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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0523140 | PNX75878.1 | 70.968 | 93 | 24 | 1 | 1 | 93 | 1 | 90 | 4.03e-33 | 120 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0523140 | A0A2K3LBG3 | 70.968 | 93 | 24 | 1 | 1 | 93 | 1 | 90 | 1.92e-33 | 120 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000610 | Msa0523140 | 0.864399 | 1.250260e-64 | -8.615850e-47 |
| Msa0002110 | Msa0523140 | 0.815492 | 8.992604e-52 | -8.615850e-47 |
| Msa0002690 | Msa0523140 | 0.805575 | 1.249298e-49 | -8.615850e-47 |
| Msa0002700 | Msa0523140 | 0.816140 | 6.448407e-52 | -8.615850e-47 |
| Msa0005500 | Msa0523140 | 0.845043 | 5.194584e-59 | -8.615850e-47 |
| Msa0007810 | Msa0523140 | 0.857975 | 1.131316e-62 | -8.615850e-47 |
| Msa0011060 | Msa0523140 | 0.844103 | 9.298380e-59 | -8.615850e-47 |
| Msa0011100 | Msa0523140 | 0.840137 | 1.042109e-57 | -8.615850e-47 |
| Msa0011410 | Msa0523140 | 0.813377 | 2.640136e-51 | -8.615850e-47 |
| Msa0011440 | Msa0523140 | 0.808614 | 2.840884e-50 | -8.615850e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0523140 | MtrunA17_Chr3g0142671 | 79.412 | 34 | 7 | 0 | 1 | 34 | 1 | 34 | 1.21e-11 | 55.8 |
Find 47 sgRNAs with CRISPR-Local
Find 130 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AATTTATGTTGAATCGTTTG+TGG | 0.447176 | 3_4:+76478674 | Msa0523140:three_prime_UTR |
| ACAAACGATTCAACATAAAT+TGG | 0.238695 | 3_4:-76478672 | None:intergenic |
| ACGGCCGCGCCTCTGCCACA+GGG | 0.616011 | 3_4:+76478375 | Msa0523140:CDS |
| AGCAAGTTCCACATGCCCTG+TGG | 0.700479 | 3_4:-76478390 | None:intergenic |
| AGCATGAACAAGATGGAGAA+TGG | 0.540714 | 3_4:-76477748 | None:intergenic |
| AGTTGCATTGCATGAGTTGG+TGG | 0.565582 | 3_4:-76478546 | None:intergenic |
| ATAAGTTGCATTGCATGAGT+TGG | 0.582143 | 3_4:-76478549 | None:intergenic |
| ATATAAATTTCAGATTGCAA+TGG | 0.566444 | 3_4:+76478322 | Msa0523140:intron |
| ATTCTACCTATGACGCATTA+TGG | 0.192228 | 3_4:-76478587 | None:intergenic |
| ATTGCTATAGCCATTAGCAA+TGG | 0.652040 | 3_4:+76477683 | Msa0523140:exon |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GCTATAGCAATTTAGAAAAG+AGG | - | chr3_4:76477674-76477693 | None:intergenic | 30.0% | |
| GATGATTCAACTCAATTCAA+GGG | - | chr3_4:76478513-76478532 | None:intergenic | 30.0% | |
| TGATGATTCAACTCAATTCA+AGG | - | chr3_4:76478514-76478533 | None:intergenic | 30.0% | |
| GAATAAAAAGTCTATGTGTG+TGG | + | chr3_4:76478606-76478625 | Msa0523140:three_prime_UTR | 30.0% | |
| GCTATAGCAATTTAGAAAAG+AGG | - | chr3_4:76477674-76477693 | None:intergenic | 30.0% | |
| GATGATTCAACTCAATTCAA+GGG | - | chr3_4:76478513-76478532 | None:intergenic | 30.0% | |
| TGATGATTCAACTCAATTCA+AGG | - | chr3_4:76478514-76478533 | None:intergenic | 30.0% | |
| GAATAAAAAGTCTATGTGTG+TGG | + | chr3_4:76478606-76478625 | Msa0523140:three_prime_UTR | 30.0% | |
| ATTGCTATAGCCATTAGCAA+TGG | + | chr3_4:76477683-76477702 | Msa0523140:exon | 35.0% | |
| TTAAAGAGAGCCATTGCTAA+TGG | - | chr3_4:76477696-76477715 | None:intergenic | 35.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_4 | gene | 76477640 | 76478812 | 76477640 | ID=Msa0523140;Name=Msa0523140 |
| chr3_4 | mRNA | 76477640 | 76478812 | 76477640 | ID=Msa0523140-mRNA-1;Parent=Msa0523140;Name=Msa0523140-mRNA-1;_AED=0.22;_eAED=0.22;_QI=62|0.5|0.66|1|0.5|0.66|3|286|93 |
| chr3_4 | exon | 76477640 | 76477782 | 76477640 | ID=Msa0523140-mRNA-1:exon:22154;Parent=Msa0523140-mRNA-1 |
| chr3_4 | exon | 76477894 | 76477902 | 76477894 | ID=Msa0523140-mRNA-1:exon:22155;Parent=Msa0523140-mRNA-1 |
| chr3_4 | exon | 76478335 | 76478812 | 76478335 | ID=Msa0523140-mRNA-1:exon:22156;Parent=Msa0523140-mRNA-1 |
| chr3_4 | five_prime_UTR | 76477640 | 76477701 | 76477640 | ID=Msa0523140-mRNA-1:five_prime_utr;Parent=Msa0523140-mRNA-1 |
| chr3_4 | CDS | 76477702 | 76477782 | 76477702 | ID=Msa0523140-mRNA-1:cds;Parent=Msa0523140-mRNA-1 |
| chr3_4 | CDS | 76477894 | 76477902 | 76477894 | ID=Msa0523140-mRNA-1:cds;Parent=Msa0523140-mRNA-1 |
| chr3_4 | CDS | 76478335 | 76478526 | 76478335 | ID=Msa0523140-mRNA-1:cds;Parent=Msa0523140-mRNA-1 |
| chr3_4 | three_prime_UTR | 76478527 | 76478812 | 76478527 | ID=Msa0523140-mRNA-1:three_prime_utr;Parent=Msa0523140-mRNA-1 |
| Gene Sequence |
>Msa0523140 ATGGCTCTCTTTAAGCTTTTAGTTACATCTCTTCTTGTAACTTTTGCCATTCTCCATCTTGTTCATGCTTTGGACCAGCCGGAACCGCATATTGCAATGGAGCATGTGCTGCTAGGTGCCGTTTATCATCACGGCCGCGCCTCTGCCACAGGGCATGTGGAACTTGCTGCAGTCGGTGCAACTGCGTGCCACCAGGAACTTCTGGTAACCAAGAAATGTGTCCCTGCTATGCCAACCAAACCACCCATGGAGGCAGACGCAAGTGCCCTTGAATTGAGTTGA |
| Protein sequence |
>Msa0523140 MALFKLLVTSLLVTFAILHLVHALDQPEPHIAMEHVLLGAVYHHGRASATGHVELAAVGATACHQELLVTKKCVPAMPTKPPMEADASALELS* |
