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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0603000 | AES88834.2 | 76.768 | 99 | 13 | 3 | 1 | 98 | 1 | 90 | 2.52e-30 | 114 |
| 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 |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0603000 | Msa0603020 | 0.986514 | 4.834998e-167 | -8.615850e-47 |
| Msa0603000 | Msa0683870 | 0.902094 | 1.377551e-78 | -8.615850e-47 |
| Msa0548020 | Msa0603000 | 0.885316 | 9.029156e-72 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0603000 | MtrunA17_Chr4g0031021 | 76.768 | 99 | 13 | 3 | 1 | 98 | 1 | 90 | 2.32e-34 | 114 |
| Msa0603000 | MtrunA17_Chr4g0031011 | 51.546 | 97 | 40 | 2 | 1 | 94 | 1 | 93 | 3.29e-14 | 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 25 sgRNAs with CRISPR-Local
Find 29 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AATGGTCTGGGTGAGAAGTT+TGG | 0.374289 | 4_2:+47174613 | Msa0603000:CDS |
| AAGGCAATGTCATGTGAGTA+TGG | 0.402722 | 4_2:-47174552 | None:intergenic |
| CAACACTAAGGTCATGGCTT+TGG | 0.441416 | 4_2:-47174449 | None:intergenic |
| ATGATGTAAACGACGTTGCT+AGG | 0.472531 | 4_2:+47174695 | Msa0603000:CDS |
| CACTACGGTGCTTTCTGAAG+AGG | 0.485776 | 4_2:+47174498 | Msa0603000:CDS |
| TCCACCGGTAGACGCATGCT+AGG | 0.507807 | 4_2:+47174574 | Msa0603000:CDS |
| GAACCCTAGCATGCGTCTAC+CGG | 0.513042 | 4_2:-47174578 | None:intergenic |
| CATTCAATCATTGTTATCAT+CGG | 0.520776 | 4_2:-47174725 | None:intergenic |
| TCTACAGTTGCATCAAACTT+CGG | 0.536605 | 4_2:-47174637 | None:intergenic |
| TGGGTAGGAGAGTAAGTGGT+GGG | 0.540063 | 4_2:-47174532 | None:intergenic |
| TGATGTAAACGACGTTGCTA+GGG | 0.561947 | 4_2:+47174696 | Msa0603000:CDS |
| CACATGACATTGCCTTCCAC+CGG | 0.580768 | 4_2:+47174559 | Msa0603000:CDS |
| CCCTAGCATGCGTCTACCGG+TGG | 0.591972 | 4_2:-47174575 | None:intergenic |
| GAGGAGCAACACTAAGGTCA+TGG | 0.596052 | 4_2:-47174455 | None:intergenic |
| TAGGAGGAGGAGCAACACTA+AGG | 0.598370 | 4_2:-47174461 | None:intergenic |
| CCACCGGTAGACGCATGCTA+GGG | 0.606573 | 4_2:+47174575 | Msa0603000:CDS |
| TAGTGAAAAGAGACAAAACT+AGG | 0.608337 | 4_2:-47174480 | None:intergenic |
| AGTATGGGTAGGAGAGTAAG+TGG | 0.611157 | 4_2:-47174536 | None:intergenic |
| AGCATGCGTCTACCGGTGGA+AGG | 0.612142 | 4_2:-47174571 | None:intergenic |
| AAAGAGACAAAACTAGGAGG+AGG | 0.615522 | 4_2:-47174474 | None:intergenic |
| AATGTCATGTGAGTATGGGT+AGG | 0.634885 | 4_2:-47174547 | None:intergenic |
| ATGGGTAGGAGAGTAAGTGG+TGG | 0.647747 | 4_2:-47174533 | None:intergenic |
| AGGCAATGTCATGTGAGTAT+GGG | 0.653460 | 4_2:-47174551 | None:intergenic |
| GATGCAACTGTAGAAAAGCA+TGG | 0.685732 | 4_2:+47174646 | Msa0603000:CDS |
| TGAAAAGAGACAAAACTAGG+AGG | 0.694756 | 4_2:-47174477 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TAGTGAAAAGAGACAAAACT+AGG | - | chr4_2:47174483-47174502 | None:intergenic | 30.0% | |
| !! | AGTTTTGTCTCTTTTCACTA+CGG | + | chr4_2:47174483-47174502 | Msa0603000:CDS | 30.0% |
| TGAAAAGAGACAAAACTAGG+AGG | - | chr4_2:47174480-47174499 | None:intergenic | 35.0% | |
| TCTACAGTTGCATCAAACTT+CGG | - | chr4_2:47174640-47174659 | None:intergenic | 35.0% | |
| AAAGAGACAAAACTAGGAGG+AGG | - | chr4_2:47174477-47174496 | None:intergenic | 40.0% | |
| AATGTCATGTGAGTATGGGT+AGG | - | chr4_2:47174550-47174569 | None:intergenic | 40.0% | |
| AGGCAATGTCATGTGAGTAT+GGG | - | chr4_2:47174554-47174573 | None:intergenic | 40.0% | |
| AAGGCAATGTCATGTGAGTA+TGG | - | chr4_2:47174555-47174574 | None:intergenic | 40.0% | |
| GATGCAACTGTAGAAAAGCA+TGG | + | chr4_2:47174646-47174665 | Msa0603000:CDS | 40.0% | |
| ATGATGTAAACGACGTTGCT+AGG | + | chr4_2:47174695-47174714 | Msa0603000:CDS | 40.0% | |
| TGATGTAAACGACGTTGCTA+GGG | + | chr4_2:47174696-47174715 | Msa0603000:CDS | 40.0% | |
| CAACACTAAGGTCATGGCTT+TGG | - | chr4_2:47174452-47174471 | None:intergenic | 45.0% | |
| AGTATGGGTAGGAGAGTAAG+TGG | - | chr4_2:47174539-47174558 | None:intergenic | 45.0% | |
| !!! | GCCAGCTTTTTCAATGGTCT+GGG | + | chr4_2:47174601-47174620 | Msa0603000:CDS | 45.0% |
| ACCCAGACCATTGAAAAAGC+TGG | - | chr4_2:47174605-47174624 | None:intergenic | 45.0% | |
| AATGGTCTGGGTGAGAAGTT+TGG | + | chr4_2:47174613-47174632 | Msa0603000:CDS | 45.0% | |
| GAGGAGCAACACTAAGGTCA+TGG | - | chr4_2:47174458-47174477 | None:intergenic | 50.0% | |
| TAGGAGGAGGAGCAACACTA+AGG | - | chr4_2:47174464-47174483 | None:intergenic | 50.0% | |
| ! | CACTACGGTGCTTTCTGAAG+AGG | + | chr4_2:47174498-47174517 | Msa0603000:CDS | 50.0% |
| TGGGTAGGAGAGTAAGTGGT+GGG | - | chr4_2:47174535-47174554 | None:intergenic | 50.0% | |
| ATGGGTAGGAGAGTAAGTGG+TGG | - | chr4_2:47174536-47174555 | None:intergenic | 50.0% | |
| CACATGACATTGCCTTCCAC+CGG | + | chr4_2:47174559-47174578 | Msa0603000:CDS | 50.0% | |
| !!! | GGGTTCGCCAGCTTTTTCAA+TGG | + | chr4_2:47174595-47174614 | Msa0603000:CDS | 50.0% |
| !!! | CGCCAGCTTTTTCAATGGTC+TGG | + | chr4_2:47174600-47174619 | Msa0603000:CDS | 50.0% |
| GAACCCTAGCATGCGTCTAC+CGG | - | chr4_2:47174581-47174600 | None:intergenic | 55.0% | |
| AGCATGCGTCTACCGGTGGA+AGG | - | chr4_2:47174574-47174593 | None:intergenic | 60.0% | |
| TCCACCGGTAGACGCATGCT+AGG | + | chr4_2:47174574-47174593 | Msa0603000:CDS | 60.0% | |
| CCACCGGTAGACGCATGCTA+GGG | + | chr4_2:47174575-47174594 | Msa0603000:CDS | 60.0% | |
| CCCTAGCATGCGTCTACCGG+TGG | - | chr4_2:47174578-47174597 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_2 | gene | 47174445 | 47174744 | 47174445 | ID=Msa0603000;Name=Msa0603000 |
| chr4_2 | mRNA | 47174445 | 47174744 | 47174445 | ID=Msa0603000-mRNA-1;Parent=Msa0603000;Name=Msa0603000-mRNA-1;_AED=0.12;_eAED=0.12;_QI=0|-1|0|1|-1|1|1|0|99 |
| chr4_2 | exon | 47174445 | 47174744 | 47174445 | ID=Msa0603000-mRNA-1:exon:10756;Parent=Msa0603000-mRNA-1 |
| chr4_2 | CDS | 47174445 | 47174744 | 47174445 | ID=Msa0603000-mRNA-1:cds;Parent=Msa0603000-mRNA-1 |
| Gene Sequence |
| Protein sequence |
