30.0% |
| GTAATGCAGGTAAAAAAAGT+AGG | + | chr7_2:8572215-8572234 | Msa1047550:intron | 30.0% | |
| AATCAGATAGTTACTGAACT+TGG | + | chr7_2:8572310-8572329 | Msa1047550:intron | 30.0% | |
| TTACAGGGAAATTCAGAACA+AGG | - | chr7_2:8572199-8572218 | None:intergenic | 35.0% | |
| CCTAGGATAATGAAAACATC+AGG | - | chr7_2:8572251-8572270 | None:intergenic | 35.0% | |
| ! | CCTGATGTTTTCATTATCCT+AGG | + | chr7_2:8572248-8572267 | Msa1047550:intron | 35.0% |
| ATCATCCTTGGATTTAGCAA+AGG | + | chr7_2:8572274-8572293 | Msa1047550:intron | 35.0% | |
| ! | TAATGTGAGTTCAGTTGATG+AGG | + | chr7_2:8572351-8572370 | Msa1047550:CDS | 35.0% |
| GATGTTTGTTTGAACTCAAC+TGG | + | chr7_2:8572433-8572452 | Msa1047550:CDS | 35.0% | |
| !! | CAGAACAAGGAAAGCATTCA+GGG | - | chr7_2:8572186-8572205 | None:intergenic | 40.0% |
| !! | TCAGAACAAGGAAAGCATTC+AGG | - | chr7_2:8572187-8572206 | None:intergenic | 40.0% |
| TCTGAATTTCCCTGTAATGC+AGG | + | chr7_2:8572202-8572221 | Msa1047550:CDS | 40.0% | |
| TATCCTAGGACAATCATCCT+TGG | + | chr7_2:8572262-8572281 | Msa1047550:intron | 40.0% | |
| AATCCAAGGATGATTGTCCT+AGG | - | chr7_2:8572268-8572287 | None:intergenic | 40.0% | |
| ATCCTTGGATTTAGCAAAGG+TGG | + | chr7_2:8572277-8572296 | Msa1047550:intron | 40.0% | |
| TTCCACCTTTGCTAAATCCA+AGG | - | chr7_2:8572282-8572301 | None:intergenic | 40.0% | |
| GGAGATTTCCATAGTACCAA+AGG | + | chr7_2:8572372-8572391 | Msa1047550:CDS | 40.0% | |
| TAAGGCTTCCTTTGGTACTA+TGG | - | chr7_2:8572383-8572402 | None:intergenic | 40.0% | |
| GAACTTGGCTTCGCAGATAT+TGG | + | chr7_2:8572325-8572344 | Msa1047550:CDS | 45.0% | |
| CTGTTCAGTAAGGCTTCCTT+TGG | - | chr7_2:8572391-8572410 | None:intergenic | 45.0% | |
| CTCACTGATGCTGTTCAGTA+AGG | - | chr7_2:8572401-8572420 | None:intergenic | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_2 | gene | 8572158 | 8572480 | 8572158 | ID=Msa1047550;Name=Msa1047550 |
| chr7_2 | mRNA | 8572158 | 8572480 | 8572158 | ID=Msa1047550-mRNA-1;Parent=Msa1047550;Name=Msa1047550-mRNA-1;_AED=0.42;_eAED=0.46;_QI=0|0|0|0.5|1|1|2|0|76 |
| chr7_2 | exon | 8572158 | 8572223 | 8572158 | ID=Msa1047550-mRNA-1:exon:2229;Parent=Msa1047550-mRNA-1 |
| chr7_2 | exon | 8572316 | 8572480 | 8572316 | ID=Msa1047550-mRNA-1:exon:2230;Parent=Msa1047550-mRNA-1 |
| chr7_2 | CDS | 8572158 | 8572223 | 8572158 | ID=Msa1047550-mRNA-1:cds;Parent=Msa1047550-mRNA-1 |
| chr7_2 | CDS | 8572316 | 8572480 | 8572316 | ID=Msa1047550-mRNA-1:cds;Parent=Msa1047550-mRNA-1 |
| Gene Sequence |
| Protein sequence |
