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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0882220 | KEH16541.1 | 78.947 | 114 | 24 | 0 | 1 | 114 | 1 | 114 | 5.76e-61 | 192 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0882220 | G7K0A2 | 78.947 | 114 | 24 | 0 | 1 | 114 | 1 | 114 | 2.75e-61 | 192 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0882220 | TF | B3 |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0882210 | Msa0882220 | 0.951340 | 2.512474e-109 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0882220 | MtrunA17_Chr5g0421921 | 78.947 | 114 | 24 | 0 | 1 | 114 | 1 | 114 | 5.30e-65 | 192 |
| Msa0882220 | MtrunA17_Chr5g0421731 | 78.947 | 114 | 24 | 0 | 1 | 114 | 1 | 114 | 5.30e-65 | 192 |
| Msa0882220 | MtrunA17_Chr5g0421851 | 78.947 | 114 | 24 | 0 | 1 | 114 | 76 | 189 | 2.64e-64 | 193 |
| Msa0882220 | MtrunA17_Chr3g0077421 | 45.614 | 114 | 59 | 2 | 2 | 112 | 87 | 200 | 1.55e-26 | 97.4 |
| Msa0882220 | MtrunA17_Chr3g0077441 | 45.614 | 114 | 59 | 2 | 2 | 112 | 87 | 200 | 1.55e-26 | 97.4 |
| Msa0882220 | MtrunA17_Chr5g0429931 | 46.226 | 106 | 56 | 1 | 8 | 112 | 141 | 246 | 1.42e-25 | 96.3 |
| Msa0882220 | MtrunA17_Chr3g0077431 | 40.708 | 113 | 65 | 1 | 2 | 112 | 87 | 199 | 3.50e-25 | 94.0 |
| Msa0882220 | MtrunA17_Chr3g0077451 | 40.708 | 113 | 65 | 1 | 2 | 112 | 126 | 238 | 1.02e-24 | 94.0 |
| Msa0882220 | MtrunA17_Chr3g0077411 | 42.241 | 116 | 59 | 1 | 5 | 112 | 406 | 521 | 4.13e-21 | 87.0 |
| Msa0882220 | MtrunA17_Chr3g0077411 | 37.255 | 102 | 62 | 2 | 2 | 102 | 143 | 243 | 5.00e-12 | 60.8 |
| Msa0882220 | MtrunA17_Chr3g0077361 | 40.367 | 109 | 64 | 1 | 5 | 112 | 397 | 505 | 1.09e-19 | 82.8 |
| Msa0882220 | MtrunA17_Chr3g0077361 | 39.583 | 96 | 57 | 1 | 8 | 102 | 165 | 260 | 2.98e-13 | 64.7 |
| 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 22 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAATGATAACTATCTGTGTC+AGG | 0.428925 | 6_1:-31157489 | Msa0882220:CDS |
| GAAAAGTTTCGTACGAATGA+TGG | 0.454090 | 6_1:-31157545 | Msa0882220:CDS |
| ATTATGACATTTAGAACCAC+TGG | 0.459360 | 6_1:+31157431 | None:intergenic |
| AATGGCAGAAAGTGCAAGAA+TGG | 0.476083 | 6_1:-31157810 | Msa0882220:CDS |
| ATACTGCTCCGAAATTCTGA+TGG | 0.547080 | 6_1:-31157590 | Msa0882220:CDS |
| TGTGTCAGGGAGATTACTGT+GGG | 0.559789 | 6_1:-31157475 | Msa0882220:CDS |
| CTGTGTCAGGGAGATTACTG+TGG | 0.560112 | 6_1:-31157476 | Msa0882220:CDS |
| GAAATTCTGATGGAAAAGAG+TGG | 0.586034 | 6_1:-31157580 | Msa0882220:CDS |
| AATGATAACTATCTGTGTCA+GGG | 0.592595 | 6_1:-31157488 | Msa0882220:CDS |
| AGAAAGTGCAAGAATGGCTG+CGG | 0.611130 | 6_1:-31157804 | Msa0882220:CDS |
| AAATTCTGATGGAAAAGAGT+GGG | 0.611424 | 6_1:-31157579 | Msa0882220:CDS |
| TTTATAGCAAAAGTCACTAG+GGG | 0.648357 | 6_1:-31157755 | Msa0882220:CDS |
| ATTGATTGAGACAAATCCAG+TGG | 0.656775 | 6_1:-31157447 | Msa0882220:CDS |
| AAAAGAGTGGGAAGTTTATG+CGG | 0.671676 | 6_1:-31157567 | Msa0882220:CDS |
| AGTCACTAGGGGAAATAATG+CGG | 0.682062 | 6_1:-31157744 | Msa0882220:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATTTTCAACAGCTAAGAAAA+TGG | - | chr6_1:31157422-31157441 | Msa0882220:CDS | 25.0% |
| !! | ATTTTATAGCAAAAGTCACT+AGG | - | chr6_1:31157493-31157512 | Msa0882220:CDS | 25.0% |
| !! | TTTTATAGCAAAAGTCACTA+GGG | - | chr6_1:31157494-31157513 | Msa0882220:CDS | 25.0% |
| !! | TAGAATCATTTTCTTTCAGA+TGG | + | chr6_1:31157641-31157660 | None:intergenic | 25.0% |
| !! | GTGACTTTTGCTATAAAATG+TGG | + | chr6_1:31157492-31157511 | None:intergenic | 30.0% |
| TTTATAGCAAAAGTCACTAG+GGG | - | chr6_1:31157495-31157514 | Msa0882220:CDS | 30.0% | |
| AGCATCAACATACTACAAAA+TGG | + | chr6_1:31157604-31157623 | None:intergenic | 30.0% | |
| ! | ACTCTTTTCCATCAGAATTT+CGG | + | chr6_1:31157671-31157690 | None:intergenic | 30.0% |
| AAATTCTGATGGAAAAGAGT+GGG | - | chr6_1:31157671-31157690 | Msa0882220:intron | 30.0% | |
| AAATGATAACTATCTGTGTC+AGG | - | chr6_1:31157761-31157780 | Msa0882220:CDS | 30.0% | |
| AATGATAACTATCTGTGTCA+GGG | - | chr6_1:31157762-31157781 | Msa0882220:CDS | 30.0% | |
| ! | ATTATGACATTTAGAACCAC+TGG | + | chr6_1:31157822-31157841 | None:intergenic | 30.0% |
| GAAATTCTGATGGAAAAGAG+TGG | - | chr6_1:31157670-31157689 | Msa0882220:intron | 35.0% | |
| AAAAGAGTGGGAAGTTTATG+CGG | - | chr6_1:31157683-31157702 | Msa0882220:intron | 35.0% | |
| GAAAAGTTTCGTACGAATGA+TGG | - | chr6_1:31157705-31157724 | Msa0882220:intron | 35.0% | |
| ATTGATTGAGACAAATCCAG+TGG | - | chr6_1:31157803-31157822 | Msa0882220:CDS | 35.0% | |
| ! | AATGGCAGAAAGTGCAAGAA+TGG | - | chr6_1:31157440-31157459 | Msa0882220:CDS | 40.0% |
| AGTCACTAGGGGAAATAATG+CGG | - | chr6_1:31157506-31157525 | Msa0882220:CDS | 40.0% | |
| ATACTGCTCCGAAATTCTGA+TGG | - | chr6_1:31157660-31157679 | Msa0882220:intron | 40.0% | |
| ! | AGAAAGTGCAAGAATGGCTG+CGG | - | chr6_1:31157446-31157465 | Msa0882220:CDS | 45.0% |
| TGTGTCAGGGAGATTACTGT+GGG | - | chr6_1:31157775-31157794 | Msa0882220:CDS | 45.0% | |
| CTGTGTCAGGGAGATTACTG+TGG | - | chr6_1:31157774-31157793 | Msa0882220:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_1 | gene | 31157403 | 31157869 | 31157403 | ID=Msa0882220;Name=Msa0882220 |
| chr6_1 | mRNA | 31157403 | 31157869 | 31157403 | ID=Msa0882220-mRNA-1;Parent=Msa0882220;Name=Msa0882220-mRNA-1;_AED=0.30;_eAED=0.30;_QI=38|1|0.5|1|1|1|2|0|114 |
| chr6_1 | exon | 31157403 | 31157660 | 31157403 | ID=Msa0882220-mRNA-1:exon:7725;Parent=Msa0882220-mRNA-1 |
| chr6_1 | exon | 31157745 | 31157869 | 31157745 | ID=Msa0882220-mRNA-1:exon:7724;Parent=Msa0882220-mRNA-1 |
| chr6_1 | five_prime_UTR | 31157832 | 31157869 | 31157832 | ID=Msa0882220-mRNA-1:five_prime_utr;Parent=Msa0882220-mRNA-1 |
| chr6_1 | CDS | 31157745 | 31157831 | 31157745 | ID=Msa0882220-mRNA-1:cds;Parent=Msa0882220-mRNA-1 |
| chr6_1 | CDS | 31157403 | 31157660 | 31157403 | ID=Msa0882220-mRNA-1:cds;Parent=Msa0882220-mRNA-1 |
| Gene Sequence |
| Protein sequence |
