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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0883050 | TXG50509.1 | 81.481 | 54 | 10 | 0 | 9 | 62 | 281 | 334 | 1.85e-22 | 97.8 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0883050 | sp|Q9ZNX6|GSH1_MEDTR | 79.245 | 53 | 11 | 0 | 10 | 62 | 456 | 508 | 1.01e-23 | 94.7 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0883050 | A0A5C7H101 | 81.481 | 54 | 10 | 0 | 9 | 62 | 281 | 334 | 8.84e-23 | 97.8 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0883050 | Msa0889340 | 0.826891 | 2.115348e-54 | -8.615850e-47 |
| Msa0883050 | Msa1092010 | 0.800609 | 1.330330e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0883050 | MtrunA17_Chr8g0386791 | 79.245 | 53 | 11 | 0 | 10 | 62 | 456 | 508 | 7.46e-25 | 94.7 |
| Msa0883050 | MtrunA17_Chr5g0397441 | 50.000 | 56 | 28 | 0 | 7 | 62 | 110 | 165 | 8.63e-14 | 61.6 |
| Msa0883050 | MtrunA17_Chr5g0397471 | 51.786 | 56 | 27 | 0 | 7 | 62 | 457 | 512 | 9.41e-14 | 63.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0883050 | AT4G23100.3 | 67.925 | 53 | 17 | 0 | 10 | 62 | 470 | 522 | 4.71e-20 | 81.6 |
| Msa0883050 | AT4G23100.1 | 67.925 | 53 | 17 | 0 | 10 | 62 | 470 | 522 | 4.71e-20 | 81.6 |
Find 20 sgRNAs with CRISPR-Local
Find 41 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CACTCCAGCTGAGGGGCTTT+TGG | 0.163907 | 6_1:+33385705 | Msa0883050:CDS |
| TATGAGGAATTGCTTTATTA+AGG | 0.225114 | 6_1:+33385769 | Msa0883050:CDS |
| TGCTTTATTAAGGTGTATTA+AGG | 0.230016 | 6_1:+33385779 | Msa0883050:exon |
| GCAGCTGAGGTGGCAAGAAC+AGG | 0.441440 | 6_1:+33385326 | Msa0883050:CDS |
| CATCCTGTAGATATTGTTGA+TGG | 0.469342 | 6_1:-33385259 | None:intergenic |
| ATCTATTGATCATGTATATG+AGG | 0.482675 | 6_1:+33385753 | Msa0883050:CDS |
| ACAATATCTACAGGATGGCT+TGG | 0.487073 | 6_1:+33385265 | Msa0883050:CDS |
| AATTCCAAAAGCCCCTCAGC+TGG | 0.499718 | 6_1:-33385709 | None:intergenic |
| GTAGGTGTCACTCCAGCTGA+GGG | 0.509698 | 6_1:+33385697 | Msa0883050:intron |
| CTTCCATCAACAATATCTAC+AGG | 0.513588 | 6_1:+33385256 | Msa0883050:CDS |
| AAACCTAGGCTATGTAGTCC+TGG | 0.514665 | 6_1:+33385842 | Msa0883050:three_prime_UTR |
| ATCTAAAAGCAGACATAACC+AGG | 0.527432 | 6_1:-33385860 | None:intergenic |
| GGTAGGTGTCACTCCAGCTG+AGG | 0.530270 | 6_1:+33385696 | Msa0883050:intron |
| TGGAATTGTATCATGGAAAG+TGG | 0.536508 | 6_1:+33385725 | Msa0883050:CDS |
| TTTGAATATAGCAGCTGAGG+TGG | 0.561523 | 6_1:+33385316 | Msa0883050:CDS |
| CAGGATGGCTTGGAAAGAAG+AGG | 0.591818 | 6_1:+33385275 | Msa0883050:CDS |
| GTAGAATGTTTGTAAAACCT+AGG | 0.610753 | 6_1:+33385828 | Msa0883050:three_prime_UTR |
| CATCAACAATATCTACAGGA+TGG | 0.619449 | 6_1:+33385260 | Msa0883050:CDS |
| TAACCAGGACTACATAGCCT+AGG | 0.622368 | 6_1:-33385845 | None:intergenic |
| TAGGTGTCACTCCAGCTGAG+GGG | 0.697378 | 6_1:+33385698 | Msa0883050:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATATTTTATATTCATTAACC+TGG | + | chr6_1:33385361-33385380 | Msa0883050:intron | 15.0% |
| !! | ATAATTTCGATGTAAAAAAT+TGG | - | chr6_1:33385447-33385466 | None:intergenic | 15.0% |
| !! | AAAAATATATCGAAATTGCT+AGG | + | chr6_1:33385493-33385512 | Msa0883050:intron | 20.0% |
| !!! | AACATTTTATCTGTTTTCTT+TGG | + | chr6_1:33385649-33385668 | Msa0883050:intron | 20.0% |
| !!! | GTTTTTGAAGAAATGTAATA+AGG | + | chr6_1:33385906-33385925 | Msa0883050:three_prime_UTR | 20.0% |
| ! | TCCACAAATCATATTTCAAT+TGG | + | chr6_1:33385469-33385488 | Msa0883050:intron | 25.0% |
| ! | TCCAATTGAAATATGATTTG+TGG | - | chr6_1:33385473-33385492 | None:intergenic | 25.0% |
| ! | ACAATGCAAGTATAGAATTT+GGG | - | chr6_1:33385548-33385567 | None:intergenic | 25.0% |
| !!! | TAGCTGTTTTGGTAATAAAA+AGG | - | chr6_1:33385604-33385623 | None:intergenic | 25.0% |
| !! | GAGTCTAATATTTTATGTGA+TGG | + | chr6_1:33385675-33385694 | Msa0883050:intron | 25.0% |
| !! | CTAATATTTTATGTGATGGT+AGG | + | chr6_1:33385679-33385698 | Msa0883050:intron | 25.0% |
| ! | ATCTATTGATCATGTATATG+AGG | + | chr6_1:33385753-33385772 | Msa0883050:CDS | 25.0% |
| !! | TATGAGGAATTGCTTTATTA+AGG | + | chr6_1:33385769-33385788 | Msa0883050:CDS | 25.0% |
| !! | TGCTTTATTAAGGTGTATTA+AGG | + | chr6_1:33385779-33385798 | Msa0883050:exon | 25.0% |
| !!! | TATGTCTGCTTTTAGATATA+TGG | + | chr6_1:33385866-33385885 | Msa0883050:three_prime_UTR | 25.0% |
| ! | ATTTTTGAATATAGCAGCTG+AGG | + | chr6_1:33385313-33385332 | Msa0883050:CDS | 30.0% |
| CAATGCAAGTATAGAATTTG+GGG | - | chr6_1:33385547-33385566 | None:intergenic | 30.0% | |
| CACAATGCAAGTATAGAATT+TGG | - | chr6_1:33385549-33385568 | None:intergenic | 30.0% | |
| ! | AATGATTGCATTAGCTGTTT+TGG | - | chr6_1:33385615-33385634 | None:intergenic | 30.0% |
| GTAGAATGTTTGTAAAACCT+AGG | + | chr6_1:33385828-33385847 | Msa0883050:three_prime_UTR | 30.0% | |
| CTTCCATCAACAATATCTAC+AGG | + | chr6_1:33385256-33385275 | Msa0883050:CDS | 35.0% | |
| CATCCTGTAGATATTGTTGA+TGG | - | chr6_1:33385262-33385281 | None:intergenic | 35.0% | |
| CATCAACAATATCTACAGGA+TGG | + | chr6_1:33385260-33385279 | Msa0883050:CDS | 35.0% | |
| TGGAATTGTATCATGGAAAG+TGG | + | chr6_1:33385725-33385744 | Msa0883050:CDS | 35.0% | |
| AACATTCTACGCAAAAAGAG+TGG | - | chr6_1:33385818-33385837 | None:intergenic | 35.0% | |
| ATCTAAAAGCAGACATAACC+AGG | - | chr6_1:33385863-33385882 | None:intergenic | 35.0% | |
| ACAATATCTACAGGATGGCT+TGG | + | chr6_1:33385265-33385284 | Msa0883050:CDS | 40.0% | |
| TTTGAATATAGCAGCTGAGG+TGG | + | chr6_1:33385316-33385335 | Msa0883050:CDS | 40.0% | |
| GTCGAACGTTGTTCTTATTG+TGG | + | chr6_1:33385515-33385534 | Msa0883050:intron | 40.0% | |
| !!! | GGGCTTTTGGAATTGTATCA+TGG | + | chr6_1:33385718-33385737 | Msa0883050:CDS | 40.0% |
| TTCAATGTGAGAGCAGATCC+AGG | - | chr6_1:33385382-33385401 | None:intergenic | 45.0% | |
| AAACCTAGGCTATGTAGTCC+TGG | + | chr6_1:33385842-33385861 | Msa0883050:three_prime_UTR | 45.0% | |
| TAACCAGGACTACATAGCCT+AGG | - | chr6_1:33385848-33385867 | None:intergenic | 45.0% | |
| ! | CAGGATGGCTTGGAAAGAAG+AGG | + | chr6_1:33385275-33385294 | Msa0883050:CDS | 50.0% |
| GAGGTGGCAAGAACAGGTAA+TGG | + | chr6_1:33385332-33385351 | Msa0883050:intron | 50.0% | |
| AATTCCAAAAGCCCCTCAGC+TGG | - | chr6_1:33385712-33385731 | None:intergenic | 50.0% | |
| !! | GTAGGTGTCACTCCAGCTGA+GGG | + | chr6_1:33385697-33385716 | Msa0883050:intron | 55.0% |
| !! | TAGGTGTCACTCCAGCTGAG+GGG | + | chr6_1:33385698-33385717 | Msa0883050:intron | 55.0% |
| GCAGCTGAGGTGGCAAGAAC+AGG | + | chr6_1:33385326-33385345 | Msa0883050:CDS | 60.0% | |
| !! | GGTAGGTGTCACTCCAGCTG+AGG | + | chr6_1:33385696-33385715 | Msa0883050:intron | 60.0% |
| ! | CACTCCAGCTGAGGGGCTTT+TGG | + | chr6_1:33385705-33385724 | Msa0883050:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_1 | gene | 33385248 | 33385956 | 33385248 | ID=Msa0883050;Name=Msa0883050 |
| chr6_1 | mRNA | 33385248 | 33385956 | 33385248 | ID=Msa0883050-mRNA-1;Parent=Msa0883050;Name=Msa0883050-mRNA-1;_AED=0.04;_eAED=0.04;_QI=0|1|0.5|1|1|1|2|167|62 |
| chr6_1 | exon | 33385248 | 33385347 | 33385248 | ID=Msa0883050-mRNA-1:exon:8129;Parent=Msa0883050-mRNA-1 |
| chr6_1 | exon | 33385701 | 33385956 | 33385701 | ID=Msa0883050-mRNA-1:exon:8130;Parent=Msa0883050-mRNA-1 |
| chr6_1 | CDS | 33385248 | 33385347 | 33385248 | ID=Msa0883050-mRNA-1:cds;Parent=Msa0883050-mRNA-1 |
| chr6_1 | CDS | 33385701 | 33385789 | 33385701 | ID=Msa0883050-mRNA-1:cds;Parent=Msa0883050-mRNA-1 |
| chr6_1 | three_prime_UTR | 33385790 | 33385956 | 33385790 | ID=Msa0883050-mRNA-1:three_prime_utr;Parent=Msa0883050-mRNA-1 |
| Gene Sequence |
| Protein sequence |
