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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0333630 | XP_013464663.1 | 92.437 | 119 | 6 | 1 | 1 | 119 | 1 | 116 | 1.29e-72 | 222 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0333630 | A0A072VB72 | 92.437 | 119 | 6 | 1 | 1 | 119 | 1 | 116 | 6.15e-73 | 222 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0215790 | Msa0333630 | 0.998652 | 8.791660e-272 | -8.615850e-47 |
| Msa0333630 | Msa0928010 | 0.807421 | 5.095858e-50 | -8.615850e-47 |
| Msa0333630 | Msa0998700 | 0.813662 | 2.284905e-51 | -8.615850e-47 |
| Msa0333630 | Msa1340180 | 0.989841 | 6.886304e-180 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0333630 | MtrunA17_Chr2g0317051 | 92.437 | 119 | 6 | 1 | 1 | 119 | 1 | 116 | 1.18e-76 | 222 |
| Msa0333630 | MtrunA17_Chr1g0179711 | 93.939 | 99 | 6 | 0 | 1 | 99 | 1 | 99 | 3.19e-63 | 187 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 24 sgRNAs with CRISPR-Local
Find 28 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCTTGATTTATTGCTCCTAA+TGG | 0.262425 | 2_4:-51539664 | None:intergenic |
| AGAAGTAGTGAAGATTTATC+AGG | 0.364128 | 2_4:+51539841 | Msa0333630:CDS |
| AACAAAGAAAACTGTACAAT+TGG | 0.403825 | 2_4:+51539762 | Msa0333630:CDS |
| GTCTTTGCACTGAGCAAGAA+AGG | 0.411430 | 2_4:-51539448 | None:intergenic |
| ATTCAGGGTGGTGATCCATT+AGG | 0.431783 | 2_4:+51539649 | Msa0333630:intron |
| GTTGATAACTTTAGCAGCAT+TGG | 0.452113 | 2_4:-51539487 | None:intergenic |
| CTAGAGAGTGTTGAAGAAGT+TGG | 0.457188 | 2_4:+51539709 | Msa0333630:CDS |
| GAGTGTTGAAGAAGTTGGTA+AGG | 0.463197 | 2_4:+51539714 | Msa0333630:CDS |
| TCTTGCTCAGTGCAAAGACT+TGG | 0.489170 | 2_4:+51539452 | Msa0333630:CDS |
| AACTTGGAGATGGCTGTGAT+AGG | 0.503601 | 2_4:+51539866 | Msa0333630:CDS |
| AACTTTAGCAGCATTGGTAG+TGG | 0.505111 | 2_4:-51539481 | None:intergenic |
| CCATTAGGAGCAATAAATCA+AGG | 0.506320 | 2_4:+51539664 | Msa0333630:CDS |
| GAAGATTTATCAGGGCAACT+TGG | 0.516603 | 2_4:+51539850 | Msa0333630:CDS |
| AGGAAAATGTGGAAACTGCA+TGG | 0.519693 | 2_4:+51539734 | Msa0333630:CDS |
| TTATCAGGGCAACTTGGAGA+TGG | 0.537867 | 2_4:+51539856 | Msa0333630:CDS |
| AGAAGTTGGTAAGGAAAATG+TGG | 0.552960 | 2_4:+51539723 | Msa0333630:CDS |
| GAAGTAGTGAAGATTTATCA+GGG | 0.567179 | 2_4:+51539842 | Msa0333630:CDS |
| TCTTTGCACTGAGCAAGAAA+GGG | 0.570085 | 2_4:-51539447 | None:intergenic |
| AGGGTCAGAGAAAGCAAGAG+AGG | 0.619602 | 2_4:+51539684 | Msa0333630:CDS |
| GACTGAGACAACCACTGCTG+AGG | 0.629251 | 2_4:+51539786 | Msa0333630:CDS |
| TGAGGCTGATATGAATGTTG+TGG | 0.639431 | 2_4:+51539804 | Msa0333630:CDS |
| CATTAGGAGCAATAAATCAA+GGG | 0.647640 | 2_4:+51539665 | Msa0333630:CDS |
| ATTCATATCAGCCTCAGCAG+TGG | 0.674496 | 2_4:-51539797 | None:intergenic |
| GGAAAATGTGGAAACTGCAT+GGG | 0.686615 | 2_4:+51539735 | Msa0333630:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TGTGAAAGAAAAAAAAATTG+AGG | - | chr2_4:51539554-51539573 | None:intergenic | 20.0% |
| !!! | TTTTTTTTTTAAATTCAGGG+TGG | + | chr2_4:51539637-51539656 | Msa0333630:intron | 20.0% |
| ! | AACAAAGAAAACTGTACAAT+TGG | + | chr2_4:51539762-51539781 | Msa0333630:CDS | 25.0% |
| CATTAGGAGCAATAAATCAA+GGG | + | chr2_4:51539665-51539684 | Msa0333630:CDS | 30.0% | |
| AGAAGTAGTGAAGATTTATC+AGG | + | chr2_4:51539841-51539860 | Msa0333630:CDS | 30.0% | |
| GAAGTAGTGAAGATTTATCA+GGG | + | chr2_4:51539842-51539861 | Msa0333630:CDS | 30.0% | |
| !! | GTTGATAACTTTAGCAGCAT+TGG | - | chr2_4:51539490-51539509 | None:intergenic | 35.0% |
| CCTTGATTTATTGCTCCTAA+TGG | - | chr2_4:51539667-51539686 | None:intergenic | 35.0% | |
| CCATTAGGAGCAATAAATCA+AGG | + | chr2_4:51539664-51539683 | Msa0333630:CDS | 35.0% | |
| !! | AGAAGTTGGTAAGGAAAATG+TGG | + | chr2_4:51539723-51539742 | Msa0333630:CDS | 35.0% |
| TCTTTGCACTGAGCAAGAAA+GGG | - | chr2_4:51539450-51539469 | None:intergenic | 40.0% | |
| !! | AACTTTAGCAGCATTGGTAG+TGG | - | chr2_4:51539484-51539503 | None:intergenic | 40.0% |
| !! | CTAGAGAGTGTTGAAGAAGT+TGG | + | chr2_4:51539709-51539728 | Msa0333630:CDS | 40.0% |
| !! | GAGTGTTGAAGAAGTTGGTA+AGG | + | chr2_4:51539714-51539733 | Msa0333630:CDS | 40.0% |
| AGGAAAATGTGGAAACTGCA+TGG | + | chr2_4:51539734-51539753 | Msa0333630:CDS | 40.0% | |
| GGAAAATGTGGAAACTGCAT+GGG | + | chr2_4:51539735-51539754 | Msa0333630:CDS | 40.0% | |
| TGAGGCTGATATGAATGTTG+TGG | + | chr2_4:51539804-51539823 | Msa0333630:CDS | 40.0% | |
| GAAGATTTATCAGGGCAACT+TGG | + | chr2_4:51539850-51539869 | Msa0333630:CDS | 40.0% | |
| GTCTTTGCACTGAGCAAGAA+AGG | - | chr2_4:51539451-51539470 | None:intergenic | 45.0% | |
| TCTTGCTCAGTGCAAAGACT+TGG | + | chr2_4:51539452-51539471 | Msa0333630:CDS | 45.0% | |
| ATTCAGGGTGGTGATCCATT+AGG | + | chr2_4:51539649-51539668 | Msa0333630:intron | 45.0% | |
| ATTCATATCAGCCTCAGCAG+TGG | - | chr2_4:51539800-51539819 | None:intergenic | 45.0% | |
| TTATCAGGGCAACTTGGAGA+TGG | + | chr2_4:51539856-51539875 | Msa0333630:CDS | 45.0% | |
| AACTTGGAGATGGCTGTGAT+AGG | + | chr2_4:51539866-51539885 | Msa0333630:CDS | 45.0% | |
| !!! | TTTTTTTTTTTTTTAAATTC+AGG | + | chr2_4:51539633-51539652 | Msa0333630:intron | 5.0% |
| !!! | TTTTTTTTTTTTTAAATTCA+GGG | + | chr2_4:51539634-51539653 | Msa0333630:intron | 5.0% |
| AGGGTCAGAGAAAGCAAGAG+AGG | + | chr2_4:51539684-51539703 | Msa0333630:CDS | 50.0% | |
| GACTGAGACAACCACTGCTG+AGG | + | chr2_4:51539786-51539805 | Msa0333630:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_4 | gene | 51539432 | 51539900 | 51539432 | ID=Msa0333630;Name=Msa0333630 |
| chr2_4 | mRNA | 51539432 | 51539900 | 51539432 | ID=Msa0333630-mRNA-1;Parent=Msa0333630;Name=Msa0333630-mRNA-1;_AED=0.01;_eAED=0.01;_QI=0|0|0|1|1|1|2|0|119 |
| chr2_4 | exon | 51539432 | 51539545 | 51539432 | ID=Msa0333630-mRNA-1:exon:15396;Parent=Msa0333630-mRNA-1 |
| chr2_4 | exon | 51539655 | 51539900 | 51539655 | ID=Msa0333630-mRNA-1:exon:15397;Parent=Msa0333630-mRNA-1 |
| chr2_4 | CDS | 51539432 | 51539545 | 51539432 | ID=Msa0333630-mRNA-1:cds;Parent=Msa0333630-mRNA-1 |
| chr2_4 | CDS | 51539655 | 51539900 | 51539655 | ID=Msa0333630-mRNA-1:cds;Parent=Msa0333630-mRNA-1 |
| Gene Sequence |
| Protein sequence |
