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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0965570 | KEH27158.1 | 46.429 | 196 | 45 | 3 | 3 | 138 | 33 | 228 | 5.87e-42 | 151 |
| 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 |
|---|---|---|---|---|
| Msa0965570 | Msa1410640 | 0.853461 | 2.354282e-61 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0965570 | MtrunA17_Chr6g0486181 | 46.429 | 196 | 45 | 3 | 3 | 138 | 33 | 228 | 5.40e-46 | 151 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 26 sgRNAs with CRISPR-Local
Find 40 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGAAAGTCGCGGATTCTTTA+AGG | 0.149783 | 6_3:-93024703 | Msa0965570:CDS |
| ATTAAACAAGTTTCTAGAAC+AGG | 0.359747 | 6_3:-93024429 | Msa0965570:CDS |
| AGCTAAAGCTGAAAATGTTC+TGG | 0.368055 | 6_3:-93024778 | Msa0965570:CDS |
| TTCTTTCATGGAGGAGGAAG+GGG | 0.389696 | 6_3:-93024669 | Msa0965570:CDS |
| AAAGAATCCGCGACTTTCAT+AGG | 0.395410 | 6_3:+93024707 | None:intergenic |
| TATATCTGCTATCATTGAAA+TGG | 0.397917 | 6_3:+93024825 | None:intergenic |
| GTTGAAGAAGGGTGTTGAAC+AGG | 0.413754 | 6_3:+93024465 | None:intergenic |
| TCTATCAAATACTCTAGTTA+AGG | 0.433105 | 6_3:+93024874 | None:intergenic |
| AAGTTTCTAGAACAGGGTAT+TGG | 0.464513 | 6_3:-93024422 | Msa0965570:CDS |
| ATACGAAGCAATGTTGAAGA+AGG | 0.501068 | 6_3:+93024453 | None:intergenic |
| GATAGAGATGGTAGCACTCA+AGG | 0.505801 | 6_3:-93024857 | Msa0965570:CDS |
| CATGAATATAAAATTATCGA+TGG | 0.508016 | 6_3:-93024267 | Msa0965570:three_prime_UTR |
| ACTAGAGTATTTGATAGAGA+TGG | 0.527025 | 6_3:-93024869 | Msa0965570:CDS |
| CATGAGCATGATTCTGACAC+TGG | 0.533230 | 6_3:-93024381 | Msa0965570:CDS |
| TTCTAGAACAGGGTATTGGA+AGG | 0.541064 | 6_3:-93024418 | Msa0965570:CDS |
| TTTCTTTCATGGAGGAGGAA+GGG | 0.543712 | 6_3:-93024670 | Msa0965570:CDS |
| AAGTGAAATACATAATTGAC+GGG | 0.549424 | 6_3:-93024913 | Msa0965570:CDS |
| GAAGTGAAATACATAATTGA+CGG | 0.553540 | 6_3:-93024914 | Msa0965570:CDS |
| ATGAATATAAAATTATCGAT+GGG | 0.565717 | 6_3:-93024266 | None:intergenic |
| TCTAGAACAGGGTATTGGAA+GGG | 0.578826 | 6_3:-93024417 | Msa0965570:CDS |
| TACGAAGCAATGTTGAAGAA+GGG | 0.616487 | 6_3:+93024454 | None:intergenic |
| ATGAGCATGATTCTGACACT+GGG | 0.630580 | 6_3:-93024380 | Msa0965570:CDS |
| TTAAACAAGTTTCTAGAACA+GGG | 0.653611 | 6_3:-93024428 | Msa0965570:CDS |
| TAGGTCACGTTATCAGAAAG+CGG | 0.661044 | 6_3:+93024726 | None:intergenic |
| GAACAGAATAGCATGCAGAG+AGG | 0.743502 | 6_3:-93024633 | Msa0965570:intron |
| AACGTGACCTATGAAAGTCG+CGG | 0.766478 | 6_3:-93024714 | Msa0965570:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AAATAATATGTTATTTGATA+TGG | + | chr6_3:93024696-93024715 | None:intergenic | 10.0% |
| !!! | AACAAAGAAAATATATTTTG+AGG | - | chr6_3:93024869-93024888 | Msa0965570:CDS | 15.0% |
| !!! | GAAACAAATTTTTTCTTTCA+TGG | - | chr6_3:93024515-93024534 | Msa0965570:intron | 20.0% |
| !! | AGTGGAAATAAAATAGATAT+TGG | - | chr6_3:93024647-93024666 | Msa0965570:CDS | 20.0% |
| !! | TAACATATTATTTGTTTCAG+CGG | - | chr6_3:93024703-93024722 | Msa0965570:CDS | 20.0% |
| ! | GAAGTGAAATACATAATTGA+CGG | - | chr6_3:93024282-93024301 | Msa0965570:three_prime_UTR | 25.0% |
| ! | AAGTGAAATACATAATTGAC+GGG | - | chr6_3:93024283-93024302 | Msa0965570:three_prime_UTR | 25.0% |
| ! | TCTATCAAATACTCTAGTTA+AGG | + | chr6_3:93024325-93024344 | None:intergenic | 25.0% |
| ! | TATATCTGCTATCATTGAAA+TGG | + | chr6_3:93024374-93024393 | None:intergenic | 25.0% |
| !!! | ACAAATTTTTTCTTTCATGG+AGG | - | chr6_3:93024518-93024537 | Msa0965570:intron | 25.0% |
| !! | CCACTAAAATCATTTTCATT+GGG | + | chr6_3:93024632-93024651 | None:intergenic | 25.0% |
| !! | TCCACTAAAATCATTTTCAT+TGG | + | chr6_3:93024633-93024652 | None:intergenic | 25.0% |
| ! | AATAGATATTGGACTTTCAA+TGG | - | chr6_3:93024658-93024677 | Msa0965570:CDS | 25.0% |
| !!! | ATTAAACAAGTTTCTAGAAC+AGG | - | chr6_3:93024767-93024786 | Msa0965570:CDS | 25.0% |
| !!! | TTAAACAAGTTTCTAGAACA+GGG | - | chr6_3:93024768-93024787 | Msa0965570:CDS | 25.0% |
| ! | ACTAGAGTATTTGATAGAGA+TGG | - | chr6_3:93024327-93024346 | Msa0965570:exon | 30.0% |
| !!! | AATTTTTTCTTTCATGGAGG+AGG | - | chr6_3:93024521-93024540 | Msa0965570:intron | 30.0% |
| ! | CCCAATGAAAATGATTTTAG+TGG | - | chr6_3:93024629-93024648 | Msa0965570:intron | 30.0% |
| ATATTATTTGTTTCAGCGGA+GGG | - | chr6_3:93024707-93024726 | Msa0965570:CDS | 30.0% | |
| AGCTAAAGCTGAAAATGTTC+TGG | - | chr6_3:93024418-93024437 | Msa0965570:CDS | 35.0% | |
| GAATCCTTACAAAGTTACTG+TGG | - | chr6_3:93024589-93024608 | Msa0965570:intron | 35.0% | |
| CATATTATTTGTTTCAGCGG+AGG | - | chr6_3:93024706-93024725 | Msa0965570:CDS | 35.0% | |
| TACGAAGCAATGTTGAAGAA+GGG | + | chr6_3:93024745-93024764 | None:intergenic | 35.0% | |
| ATACGAAGCAATGTTGAAGA+AGG | + | chr6_3:93024746-93024765 | None:intergenic | 35.0% | |
| !! | AAGTTTCTAGAACAGGGTAT+TGG | - | chr6_3:93024774-93024793 | Msa0965570:CDS | 35.0% |
| TAGGTCACGTTATCAGAAAG+CGG | + | chr6_3:93024473-93024492 | None:intergenic | 40.0% | |
| AAAGAATCCGCGACTTTCAT+AGG | + | chr6_3:93024492-93024511 | None:intergenic | 40.0% | |
| TGAAAGTCGCGGATTCTTTA+AGG | - | chr6_3:93024493-93024512 | Msa0965570:intron | 40.0% | |
| ! | TTTTCTTTCATGGAGGAGGA+AGG | - | chr6_3:93024525-93024544 | Msa0965570:intron | 40.0% |
| TTTCTTTCATGGAGGAGGAA+GGG | - | chr6_3:93024526-93024545 | Msa0965570:intron | 40.0% | |
| TGTGCCACAGTAACTTTGTA+AGG | + | chr6_3:93024596-93024615 | None:intergenic | 40.0% | |
| !! | TTCTAGAACAGGGTATTGGA+AGG | - | chr6_3:93024778-93024797 | Msa0965570:CDS | 40.0% |
| !! | TCTAGAACAGGGTATTGGAA+GGG | - | chr6_3:93024779-93024798 | Msa0965570:CDS | 40.0% |
| ATGAGCATGATTCTGACACT+GGG | - | chr6_3:93024816-93024835 | Msa0965570:intron | 40.0% | |
| GATAGAGATGGTAGCACTCA+AGG | - | chr6_3:93024339-93024358 | Msa0965570:CDS | 45.0% | |
| AACGTGACCTATGAAAGTCG+CGG | - | chr6_3:93024482-93024501 | Msa0965570:intron | 45.0% | |
| TTCTTTCATGGAGGAGGAAG+GGG | - | chr6_3:93024527-93024546 | Msa0965570:intron | 45.0% | |
| GAACAGAATAGCATGCAGAG+AGG | - | chr6_3:93024563-93024582 | Msa0965570:intron | 45.0% | |
| !! | GTTGAAGAAGGGTGTTGAAC+AGG | + | chr6_3:93024734-93024753 | None:intergenic | 45.0% |
| CATGAGCATGATTCTGACAC+TGG | - | chr6_3:93024815-93024834 | Msa0965570:intron | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_3 | gene | 93024267 | 93024951 | 93024267 | ID=Msa0965570;Name=Msa0965570 |
| chr6_3 | mRNA | 93024267 | 93024951 | 93024267 | ID=Msa0965570-mRNA-1;Parent=Msa0965570;Name=Msa0965570-mRNA-1;_AED=0.43;_eAED=0.43;_QI=0|0.5|0.33|1|0|0|3|62|153 |
| chr6_3 | exon | 93024267 | 93024495 | 93024267 | ID=Msa0965570-mRNA-1:exon:17025;Parent=Msa0965570-mRNA-1 |
| chr6_3 | exon | 93024634 | 93024798 | 93024634 | ID=Msa0965570-mRNA-1:exon:17024;Parent=Msa0965570-mRNA-1 |
| chr6_3 | exon | 93024822 | 93024951 | 93024822 | ID=Msa0965570-mRNA-1:exon:17023;Parent=Msa0965570-mRNA-1 |
| chr6_3 | CDS | 93024822 | 93024951 | 93024822 | ID=Msa0965570-mRNA-1:cds;Parent=Msa0965570-mRNA-1 |
| chr6_3 | CDS | 93024634 | 93024798 | 93024634 | ID=Msa0965570-mRNA-1:cds;Parent=Msa0965570-mRNA-1 |
| chr6_3 | CDS | 93024329 | 93024495 | 93024329 | ID=Msa0965570-mRNA-1:cds;Parent=Msa0965570-mRNA-1 |
| chr6_3 | three_prime_UTR | 93024267 | 93024328 | 93024267 | ID=Msa0965570-mRNA-1:three_prime_utr;Parent=Msa0965570-mRNA-1 |
| Gene Sequence |
| Protein sequence |
