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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1088440 | KEH20775.1 | 93.458 | 107 | 7 | 0 | 1 | 107 | 1 | 107 | 9.00e-69 | 211 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1088440 | A0A072U4M2 | 93.458 | 107 | 7 | 0 | 1 | 107 | 1 | 107 | 4.30e-69 | 211 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0610280 | Msa1088440 | 0.929629 | 5.283487e-93 | -8.615850e-47 |
| Msa0658650 | Msa1088440 | 0.825436 | 4.692829e-54 | -8.615850e-47 |
| Msa0703460 | Msa1088440 | 0.836010 | 1.201795e-56 | -8.615850e-47 |
| Msa0566980 | Msa1088440 | 0.999761 | 0.000000e+00 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1088440 | MtrunA17_Chr8g0381641 | 93.458 | 107 | 7 | 0 | 1 | 107 | 1 | 107 | 8.28e-73 | 211 |
| Msa1088440 | MtrunA17_Chr8g0381621 | 75.238 | 105 | 21 | 4 | 1 | 103 | 1 | 102 | 1.70e-49 | 152 |
| Msa1088440 | MtrunA17_Chr8g0381631 | 57.831 | 83 | 22 | 2 | 25 | 107 | 44 | 113 | 1.44e-21 | 82.4 |
| 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 29 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AATTGTTGTGGTTTCGGTTT+TGG | 0.230297 | 7_3:+1604664 | None:intergenic |
| ACCCGTAATTGTTGTGGTTT+CGG | 0.263916 | 7_3:+1604658 | None:intergenic |
| AACCGAAACCACAACAATTA+CGG | 0.350207 | 7_3:-1604660 | Msa1088440:CDS |
| GATTGATCTTCCTCAACTAT+TGG | 0.360870 | 7_3:+1604552 | None:intergenic |
| CCTCATTGATGACATGAGTT+TGG | 0.382010 | 7_3:+1604380 | None:intergenic |
| ACCGAAACCACAACAATTAC+GGG | 0.390353 | 7_3:-1604659 | Msa1088440:CDS |
| AGATCAATCCTACTATTTAG+AGG | 0.394992 | 7_3:-1604538 | Msa1088440:CDS |
| TTACGAACCCGCATACTATC+CGG | 0.409986 | 7_3:-1604616 | Msa1088440:CDS |
| TACGAACCCGCATACTATCC+GGG | 0.436849 | 7_3:-1604615 | Msa1088440:CDS |
| ACGACGAACCTCTAAATAGT+AGG | 0.482372 | 7_3:+1604530 | None:intergenic |
| AGACCGATCGACGAGGTTTG+AGG | 0.483942 | 7_3:-1604494 | Msa1088440:CDS |
| GATCGACGAGGTTTGAGGTA+TGG | 0.517220 | 7_3:-1604489 | Msa1088440:CDS |
| GCGTCGTGTTGCAATATATG+AGG | 0.518107 | 7_3:-1604577 | Msa1088440:CDS |
| ATACCTCAAACCTCGTCGAT+CGG | 0.542925 | 7_3:+1604491 | None:intergenic |
| TTATTCAACACGAGCATAGG+AGG | 0.567055 | 7_3:-1604413 | Msa1088440:CDS |
| CAAACTCATGTCATCAATGA+GGG | 0.571315 | 7_3:-1604379 | Msa1088440:CDS |
| GACTCCACCCGTAATTGTTG+TGG | 0.580902 | 7_3:+1604652 | None:intergenic |
| GTGATGCCCCGGATAGTATG+CGG | 0.591042 | 7_3:+1604608 | None:intergenic |
| CCAAACTCATGTCATCAATG+AGG | 0.606593 | 7_3:-1604380 | Msa1088440:CDS |
| TGATGCCCCGGATAGTATGC+GGG | 0.606955 | 7_3:+1604609 | None:intergenic |
| ATATGAGGAACCAATAGTTG+AGG | 0.635820 | 7_3:-1604562 | Msa1088440:CDS |
| TCAACACGAGCATAGGAGGA+CGG | 0.662040 | 7_3:-1604409 | Msa1088440:CDS |
| GAAACCACAACAATTACGGG+TGG | 0.673197 | 7_3:-1604656 | Msa1088440:CDS |
| ACGAACCCGCATACTATCCG+GGG | 0.673282 | 7_3:-1604614 | Msa1088440:CDS |
| GAGACTGAGACCGATCGACG+AGG | 0.700755 | 7_3:-1604501 | Msa1088440:CDS |
| AAGTGTTGATGAAGAAGCTG+AGG | 0.703686 | 7_3:-1604439 | Msa1088440:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AGATCAATCCTACTATTTAG+AGG | - | chr7_3:1604505-1604524 | Msa1088440:CDS | 30.0% | |
| ! | AATTGTTGTGGTTTCGGTTT+TGG | + | chr7_3:1604382-1604401 | None:intergenic | 35.0% |
| AACCGAAACCACAACAATTA+CGG | - | chr7_3:1604383-1604402 | Msa1088440:CDS | 35.0% | |
| ATATGAGGAACCAATAGTTG+AGG | - | chr7_3:1604481-1604500 | Msa1088440:CDS | 35.0% | |
| GATTGATCTTCCTCAACTAT+TGG | + | chr7_3:1604494-1604513 | None:intergenic | 35.0% | |
| ! | CTTTTATTCAACACGAGCAT+AGG | - | chr7_3:1604627-1604646 | Msa1088440:CDS | 35.0% |
| CAAACTCATGTCATCAATGA+GGG | - | chr7_3:1604664-1604683 | Msa1088440:CDS | 35.0% | |
| ACCGAAACCACAACAATTAC+GGG | - | chr7_3:1604384-1604403 | Msa1088440:CDS | 40.0% | |
| ACCCGTAATTGTTGTGGTTT+CGG | + | chr7_3:1604388-1604407 | None:intergenic | 40.0% | |
| ACGACGAACCTCTAAATAGT+AGG | + | chr7_3:1604516-1604535 | None:intergenic | 40.0% | |
| !! | AAGTGTTGATGAAGAAGCTG+AGG | - | chr7_3:1604604-1604623 | Msa1088440:CDS | 40.0% |
| TTATTCAACACGAGCATAGG+AGG | - | chr7_3:1604630-1604649 | Msa1088440:CDS | 40.0% | |
| ! | CCTCATTGATGACATGAGTT+TGG | + | chr7_3:1604666-1604685 | None:intergenic | 40.0% |
| CCAAACTCATGTCATCAATG+AGG | - | chr7_3:1604663-1604682 | Msa1088440:CDS | 40.0% | |
| GAAACCACAACAATTACGGG+TGG | - | chr7_3:1604387-1604406 | Msa1088440:CDS | 45.0% | |
| TTACGAACCCGCATACTATC+CGG | - | chr7_3:1604427-1604446 | Msa1088440:CDS | 45.0% | |
| ! | TTGCAACACGACGCTTTTGA+TGG | + | chr7_3:1604460-1604479 | None:intergenic | 45.0% |
| GCGTCGTGTTGCAATATATG+AGG | - | chr7_3:1604466-1604485 | Msa1088440:CDS | 45.0% | |
| ATACCTCAAACCTCGTCGAT+CGG | + | chr7_3:1604555-1604574 | None:intergenic | 45.0% | |
| GACTCCACCCGTAATTGTTG+TGG | + | chr7_3:1604394-1604413 | None:intergenic | 50.0% | |
| TACGAACCCGCATACTATCC+GGG | - | chr7_3:1604428-1604447 | Msa1088440:CDS | 50.0% | |
| ! | GATCGACGAGGTTTGAGGTA+TGG | - | chr7_3:1604554-1604573 | Msa1088440:CDS | 50.0% |
| TCAACACGAGCATAGGAGGA+CGG | - | chr7_3:1604634-1604653 | Msa1088440:CDS | 50.0% | |
| ACGAACCCGCATACTATCCG+GGG | - | chr7_3:1604429-1604448 | Msa1088440:CDS | 55.0% | |
| TGATGCCCCGGATAGTATGC+GGG | + | chr7_3:1604437-1604456 | None:intergenic | 55.0% | |
| GTGATGCCCCGGATAGTATG+CGG | + | chr7_3:1604438-1604457 | None:intergenic | 55.0% | |
| !!! | CGCTTTTGATGGTGATGCCC+CGG | + | chr7_3:1604449-1604468 | None:intergenic | 55.0% |
| AGACCGATCGACGAGGTTTG+AGG | - | chr7_3:1604549-1604568 | Msa1088440:CDS | 55.0% | |
| GAGACTGAGACCGATCGACG+AGG | - | chr7_3:1604542-1604561 | Msa1088440:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_3 | gene | 1604371 | 1604694 | 1604371 | ID=Msa1088440;Name=Msa1088440 |
| chr7_3 | mRNA | 1604371 | 1604694 | 1604371 | ID=Msa1088440-mRNA-1;Parent=Msa1088440;Name=Msa1088440-mRNA-1;_AED=0.34;_eAED=0.34;_QI=0|-1|0|1|-1|1|1|0|107 |
| chr7_3 | exon | 1604371 | 1604694 | 1604371 | ID=Msa1088440-mRNA-1:exon:651;Parent=Msa1088440-mRNA-1 |
| chr7_3 | CDS | 1604371 | 1604694 | 1604371 | ID=Msa1088440-mRNA-1:cds;Parent=Msa1088440-mRNA-1 |
| Gene Sequence |
| Protein sequence |
