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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0344230 | WP_202958637.1 | 77.333 | 75 | 17 | 0 | 1 | 75 | 4 | 78 | 5.55e-33 | 118 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0344230 | sp|A4QLL3|PETG_LOBMA | 100.000 | 36 | 0 | 0 | 39 | 74 | 1 | 36 | 7.06e-18 | 72.4 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0344230 | A0A396GH67 | 100.000 | 47 | 0 | 0 | 29 | 75 | 25 | 71 | 8.19e-25 | 97.1 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0049670 | Msa0344230 | 0.804943 | 1.694570e-49 | -8.615850e-47 |
| Msa0183960 | Msa0344230 | 0.802718 | 4.912114e-49 | -8.615850e-47 |
| Msa0228360 | Msa0344230 | 0.801512 | 8.693732e-49 | -8.615850e-47 |
| Msa0344230 | Msa0577290 | 0.804271 | 2.339980e-49 | -8.615850e-47 |
| Msa0344230 | Msa0577960 | 0.804659 | 1.943045e-49 | -8.615850e-47 |
| Msa0344230 | Msa0622930 | 0.808769 | 2.632458e-50 | -8.615850e-47 |
| Msa0344230 | Msa0625550 | 0.804725 | 1.882146e-49 | -8.615850e-47 |
| Msa0344230 | Msa0700430 | 0.807704 | 4.439236e-50 | -8.615850e-47 |
| Msa0344230 | Msa1374210 | 0.800932 | 1.142943e-48 | -8.615850e-47 |
| Msa0344230 | Msa1389990 | 0.800042 | 1.735255e-48 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0344230 | MtrunA17_Chr8g0355631 | 100.000 | 47 | 0 | 0 | 29 | 75 | 25 | 71 | 1.58e-28 | 97.1 |
| Msa0344230 | MtrunA17_Chr4g0015761 | 100.000 | 47 | 0 | 0 | 29 | 75 | 25 | 71 | 1.74e-28 | 97.1 |
| Msa0344230 | MtrunA17_CPg0492811 | 100.000 | 47 | 0 | 0 | 29 | 75 | 25 | 71 | 1.74e-28 | 97.1 |
| Msa0344230 | MtrunA17_Chr4g0016861 | 100.000 | 35 | 0 | 0 | 39 | 73 | 1 | 35 | 4.33e-18 | 70.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0344230 | ATCG00600.1 | 97.222 | 36 | 1 | 0 | 39 | 74 | 1 | 36 | 1.37e-17 | 68.9 |
Find 16 sgRNAs with CRISPR-Local
Find 35 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATGATTGAAGTTTCTCTATT+TGG | 0.115333 | 3_1:+2718623 | Msa0344230:CDS |
| TCATGTCAATTGCCAATTCT+TGG | 0.245809 | 3_1:+2718520 | Msa0344230:CDS |
| AATAATCCAGCCAAAGTAAT+AGG | 0.315680 | 3_1:-2718665 | None:intergenic |
| AAACTTCAATCATTTGAGTT+TGG | 0.328054 | 3_1:-2718613 | None:intergenic |
| CTAATTCCTATTACTTTGGC+TGG | 0.352028 | 3_1:+2718659 | Msa0344230:CDS |
| TCTCTATTTGGAATCGTGTT+AGG | 0.358426 | 3_1:+2718635 | Msa0344230:CDS |
| AGGTCTAATTCCTATTACTT+TGG | 0.388074 | 3_1:+2718655 | Msa0344230:CDS |
| GGTAATATCTATCCTTCAAT+AGG | 0.390367 | 3_1:-2718571 | None:intergenic |
| ATCATTTGAGTTTGGTTGAA+AGG | 0.406278 | 3_1:-2718605 | None:intergenic |
| GAATCTCAATGACCAAGAAT+TGG | 0.414372 | 3_1:-2718532 | None:intergenic |
| AATTGGCAATTGACATGATA+AGG | 0.448909 | 3_1:-2718515 | None:intergenic |
| TTCTTGGTCATTGAGATTCA+CGG | 0.471290 | 3_1:+2718536 | Msa0344230:CDS |
| TCAATACAGATTCCTATTGA+AGG | 0.532626 | 3_1:+2718559 | Msa0344230:CDS |
| ATATCGACGTGGTGATCAGT+TGG | 0.572503 | 3_1:+2718706 | Msa0344230:CDS |
| TTTGGCTGGATTATTTGTAA+CGG | 0.592623 | 3_1:+2718673 | Msa0344230:CDS |
| GCATATTTACAATATCGACG+TGG | 0.789819 | 3_1:+2718695 | Msa0344230:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAATAAAAATATAGTTACAT+AGG | - | chr3_1:2718180-2718199 | None:intergenic | 10.0% |
| !!! | TTTATTTTTGAGATAAAAAT+AGG | - | chr3_1:2718279-2718298 | None:intergenic | 10.0% |
| !!! | ATTTTTATCTCAAAAATAAA+TGG | + | chr3_1:2718279-2718298 | Msa0344230:intron | 10.0% |
| !! | GATTCATGAATCAATTATTA+CGG | - | chr3_1:2718211-2718230 | None:intergenic | 20.0% |
| !! | TCAAAAATAAATGGAAACTT+AGG | + | chr3_1:2718288-2718307 | Msa0344230:intron | 20.0% |
| !!! | TTGAGATGAATTGTAAATTT+TGG | + | chr3_1:2718469-2718488 | Msa0344230:intron | 20.0% |
| ! | TTTCAATTGTATCTTTCAAG+TGG | + | chr3_1:2718236-2718255 | Msa0344230:intron | 25.0% |
| !!! | ATCTTTCAAGTGGTATTTTT+TGG | + | chr3_1:2718246-2718265 | Msa0344230:intron | 25.0% |
| !! | AAACTTCAATCATTTGAGTT+TGG | - | chr3_1:2718616-2718635 | None:intergenic | 25.0% |
| ! | ATGATTGAAGTTTCTCTATT+TGG | + | chr3_1:2718623-2718642 | Msa0344230:CDS | 25.0% |
| TAGTAGAAAACCGAAATAAC+TGG | - | chr3_1:2718380-2718399 | None:intergenic | 30.0% | |
| AATTGGCAATTGACATGATA+AGG | - | chr3_1:2718518-2718537 | None:intergenic | 30.0% | |
| TCAATACAGATTCCTATTGA+AGG | + | chr3_1:2718559-2718578 | Msa0344230:CDS | 30.0% | |
| GGTAATATCTATCCTTCAAT+AGG | - | chr3_1:2718574-2718593 | None:intergenic | 30.0% | |
| TGGTTGAAAGGAAAAAAAGT+GGG | - | chr3_1:2718596-2718615 | None:intergenic | 30.0% | |
| TTGGTTGAAAGGAAAAAAAG+TGG | - | chr3_1:2718597-2718616 | None:intergenic | 30.0% | |
| ! | ATCATTTGAGTTTGGTTGAA+AGG | - | chr3_1:2718608-2718627 | None:intergenic | 30.0% |
| AGGTCTAATTCCTATTACTT+TGG | + | chr3_1:2718655-2718674 | Msa0344230:CDS | 30.0% | |
| AATAATCCAGCCAAAGTAAT+AGG | - | chr3_1:2718668-2718687 | None:intergenic | 30.0% | |
| TTTGGCTGGATTATTTGTAA+CGG | + | chr3_1:2718673-2718692 | Msa0344230:CDS | 30.0% | |
| CCGAAATAACTGGTTATAGT+GGG | - | chr3_1:2718370-2718389 | None:intergenic | 35.0% | |
| CCCACTATAACCAGTTATTT+CGG | + | chr3_1:2718367-2718386 | Msa0344230:intron | 35.0% | |
| ACCGAAATAACTGGTTATAG+TGG | - | chr3_1:2718371-2718390 | None:intergenic | 35.0% | |
| !! | AGCAGTTTTAACAATAACCG+CGG | + | chr3_1:2718399-2718418 | Msa0344230:intron | 35.0% |
| TCATGTCAATTGCCAATTCT+TGG | + | chr3_1:2718520-2718539 | Msa0344230:CDS | 35.0% | |
| GAATCTCAATGACCAAGAAT+TGG | - | chr3_1:2718535-2718554 | None:intergenic | 35.0% | |
| TTCTTGGTCATTGAGATTCA+CGG | + | chr3_1:2718536-2718555 | Msa0344230:CDS | 35.0% | |
| GGTTGAAAGGAAAAAAAGTG+GGG | - | chr3_1:2718595-2718614 | None:intergenic | 35.0% | |
| ! | TCTCTATTTGGAATCGTGTT+AGG | + | chr3_1:2718635-2718654 | Msa0344230:CDS | 35.0% |
| CTAATTCCTATTACTTTGGC+TGG | + | chr3_1:2718659-2718678 | Msa0344230:CDS | 35.0% | |
| GCATATTTACAATATCGACG+TGG | + | chr3_1:2718695-2718714 | Msa0344230:CDS | 35.0% | |
| !! | AACTGGTTATAGTGGGCATA+AGG | - | chr3_1:2718363-2718382 | None:intergenic | 40.0% |
| !! | GCAGTTTTAACAATAACCGC+GGG | + | chr3_1:2718400-2718419 | Msa0344230:intron | 40.0% |
| CAGACTAATAAAAAGACCCG+CGG | - | chr3_1:2718419-2718438 | None:intergenic | 40.0% | |
| ATATCGACGTGGTGATCAGT+TGG | + | chr3_1:2718706-2718725 | Msa0344230:CDS | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 2718141 | 2718736 | 2718141 | ID=Msa0344230;Name=Msa0344230 |
| chr3_1 | mRNA | 2718141 | 2718736 | 2718141 | ID=Msa0344230-mRNA-1;Parent=Msa0344230;Name=Msa0344230-mRNA-1;_AED=0.40;_eAED=0.47;_QI=0|0|0|0.5|1|1|2|0|75 |
| chr3_1 | exon | 2718141 | 2718144 | 2718141 | ID=Msa0344230-mRNA-1:exon:855;Parent=Msa0344230-mRNA-1 |
| chr3_1 | exon | 2718513 | 2718736 | 2718513 | ID=Msa0344230-mRNA-1:exon:856;Parent=Msa0344230-mRNA-1 |
| chr3_1 | CDS | 2718141 | 2718144 | 2718141 | ID=Msa0344230-mRNA-1:cds;Parent=Msa0344230-mRNA-1 |
| chr3_1 | CDS | 2718513 | 2718736 | 2718513 | ID=Msa0344230-mRNA-1:cds;Parent=Msa0344230-mRNA-1 |
| Gene Sequence |
| Protein sequence |
