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 |
|---|
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0177340 | A0A396JZE0 | 98.095 | 105 | 2 | 0 | 1 | 105 | 16 | 120 | 7.49e-58 | 183 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0037200 | Msa0177340 | 0.921857 | 2.086472e-88 | -8.615850e-47 |
| Msa0092190 | Msa0177340 | 0.879306 | 1.387373e-69 | -8.615850e-47 |
| Msa0177300 | Msa0177340 | 0.988083 | 1.201613e-172 | -8.615850e-47 |
| Msa0177340 | Msa0256330 | 0.821020 | 5.041062e-53 | -8.615850e-47 |
| Msa0177340 | Msa0295330 | 0.821778 | 3.369752e-53 | -8.615850e-47 |
| Msa0177340 | Msa0389810 | 0.803161 | 3.977607e-49 | -8.615850e-47 |
| Msa0177340 | Msa0479090 | 0.810172 | 1.315389e-50 | -8.615850e-47 |
| Msa0177340 | Msa0553220 | -0.809702 | 1.660269e-50 | -8.615850e-47 |
| Msa0177340 | Msa0614990 | 0.800185 | 1.622692e-48 | -8.615850e-47 |
| Msa0177340 | Msa0670660 | 0.803498 | 3.387138e-49 | -8.615850e-47 |
| Msa0177340 | Msa0683140 | 0.801090 | 1.060770e-48 | -8.615850e-47 |
| Msa0177340 | Msa0793380 | 0.807558 | 4.766650e-50 | -8.615850e-47 |
| Msa0177340 | Msa0870150 | 0.811199 | 7.890701e-51 | -8.615850e-47 |
| Msa0177340 | Msa1234730 | 0.804401 | 2.199160e-49 | -8.615850e-47 |
| Msa0177340 | Msa1315110 | 0.804986 | 1.659597e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0177340 | MtrunA17_Chr1g0200311 | 98.095 | 105 | 2 | 0 | 1 | 105 | 16 | 120 | 1.44e-61 | 183 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0177340 | AT5G61660.1 | 60.714 | 56 | 21 | 1 | 1 | 56 | 13 | 67 | 2.71e-13 | 61.6 |
Find 59 sgRNAs with CRISPR-Local
Find 73 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTTCGGGCCACGGTCCAAAT+TGG | 0.259697 | 1_4:+64268108 | Msa0177340:CDS |
| TCTGGCTTTGGTAGAGGTTA+TGG | 0.264164 | 1_4:+64268203 | Msa0177340:CDS |
| AGTGGATGGGGTTACGGTTC+AGG | 0.271763 | 1_4:+64268164 | Msa0177340:CDS |
| AGAGGTTATGGCTATGGTTT+TGG | 0.272187 | 1_4:+64268215 | Msa0177340:CDS |
| GGTTCAGGACATTCTCCTTC+TGG | 0.275589 | 1_4:+64268185 | Msa0177340:CDS |
| TGGGGTTACGGTTCAGGTTC+AGG | 0.287425 | 1_4:+64268170 | Msa0177340:CDS |
| CTCCGAAGGTGACCGATTAT+TGG | 0.290144 | 1_4:-64268357 | None:intergenic |
| TCTGGATCCGGGTCTGGTTA+TGG | 0.298117 | 1_4:+64268251 | Msa0177340:CDS |
| ACCGGGTCTGGGTCTGGATC+CGG | 0.302126 | 1_4:+64268239 | Msa0177340:CDS |
| GCCACTGCTGGCTGCGGCCA+TGG | 0.313937 | 1_4:-64268036 | None:intergenic |
| CCCCAGCTATAGTCCCAATT+TGG | 0.314443 | 1_4:-64268122 | None:intergenic |
| TTTGGAACCGGGTCTGGGTC+TGG | 0.316778 | 1_4:+64268233 | Msa0177340:CDS |
| TCCGACAGGTGCAAGTGGTT+CGG | 0.329780 | 1_4:+64268091 | Msa0177340:CDS |
| GGACATTCTCCTTCTGGCTT+TGG | 0.332030 | 1_4:+64268191 | Msa0177340:CDS |
| CCGACAGGTGCAAGTGGTTC+GGG | 0.360896 | 1_4:+64268092 | Msa0177340:CDS |
| TCGGTCACCTTCGGAGTCTA+AGG | 0.368892 | 1_4:+64268364 | Msa0177340:CDS |
| GTCTGCACCAGGAAGTGGAT+GGG | 0.371552 | 1_4:+64268151 | Msa0177340:CDS |
| TCCGGGTCTGGTTATGGATA+TGG | 0.372940 | 1_4:+64268257 | Msa0177340:CDS |
| CCGTAACCCCATCCACTTCC+TGG | 0.374994 | 1_4:-64268158 | None:intergenic |
| GGTCTGCACCAGGAAGTGGA+TGG | 0.384555 | 1_4:+64268150 | Msa0177340:CDS |
| CCGGGTCTGGGTCTGGATCC+GGG | 0.384946 | 1_4:+64268240 | Msa0177340:CDS |
| TCTGGCAATTCAGGCGGTGG+AGG | 0.390126 | 1_4:+64268317 | Msa0177340:intron |
| TGGGACTATAGCTGGGGATG+GGG | 0.391784 | 1_4:+64268128 | Msa0177340:CDS |
| TAGCTTTCTTCCGCCACTGC+TGG | 0.402255 | 1_4:-64268048 | None:intergenic |
| TCTGGGTCTGGATCCGGGTC+TGG | 0.404022 | 1_4:+64268245 | Msa0177340:CDS |
| TTCGGGCCACGGTCCAAATT+GGG | 0.409857 | 1_4:+64268109 | Msa0177340:CDS |
| TCTCCTTCTGGCTTTGGTAG+AGG | 0.416778 | 1_4:+64268197 | Msa0177340:CDS |
| CCAGGAAGTGGATGGGGTTA+CGG | 0.422757 | 1_4:+64268158 | Msa0177340:CDS |
| TTTGGTAGAGGTTATGGCTA+TGG | 0.433764 | 1_4:+64268209 | Msa0177340:CDS |
| GTCCAAATTGGGACTATAGC+TGG | 0.434287 | 1_4:+64268120 | Msa0177340:CDS |
| GGGACTATAGCTGGGGATGG+GGG | 0.436504 | 1_4:+64268129 | Msa0177340:CDS |
| GGCGGTGGAGGGCATGGTGG+TGG | 0.444613 | 1_4:+64268329 | Msa0177340:intron |
| AATTCAGGCGGTGGAGGGCA+TGG | 0.452407 | 1_4:+64268323 | Msa0177340:intron |
| TTTAATTACTCATGGTTGGT+TGG | 0.458788 | 1_4:-64268393 | None:intergenic |
| TCTTCCGCCACTGCTGGCTG+CGG | 0.464894 | 1_4:-64268042 | None:intergenic |
| GGTGCAAGTGGTTCGGGCCA+CGG | 0.474288 | 1_4:+64268098 | Msa0177340:CDS |
| TCCAAATTGGGACTATAGCT+GGG | 0.483029 | 1_4:+64268121 | Msa0177340:CDS |
| AACCAATAATCGGTCACCTT+CGG | 0.485230 | 1_4:+64268355 | Msa0177340:CDS |
| TTAATTTAATTACTCATGGT+TGG | 0.488357 | 1_4:-64268397 | None:intergenic |
| TTGGGACTATAGCTGGGGAT+GGG | 0.492750 | 1_4:+64268127 | Msa0177340:CDS |
| CTGGCAATTCAGGCGGTGGA+GGG | 0.495997 | 1_4:+64268318 | Msa0177340:intron |
| TCCATGGCCGCAGCCAGCAG+TGG | 0.511233 | 1_4:+64268035 | None:intergenic |
| ATGGCCGCAGCCAGCAGTGG+CGG | 0.520646 | 1_4:+64268038 | Msa0177340:CDS |
| GCAAGCGGTGGTTCTCCGAC+AGG | 0.530173 | 1_4:+64268077 | Msa0177340:CDS |
| GTGGTGGTAGAACCAATAAT+CGG | 0.540663 | 1_4:+64268345 | Msa0177340:CDS |
| TCTGCACCAGGAAGTGGATG+GGG | 0.554469 | 1_4:+64268152 | Msa0177340:CDS |
| CGGTCACCTTCGGAGTCTAA+GGG | 0.558343 | 1_4:+64268365 | Msa0177340:CDS |
| CCCGGATCCAGACCCAGACC+CGG | 0.567752 | 1_4:-64268240 | None:intergenic |
| ATTGGGACTATAGCTGGGGA+TGG | 0.573906 | 1_4:+64268126 | Msa0177340:CDS |
| CCCGAACCACTTGCACCTGT+CGG | 0.592937 | 1_4:-64268092 | None:intergenic |
| TCAGGCGGTGGAGGGCATGG+TGG | 0.594015 | 1_4:+64268326 | Msa0177340:intron |
| AAGCTAGACACGGCAAGCGG+TGG | 0.607144 | 1_4:+64268065 | Msa0177340:CDS |
| GGTTCTCCGACAGGTGCAAG+TGG | 0.627044 | 1_4:+64268086 | Msa0177340:CDS |
| ACCATATCCATAACCAGACC+CGG | 0.634754 | 1_4:-64268258 | None:intergenic |
| CCAAATTGGGACTATAGCTG+GGG | 0.653928 | 1_4:+64268122 | Msa0177340:CDS |
| TAACCTCTACCAAAGCCAGA+AGG | 0.659441 | 1_4:-64268200 | None:intergenic |
| TATAGTCCCAATTTGGACCG+TGG | 0.667912 | 1_4:-64268115 | None:intergenic |
| AGAAAGCTAGACACGGCAAG+CGG | 0.701647 | 1_4:+64268062 | Msa0177340:CDS |
| TGGCGGAAGAAAGCTAGACA+CGG | 0.719665 | 1_4:+64268055 | Msa0177340:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TCCAAATTGGGACTATAGCT+GGG | + | chr1_4:64268121-64268140 | Msa0177340:CDS | 40.0% | |
| TTTGGTAGAGGTTATGGCTA+TGG | + | chr1_4:64268209-64268228 | Msa0177340:CDS | 40.0% | |
| ! | AGAGGTTATGGCTATGGTTT+TGG | + | chr1_4:64268215-64268234 | Msa0177340:CDS | 40.0% |
| !!! | TATGGCTATGGTTTTGGAAC+CGG | + | chr1_4:64268221-64268240 | Msa0177340:CDS | 40.0% |
| TCTGGTTATGGATATGGTAG+TGG | + | chr1_4:64268263-64268282 | Msa0177340:intron | 40.0% | |
| GTGGTGGTAGAACCAATAAT+CGG | + | chr1_4:64268345-64268364 | Msa0177340:CDS | 40.0% | |
| AACCAATAATCGGTCACCTT+CGG | + | chr1_4:64268355-64268374 | Msa0177340:CDS | 40.0% | |
| TATAGTCCCAATTTGGACCG+TGG | - | chr1_4:64268118-64268137 | None:intergenic | 45.0% | |
| GTCCAAATTGGGACTATAGC+TGG | + | chr1_4:64268120-64268139 | Msa0177340:CDS | 45.0% | |
| CCAAATTGGGACTATAGCTG+GGG | + | chr1_4:64268122-64268141 | Msa0177340:CDS | 45.0% | |
| TAACCTCTACCAAAGCCAGA+AGG | - | chr1_4:64268203-64268222 | None:intergenic | 45.0% | |
| !! | TCTGGCTTTGGTAGAGGTTA+TGG | + | chr1_4:64268203-64268222 | Msa0177340:CDS | 45.0% |
| !!! | ATGGCTATGGTTTTGGAACC+GGG | + | chr1_4:64268222-64268241 | Msa0177340:CDS | 45.0% |
| ACCATATCCATAACCAGACC+CGG | - | chr1_4:64268261-64268280 | None:intergenic | 45.0% | |
| !! | GGTTATGGATATGGTAGTGG+TGG | + | chr1_4:64268266-64268285 | Msa0177340:intron | 45.0% |
| ! | GTTTTACCCTTAGACTCCGA+AGG | - | chr1_4:64268374-64268393 | None:intergenic | 45.0% |
| TGGCGGAAGAAAGCTAGACA+CGG | + | chr1_4:64268055-64268074 | Msa0177340:CDS | 50.0% | |
| AGAAAGCTAGACACGGCAAG+CGG | + | chr1_4:64268062-64268081 | Msa0177340:CDS | 50.0% | |
| CCCCAGCTATAGTCCCAATT+TGG | - | chr1_4:64268125-64268144 | None:intergenic | 50.0% | |
| ATTGGGACTATAGCTGGGGA+TGG | + | chr1_4:64268126-64268145 | Msa0177340:CDS | 50.0% | |
| TTGGGACTATAGCTGGGGAT+GGG | + | chr1_4:64268127-64268146 | Msa0177340:CDS | 50.0% | |
| GGTTCAGGACATTCTCCTTC+TGG | + | chr1_4:64268185-64268204 | Msa0177340:CDS | 50.0% | |
| !! | GGACATTCTCCTTCTGGCTT+TGG | + | chr1_4:64268191-64268210 | Msa0177340:CDS | 50.0% |
| !! | TCTCCTTCTGGCTTTGGTAG+AGG | + | chr1_4:64268197-64268216 | Msa0177340:CDS | 50.0% |
| !!! | TATGGTTTTGGAACCGGGTC+TGG | + | chr1_4:64268227-64268246 | Msa0177340:CDS | 50.0% |
| !!! | ATGGTTTTGGAACCGGGTCT+GGG | + | chr1_4:64268228-64268247 | Msa0177340:CDS | 50.0% |
| TCCGGGTCTGGTTATGGATA+TGG | + | chr1_4:64268257-64268276 | Msa0177340:CDS | 50.0% | |
| !! | TATGGTAGTGGTGGTGCTCA+TGG | + | chr1_4:64268275-64268294 | Msa0177340:intron | 50.0% |
| !! | CATGGTGGTGGTTATGGAAG+TGG | + | chr1_4:64268293-64268312 | Msa0177340:intron | 50.0% |
| GGTGGTTATGGAAGTGGTTC+TGG | + | chr1_4:64268299-64268318 | Msa0177340:intron | 50.0% | |
| !! | GGAAGTGGTTCTGGCAATTC+AGG | + | chr1_4:64268308-64268327 | Msa0177340:intron | 50.0% |
| !! | AGTGGTTCTGGCAATTCAGG+CGG | + | chr1_4:64268311-64268330 | Msa0177340:intron | 50.0% |
| CTCCGAAGGTGACCGATTAT+TGG | - | chr1_4:64268360-64268379 | None:intergenic | 50.0% | |
| TAGCTTTCTTCCGCCACTGC+TGG | - | chr1_4:64268051-64268070 | None:intergenic | 55.0% | |
| TCCGACAGGTGCAAGTGGTT+CGG | + | chr1_4:64268091-64268110 | Msa0177340:CDS | 55.0% | |
| TTCGGGCCACGGTCCAAATT+GGG | + | chr1_4:64268109-64268128 | Msa0177340:CDS | 55.0% | |
| TGGGACTATAGCTGGGGATG+GGG | + | chr1_4:64268128-64268147 | Msa0177340:CDS | 55.0% | |
| GTCTGCACCAGGAAGTGGAT+GGG | + | chr1_4:64268151-64268170 | Msa0177340:CDS | 55.0% | |
| TCTGCACCAGGAAGTGGATG+GGG | + | chr1_4:64268152-64268171 | Msa0177340:CDS | 55.0% | |
| CCAGGAAGTGGATGGGGTTA+CGG | + | chr1_4:64268158-64268177 | Msa0177340:CDS | 55.0% | |
| AGTGGATGGGGTTACGGTTC+AGG | + | chr1_4:64268164-64268183 | Msa0177340:CDS | 55.0% | |
| ! | TGGGGTTACGGTTCAGGTTC+AGG | + | chr1_4:64268170-64268189 | Msa0177340:CDS | 55.0% |
| TCTGGATCCGGGTCTGGTTA+TGG | + | chr1_4:64268251-64268270 | Msa0177340:CDS | 55.0% | |
| !! | GGTGCTCATGGTGGTGGTTA+TGG | + | chr1_4:64268287-64268306 | Msa0177340:intron | 55.0% |
| TCGGTCACCTTCGGAGTCTA+AGG | + | chr1_4:64268364-64268383 | Msa0177340:CDS | 55.0% | |
| CGGTCACCTTCGGAGTCTAA+GGG | + | chr1_4:64268365-64268384 | Msa0177340:CDS | 55.0% | |
| AAGCTAGACACGGCAAGCGG+TGG | + | chr1_4:64268065-64268084 | Msa0177340:CDS | 60.0% | |
| GGTTCTCCGACAGGTGCAAG+TGG | + | chr1_4:64268086-64268105 | Msa0177340:CDS | 60.0% | |
| CCCGAACCACTTGCACCTGT+CGG | - | chr1_4:64268095-64268114 | None:intergenic | 60.0% | |
| CCGACAGGTGCAAGTGGTTC+GGG | + | chr1_4:64268092-64268111 | Msa0177340:CDS | 60.0% | |
| GTTCGGGCCACGGTCCAAAT+TGG | + | chr1_4:64268108-64268127 | Msa0177340:CDS | 60.0% | |
| GGGACTATAGCTGGGGATGG+GGG | + | chr1_4:64268129-64268148 | Msa0177340:CDS | 60.0% | |
| GGTCTGCACCAGGAAGTGGA+TGG | + | chr1_4:64268150-64268169 | Msa0177340:CDS | 60.0% | |
| CCGTAACCCCATCCACTTCC+TGG | - | chr1_4:64268161-64268180 | None:intergenic | 60.0% | |
| ! | TTTGGAACCGGGTCTGGGTC+TGG | + | chr1_4:64268233-64268252 | Msa0177340:CDS | 60.0% |
| ! | GGTAGTGGTGGTGCTCATGG+TGG | + | chr1_4:64268278-64268297 | Msa0177340:intron | 60.0% |
| ! | AGTGGTGGTGCTCATGGTGG+TGG | + | chr1_4:64268281-64268300 | Msa0177340:intron | 60.0% |
| ! | GGTTCTGGCAATTCAGGCGG+TGG | + | chr1_4:64268314-64268333 | Msa0177340:intron | 60.0% |
| TCTGGCAATTCAGGCGGTGG+AGG | + | chr1_4:64268317-64268336 | Msa0177340:intron | 60.0% | |
| CTGGCAATTCAGGCGGTGGA+GGG | + | chr1_4:64268318-64268337 | Msa0177340:intron | 60.0% | |
| AATTCAGGCGGTGGAGGGCA+TGG | + | chr1_4:64268323-64268342 | Msa0177340:intron | 60.0% | |
| ! | TCTTCCGCCACTGCTGGCTG+CGG | - | chr1_4:64268045-64268064 | None:intergenic | 65.0% |
| GCAAGCGGTGGTTCTCCGAC+AGG | + | chr1_4:64268077-64268096 | Msa0177340:CDS | 65.0% | |
| ! | GGTGCAAGTGGTTCGGGCCA+CGG | + | chr1_4:64268098-64268117 | Msa0177340:CDS | 65.0% |
| TGGGGGTCTGCACCAGGAAG+TGG | + | chr1_4:64268146-64268165 | Msa0177340:CDS | 65.0% | |
| ACCGGGTCTGGGTCTGGATC+CGG | + | chr1_4:64268239-64268258 | Msa0177340:CDS | 65.0% | |
| TCTGGGTCTGGATCCGGGTC+TGG | + | chr1_4:64268245-64268264 | Msa0177340:CDS | 65.0% | |
| ATGGCCGCAGCCAGCAGTGG+CGG | + | chr1_4:64268038-64268057 | Msa0177340:CDS | 70.0% | |
| TGGGGATGGGGGTCTGCACC+AGG | + | chr1_4:64268140-64268159 | Msa0177340:CDS | 70.0% | |
| CCCGGATCCAGACCCAGACC+CGG | - | chr1_4:64268243-64268262 | None:intergenic | 70.0% | |
| CCGGGTCTGGGTCTGGATCC+GGG | + | chr1_4:64268240-64268259 | Msa0177340:CDS | 70.0% | |
| ! | TCAGGCGGTGGAGGGCATGG+TGG | + | chr1_4:64268326-64268345 | Msa0177340:intron | 70.0% |
| ! | GGCGGTGGAGGGCATGGTGG+TGG | + | chr1_4:64268329-64268348 | Msa0177340:intron | 75.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_4 | gene | 64268038 | 64268406 | 64268038 | ID=Msa0177340;Name=Msa0177340 |
| chr1_4 | mRNA | 64268038 | 64268406 | 64268038 | ID=Msa0177340-mRNA-1;Parent=Msa0177340;Name=Msa0177340-mRNA-1;_AED=0.29;_eAED=0.29;_QI=0|0|0|1|0|0|2|0|105 |
| chr1_4 | exon | 64268038 | 64268278 | 64268038 | ID=Msa0177340-mRNA-1:exon:20888;Parent=Msa0177340-mRNA-1 |
| chr1_4 | exon | 64268330 | 64268406 | 64268330 | ID=Msa0177340-mRNA-1:exon:20889;Parent=Msa0177340-mRNA-1 |
| chr1_4 | CDS | 64268038 | 64268278 | 64268038 | ID=Msa0177340-mRNA-1:cds;Parent=Msa0177340-mRNA-1 |
| chr1_4 | CDS | 64268330 | 64268406 | 64268330 | ID=Msa0177340-mRNA-1:cds;Parent=Msa0177340-mRNA-1 |
| Gene Sequence |
| Protein sequence |
