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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1165850 | ABD32861.1 | 87.059 | 170 | 20 | 2 | 1 | 168 | 1 | 170 | 2.09e-85 | 258 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1165850 | Q2HUY8 | 87.059 | 170 | 20 | 2 | 1 | 168 | 1 | 170 | 9.96e-86 | 258 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1127930 | Msa1165850 | 0.835088 | 2.056150e-56 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1165850 | MtrunA17_Chr7g0271201 | 82.178 | 101 | 16 | 2 | 1 | 99 | 1 | 101 | 6.35e-36 | 121 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 29 sgRNAs with CRISPR-Local
Find 36 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AACCGTACAAAATTTGATTT+TGG | 0.148787 | 7_4:+57872500 | Msa1165850:CDS |
| AATATGTGGATTGCATTCTT+TGG | 0.251961 | 7_4:-57872855 | None:intergenic |
| TGAGTAAATTTAGGATCATT+AGG | 0.266602 | 7_4:-57872791 | None:intergenic |
| AACATAGAATGAGTAAATTT+AGG | 0.270517 | 7_4:-57872800 | None:intergenic |
| AACTTTACGAATTTGATTCT+TGG | 0.278934 | 7_4:-57872555 | None:intergenic |
| CAATCCACATATTGAATCAT+TGG | 0.351585 | 7_4:+57872865 | Msa1165850:CDS |
| ACTACTGCTCGAAATGGATT+TGG | 0.361001 | 7_4:+57872704 | Msa1165850:CDS |
| CACCGTCACTACCTCCTCTT+TGG | 0.383526 | 7_4:-57872433 | None:intergenic |
| AATAGTACTACTGCTCGAAA+TGG | 0.417979 | 7_4:+57872698 | Msa1165850:CDS |
| TCAACCAATGATTCAATATG+TGG | 0.425060 | 7_4:-57872869 | None:intergenic |
| TCACTACTAGGTGACCCATC+AGG | 0.450534 | 7_4:-57872767 | None:intergenic |
| GAGTAAATTTAGGATCATTA+GGG | 0.451665 | 7_4:-57872790 | None:intergenic |
| GGATCATTAGGGTCACTACT+AGG | 0.487924 | 7_4:-57872779 | None:intergenic |
| TCTTTGGTAACCGTTTCGAT+TGG | 0.500194 | 7_4:-57872417 | None:intergenic |
| GGTAAGGTGGTGATTATTCA+AGG | 0.506037 | 7_4:+57872665 | Msa1165850:CDS |
| AAATGTCAGTTGCAGAGGTA+AGG | 0.537678 | 7_4:+57872649 | Msa1165850:CDS |
| TGCTGTTGTTGATGATGAAG+AGG | 0.554923 | 7_4:-57872603 | None:intergenic |
| GGTGGTGATTATTCAAGGTG+AGG | 0.564226 | 7_4:+57872670 | Msa1165850:CDS |
| GTGGTGATTATTCAAGGTGA+GGG | 0.564991 | 7_4:+57872671 | Msa1165850:CDS |
| GAAGAGATCTCCAATCGAAA+CGG | 0.567195 | 7_4:+57872407 | Msa1165850:CDS |
| CACTACTAGGTGACCCATCA+GGG | 0.574832 | 7_4:-57872766 | None:intergenic |
| AATGTAAATGTCAGTTGCAG+AGG | 0.578785 | 7_4:+57872644 | Msa1165850:CDS |
| AATGTATTGGAAAACCCTGA+TGG | 0.586521 | 7_4:+57872752 | Msa1165850:CDS |
| ATGTATTGGAAAACCCTGAT+GGG | 0.602697 | 7_4:+57872753 | Msa1165850:CDS |
| AATCGAAACGGTTACCAAAG+AGG | 0.604417 | 7_4:+57872419 | Msa1165850:CDS |
| TGTCAGTTGCAGAGGTAAGG+TGG | 0.614185 | 7_4:+57872652 | Msa1165850:CDS |
| TACCAAAGAGGAGGTAGTGA+CGG | 0.624361 | 7_4:+57872431 | Msa1165850:CDS |
| ATGACGAACAAGATGCAACT+CGG | 0.624974 | 7_4:+57872456 | Msa1165850:CDS |
| CGAAACGGTTACCAAAGAGG+AGG | 0.685843 | 7_4:+57872422 | Msa1165850:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTCCAAAATCAAATTTTGTA+CGG | - | chr7_4:57872505-57872524 | None:intergenic | 20.0% |
| !!! | CAAAATTTGATTTTGGAAAA+AGG | + | chr7_4:57872507-57872526 | Msa1165850:CDS | 20.0% |
| !! | AACATAGAATGAGTAAATTT+AGG | - | chr7_4:57872803-57872822 | None:intergenic | 20.0% |
| !!! | AACCGTACAAAATTTGATTT+TGG | + | chr7_4:57872500-57872519 | Msa1165850:CDS | 25.0% |
| ! | AACTTTACGAATTTGATTCT+TGG | - | chr7_4:57872558-57872577 | None:intergenic | 25.0% |
| ! | TTTACATTCCTAGAAAAAGA+CGG | - | chr7_4:57872632-57872651 | None:intergenic | 25.0% |
| !! | GAGTAAATTTAGGATCATTA+GGG | - | chr7_4:57872793-57872812 | None:intergenic | 25.0% |
| !! | TGAGTAAATTTAGGATCATT+AGG | - | chr7_4:57872794-57872813 | None:intergenic | 25.0% |
| ! | AATATGTGGATTGCATTCTT+TGG | - | chr7_4:57872858-57872877 | None:intergenic | 30.0% |
| CAATCCACATATTGAATCAT+TGG | + | chr7_4:57872865-57872884 | Msa1165850:CDS | 30.0% | |
| TCAACCAATGATTCAATATG+TGG | - | chr7_4:57872872-57872891 | None:intergenic | 30.0% | |
| AATGTAAATGTCAGTTGCAG+AGG | + | chr7_4:57872644-57872663 | Msa1165850:CDS | 35.0% | |
| AATAGTACTACTGCTCGAAA+TGG | + | chr7_4:57872698-57872717 | Msa1165850:CDS | 35.0% | |
| ! | TCAGGGTTTTCCAATACATT+GGG | - | chr7_4:57872752-57872771 | None:intergenic | 35.0% |
| ! | ATCAGGGTTTTCCAATACAT+TGG | - | chr7_4:57872753-57872772 | None:intergenic | 35.0% |
| AATGTATTGGAAAACCCTGA+TGG | + | chr7_4:57872752-57872771 | Msa1165850:CDS | 35.0% | |
| ATGTATTGGAAAACCCTGAT+GGG | + | chr7_4:57872753-57872772 | Msa1165850:CDS | 35.0% | |
| GAAGAGATCTCCAATCGAAA+CGG | + | chr7_4:57872407-57872426 | Msa1165850:CDS | 40.0% | |
| ! | TCTTTGGTAACCGTTTCGAT+TGG | - | chr7_4:57872420-57872439 | None:intergenic | 40.0% |
| AATCGAAACGGTTACCAAAG+AGG | + | chr7_4:57872419-57872438 | Msa1165850:CDS | 40.0% | |
| ATGACGAACAAGATGCAACT+CGG | + | chr7_4:57872456-57872475 | Msa1165850:CDS | 40.0% | |
| !! | TGCTGTTGTTGATGATGAAG+AGG | - | chr7_4:57872606-57872625 | None:intergenic | 40.0% |
| AAATGTCAGTTGCAGAGGTA+AGG | + | chr7_4:57872649-57872668 | Msa1165850:CDS | 40.0% | |
| GGTAAGGTGGTGATTATTCA+AGG | + | chr7_4:57872665-57872684 | Msa1165850:CDS | 40.0% | |
| GTGGTGATTATTCAAGGTGA+GGG | + | chr7_4:57872671-57872690 | Msa1165850:CDS | 40.0% | |
| ! | ACTACTGCTCGAAATGGATT+TGG | + | chr7_4:57872704-57872723 | Msa1165850:CDS | 40.0% |
| ! | TTTTTCGCGTCCCAATGTAT+TGG | + | chr7_4:57872739-57872758 | Msa1165850:CDS | 40.0% |
| TACCAAAGAGGAGGTAGTGA+CGG | + | chr7_4:57872431-57872450 | Msa1165850:CDS | 45.0% | |
| ! | CAGCAACACCGTCTTTTTCT+AGG | + | chr7_4:57872621-57872640 | Msa1165850:CDS | 45.0% |
| GGTGGTGATTATTCAAGGTG+AGG | + | chr7_4:57872670-57872689 | Msa1165850:CDS | 45.0% | |
| GGATCATTAGGGTCACTACT+AGG | - | chr7_4:57872782-57872801 | None:intergenic | 45.0% | |
| CGAAACGGTTACCAAAGAGG+AGG | + | chr7_4:57872422-57872441 | Msa1165850:CDS | 50.0% | |
| TGTCAGTTGCAGAGGTAAGG+TGG | + | chr7_4:57872652-57872671 | Msa1165850:CDS | 50.0% | |
| CACTACTAGGTGACCCATCA+GGG | - | chr7_4:57872769-57872788 | None:intergenic | 50.0% | |
| TCACTACTAGGTGACCCATC+AGG | - | chr7_4:57872770-57872789 | None:intergenic | 50.0% | |
| CACCGTCACTACCTCCTCTT+TGG | - | chr7_4:57872436-57872455 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_4 | gene | 57872389 | 57872895 | 57872389 | ID=Msa1165850;Name=Msa1165850 |
| chr7_4 | mRNA | 57872389 | 57872895 | 57872389 | ID=Msa1165850-mRNA-1;Parent=Msa1165850;Name=Msa1165850-mRNA-1;_AED=0.07;_eAED=0.07;_QI=0|-1|0|1|-1|1|1|0|168 |
| chr7_4 | exon | 57872389 | 57872895 | 57872389 | ID=Msa1165850-mRNA-1:exon:17544;Parent=Msa1165850-mRNA-1 |
| chr7_4 | CDS | 57872389 | 57872895 | 57872389 | ID=Msa1165850-mRNA-1:cds;Parent=Msa1165850-mRNA-1 |
| Gene Sequence |
| Protein sequence |
