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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0106520 | KEH40763.1 | 94.444 | 72 | 4 | 0 | 1 | 72 | 1 | 72 | 7.95e-41 | 138 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0106520 | A0A072VH50 | 94.444 | 72 | 4 | 0 | 1 | 72 | 1 | 72 | 3.80e-41 | 138 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0013290 | Msa0106520 | 0.927698 | 8.175883e-92 | -8.615850e-47 |
| Msa0032580 | Msa0106520 | 0.812090 | 5.050012e-51 | -8.615850e-47 |
| Msa0032610 | Msa0106520 | 0.814641 | 1.389394e-51 | -8.615850e-47 |
| Msa0085360 | Msa0106520 | -0.802495 | 5.461533e-49 | -8.615850e-47 |
| Msa0106520 | Msa0115390 | 0.819363 | 1.208343e-52 | -8.615850e-47 |
| Msa0106520 | Msa0172780 | 0.830645 | 2.612701e-55 | -8.615850e-47 |
| Msa0106520 | Msa0172970 | 0.812307 | 4.527923e-51 | -8.615850e-47 |
| Msa0106520 | Msa0173990 | 0.800867 | 1.178395e-48 | -8.615850e-47 |
| Msa0106520 | Msa0177700 | -0.803879 | 2.823259e-49 | -8.615850e-47 |
| Msa0106520 | Msa0351080 | 0.801758 | 7.742835e-49 | -8.615850e-47 |
| Msa0106520 | Msa0429290 | 0.807501 | 4.900965e-50 | -8.615850e-47 |
| Msa0106520 | Msa0475580 | 0.802500 | 5.448280e-49 | -8.615850e-47 |
| Msa0106520 | Msa0519220 | 0.809208 | 2.119291e-50 | -8.615850e-47 |
| Msa0106520 | Msa0623080 | 0.804942 | 1.695788e-49 | -8.615850e-47 |
| Msa0106520 | Msa0689010 | 0.800710 | 1.268156e-48 | -8.615850e-47 |
| Msa0106520 | Msa0784860 | 0.804551 | 2.045863e-49 | -8.615850e-47 |
| Msa0106520 | Msa0813720 | 0.802427 | 5.640466e-49 | -8.615850e-47 |
| Msa0106520 | Msa0874570 | 0.806295 | 8.819102e-50 | -8.615850e-47 |
| Msa0106520 | Msa0909000 | -0.802002 | 6.898139e-49 | -8.615850e-47 |
| Msa0106520 | Msa0996170 | 0.811701 | 6.138884e-51 | -8.615850e-47 |
| Msa0106520 | Msa1405810 | 0.998823 | 5.582662e-278 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0106520 | MtrunA17_Chr1g0162551 | 94.444 | 72 | 4 | 0 | 1 | 72 | 1 | 72 | 7.31e-45 | 138 |
| Msa0106520 | MtrunA17_Chr1g0162491 | 77.778 | 72 | 11 | 1 | 1 | 72 | 1 | 67 | 1.27e-34 | 112 |
| Msa0106520 | MtrunA17_Chr4g0034081 | 52.000 | 75 | 30 | 3 | 1 | 71 | 1 | 73 | 8.39e-20 | 75.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 15 sgRNAs with CRISPR-Local
Find 17 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATCTTTGGATTTGGAAAATT+TGG | 0.091946 | 1_3:-15982694 | None:intergenic |
| CTCTTCTTCTAAACCATCTT+TGG | 0.198131 | 1_3:-15982709 | None:intergenic |
| TTCTAAACCATCTTTGGATT+TGG | 0.216462 | 1_3:-15982703 | None:intergenic |
| GTCAACAATATGTTTGCTTA+TGG | 0.258869 | 1_3:+15982800 | Msa0106520:CDS |
| TTAGAAGAAGAGAAGGAAGT+TGG | 0.379164 | 1_3:+15982720 | Msa0106520:CDS |
| TAGAACTTTCTCTTTGAGCT+TGG | 0.434544 | 1_3:-15982661 | None:intergenic |
| AGTTGGAAGGGAAGCTCAAA+AGG | 0.457096 | 1_3:+15982737 | Msa0106520:CDS |
| AGAAGAGAAGGAAGTTGGAA+GGG | 0.471300 | 1_3:+15982725 | Msa0106520:CDS |
| AAGAAGAGAAGGAAGTTGGA+AGG | 0.492250 | 1_3:+15982724 | Msa0106520:CDS |
| AGATGGTTTAGAAGAAGAGA+AGG | 0.510389 | 1_3:+15982713 | Msa0106520:CDS |
| ACATATTGTTGACTCAGATA+AGG | 0.525899 | 1_3:-15982790 | None:intergenic |
| TGTCGGCCATGGTAGAGGTA+TGG | 0.538180 | 1_3:+15982625 | Msa0106520:CDS |
| GCCATGGTAGAGGTATGGAT+TGG | 0.607798 | 1_3:+15982630 | Msa0106520:CDS |
| ACCAATCCATACCTCTACCA+TGG | 0.656584 | 1_3:-15982631 | None:intergenic |
| TGGAAGGGAAGCTCAAAAGG+AGG | 0.704527 | 1_3:+15982740 | Msa0106520:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTGGAAAATTTGGTTTTGT+TGG | - | chr1_3:15982688-15982707 | None:intergenic | 25.0% |
| ! | ATCTTTGGATTTGGAAAATT+TGG | - | chr1_3:15982697-15982716 | None:intergenic | 25.0% |
| !! | AAATTTTCCAAATCCAAAGA+TGG | + | chr1_3:15982696-15982715 | Msa0106520:CDS | 25.0% |
| TTCTAAACCATCTTTGGATT+TGG | - | chr1_3:15982706-15982725 | None:intergenic | 30.0% | |
| !! | ACATATTGTTGACTCAGATA+AGG | - | chr1_3:15982793-15982812 | None:intergenic | 30.0% |
| GTCAACAATATGTTTGCTTA+TGG | + | chr1_3:15982800-15982819 | Msa0106520:CDS | 30.0% | |
| TAGAACTTTCTCTTTGAGCT+TGG | - | chr1_3:15982664-15982683 | None:intergenic | 35.0% | |
| CTCTTCTTCTAAACCATCTT+TGG | - | chr1_3:15982712-15982731 | None:intergenic | 35.0% | |
| AGATGGTTTAGAAGAAGAGA+AGG | + | chr1_3:15982713-15982732 | Msa0106520:CDS | 35.0% | |
| TTAGAAGAAGAGAAGGAAGT+TGG | + | chr1_3:15982720-15982739 | Msa0106520:CDS | 35.0% | |
| AAGAAGAGAAGGAAGTTGGA+AGG | + | chr1_3:15982724-15982743 | Msa0106520:CDS | 40.0% | |
| AGAAGAGAAGGAAGTTGGAA+GGG | + | chr1_3:15982725-15982744 | Msa0106520:CDS | 40.0% | |
| ACCAATCCATACCTCTACCA+TGG | - | chr1_3:15982634-15982653 | None:intergenic | 45.0% | |
| AGTTGGAAGGGAAGCTCAAA+AGG | + | chr1_3:15982737-15982756 | Msa0106520:CDS | 45.0% | |
| ! | GCCATGGTAGAGGTATGGAT+TGG | + | chr1_3:15982630-15982649 | Msa0106520:CDS | 50.0% |
| TGGAAGGGAAGCTCAAAAGG+AGG | + | chr1_3:15982740-15982759 | Msa0106520:CDS | 50.0% | |
| TGTCGGCCATGGTAGAGGTA+TGG | + | chr1_3:15982625-15982644 | Msa0106520:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_3 | gene | 15982624 | 15982842 | 15982624 | ID=Msa0106520;Name=Msa0106520 |
| chr1_3 | mRNA | 15982624 | 15982842 | 15982624 | ID=Msa0106520-mRNA-1;Parent=Msa0106520;Name=Msa0106520-mRNA-1;_AED=0.26;_eAED=0.26;_QI=0|-1|0|1|-1|1|1|0|72 |
| chr1_3 | exon | 15982624 | 15982842 | 15982624 | ID=Msa0106520-mRNA-1:exon:6038;Parent=Msa0106520-mRNA-1 |
| chr1_3 | CDS | 15982624 | 15982842 | 15982624 | ID=Msa0106520-mRNA-1:cds;Parent=Msa0106520-mRNA-1 |
| Gene Sequence |
| Protein sequence |
