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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0560070 | RHN62674.1 | 98.667 | 75 | 1 | 0 | 1 | 75 | 76 | 150 | 3.65e-44 | 150 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0560070 | A0A396IEI3 | 98.667 | 75 | 1 | 0 | 1 | 75 | 76 | 150 | 1.74e-44 | 150 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0036430 | Msa0560070 | 0.821020 | 5.041284e-53 | -8.615850e-47 |
| Msa0084500 | Msa0560070 | 0.814296 | 1.656473e-51 | -8.615850e-47 |
| Msa0110970 | Msa0560070 | 0.801257 | 9.804081e-49 | -8.615850e-47 |
| Msa0130570 | Msa0560070 | 0.827189 | 1.794908e-54 | -8.615850e-47 |
| Msa0176470 | Msa0560070 | 0.812783 | 3.563502e-51 | -8.615850e-47 |
| Msa0203030 | Msa0560070 | 0.818048 | 2.401417e-52 | -8.615850e-47 |
| Msa0219190 | Msa0560070 | 0.815650 | 8.293357e-52 | -8.615850e-47 |
| Msa0236110 | Msa0560070 | 0.805609 | 1.228851e-49 | -8.615850e-47 |
| Msa0273990 | Msa0560070 | 0.802722 | 4.901552e-49 | -8.615850e-47 |
| Msa0298240 | Msa0560070 | 0.814972 | 1.173272e-51 | -8.615850e-47 |
| Msa0308830 | Msa0560070 | 0.819718 | 1.002514e-52 | -8.615850e-47 |
| Msa0314630 | Msa0560070 | 0.807804 | 4.227063e-50 | -8.615850e-47 |
| Msa0317340 | Msa0560070 | 0.802931 | 4.438949e-49 | -8.615850e-47 |
| Msa0487570 | Msa0560070 | 0.803036 | 4.223108e-49 | -8.615850e-47 |
| Msa0520510 | Msa0560070 | 0.809433 | 1.896626e-50 | -8.615850e-47 |
| Msa0527550 | Msa0560070 | 0.802822 | 4.675762e-49 | -8.615850e-47 |
| Msa0535040 | Msa0560070 | 0.818970 | 1.484102e-52 | -8.615850e-47 |
| Msa0560070 | Msa0614120 | 0.833016 | 6.793843e-56 | -8.615850e-47 |
| Msa0560070 | Msa0697300 | 0.860495 | 1.985442e-63 | -8.615850e-47 |
| Msa0560070 | Msa0862100 | 0.821505 | 3.896611e-53 | -8.615850e-47 |
| Msa0560070 | Msa1033560 | 0.808033 | 3.777340e-50 | -8.615850e-47 |
| Msa0560070 | Msa1073340 | 0.816677 | 4.888458e-52 | -8.615850e-47 |
| Msa0560070 | Msa1113850 | 0.817694 | 2.888023e-52 | -8.615850e-47 |
| Msa0560070 | Msa1129980 | 0.804570 | 2.027135e-49 | -8.615850e-47 |
| Msa0560070 | Msa1139810 | 0.808894 | 2.474710e-50 | -8.615850e-47 |
| Msa0560070 | Msa1160400 | 0.803351 | 3.634407e-49 | -8.615850e-47 |
| Msa0560070 | Msa1420060 | 0.831567 | 1.551900e-55 | -8.615850e-47 |
| Msa0560070 | Msa1421550 | 0.819253 | 1.279573e-52 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0560070 | MtrunA17_Chr4g0049961 | 98.667 | 75 | 1 | 0 | 1 | 75 | 76 | 150 | 3.36e-48 | 150 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 24 sgRNAs with CRISPR-Local
Find 30 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCTGATTTGGGCAAAATTTC+AGG | 0.085844 | 4_1:+59319219 | Msa0560070:CDS |
| GACACAAACATTTCCTGATT+TGG | 0.225196 | 4_1:+59319206 | Msa0560070:CDS |
| GAAGTCAGGAATATTGAAAA+TGG | 0.251652 | 4_1:-59319301 | None:intergenic |
| ACACAAACATTTCCTGATTT+GGG | 0.316697 | 4_1:+59319207 | Msa0560070:CDS |
| CTGATTTGGGCAAAATTTCA+GGG | 0.443347 | 4_1:+59319220 | Msa0560070:CDS |
| TACTCTGGCCATTCAGTCAC+TGG | 0.448656 | 4_1:-59319264 | None:intergenic |
| CTTTCCCACCAGTGACTGAA+TGG | 0.466160 | 4_1:+59319256 | Msa0560070:CDS |
| ACCTTGGACATTGTCAATGC+TGG | 0.468209 | 4_1:-59319163 | None:intergenic |
| ATTGACAATGTCCAAGGTGG+TGG | 0.469460 | 4_1:+59319168 | Msa0560070:CDS |
| GATGGTGGAGAGAAGAAGTC+AGG | 0.493659 | 4_1:-59319315 | None:intergenic |
| AAGTCAGGAATATTGAAAAT+GGG | 0.495802 | 4_1:-59319300 | None:intergenic |
| TGACTGAATGGCCAGAGTAC+AGG | 0.500741 | 4_1:+59319268 | Msa0560070:CDS |
| CATTCAGTCACTGGTGGGAA+AGG | 0.519050 | 4_1:-59319255 | None:intergenic |
| GGTGGAGGCAACCTGTACTC+TGG | 0.553702 | 4_1:-59319279 | None:intergenic |
| GTTGTTGTGGTGGCGTCAGA+TGG | 0.566737 | 4_1:-59319333 | None:intergenic |
| TCAGTCACTGGTGGGAAAGG+AGG | 0.574402 | 4_1:-59319252 | None:intergenic |
| TCCAGCATTGACAATGTCCA+AGG | 0.592453 | 4_1:+59319162 | Msa0560070:CDS |
| TCTGGCCATTCAGTCACTGG+TGG | 0.608143 | 4_1:-59319261 | None:intergenic |
| TCAGGAATATTGAAAATGGG+TGG | 0.625430 | 4_1:-59319297 | None:intergenic |
| CTGGCCATTCAGTCACTGGT+GGG | 0.629336 | 4_1:-59319260 | None:intergenic |
| GTTGTGGTGGCGTCAGATGG+TGG | 0.629556 | 4_1:-59319330 | None:intergenic |
| GGAATATTGAAAATGGGTGG+AGG | 0.630069 | 4_1:-59319294 | None:intergenic |
| TTGACAATGTCCAAGGTGGT+GGG | 0.635337 | 4_1:+59319169 | Msa0560070:CDS |
| AGCATTGACAATGTCCAAGG+TGG | 0.725622 | 4_1:+59319165 | Msa0560070:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAATAGCTAACAAAAACAAA+CGG | - | chr4_1:59319125-59319144 | None:intergenic | 20.0% |
| ! | AAGTCAGGAATATTGAAAAT+GGG | - | chr4_1:59319303-59319322 | None:intergenic | 25.0% |
| ACACAAACATTTCCTGATTT+GGG | + | chr4_1:59319207-59319226 | Msa0560070:CDS | 30.0% | |
| GAAGTCAGGAATATTGAAAA+TGG | - | chr4_1:59319304-59319323 | None:intergenic | 30.0% | |
| TAACAAAAACAAACGGACAG+AGG | - | chr4_1:59319118-59319137 | None:intergenic | 35.0% | |
| GACACAAACATTTCCTGATT+TGG | + | chr4_1:59319206-59319225 | Msa0560070:CDS | 35.0% | |
| !! | CTGATTTGGGCAAAATTTCA+GGG | + | chr4_1:59319220-59319239 | Msa0560070:CDS | 35.0% |
| TCAGGAATATTGAAAATGGG+TGG | - | chr4_1:59319300-59319319 | None:intergenic | 35.0% | |
| ! | CCTGAAATTTTGCCCAAATC+AGG | - | chr4_1:59319222-59319241 | None:intergenic | 40.0% |
| !! | CCTGATTTGGGCAAAATTTC+AGG | + | chr4_1:59319219-59319238 | Msa0560070:CDS | 40.0% |
| GGAATATTGAAAATGGGTGG+AGG | - | chr4_1:59319297-59319316 | None:intergenic | 40.0% | |
| ! | TTTTGTAGCAGTTGTTGTGG+TGG | - | chr4_1:59319346-59319365 | None:intergenic | 40.0% |
| !!! | TGGTTTTGTAGCAGTTGTTG+TGG | - | chr4_1:59319349-59319368 | None:intergenic | 40.0% |
| !! | TCCAGCATTGACAATGTCCA+AGG | + | chr4_1:59319162-59319181 | Msa0560070:CDS | 45.0% |
| ACCTTGGACATTGTCAATGC+TGG | - | chr4_1:59319166-59319185 | None:intergenic | 45.0% | |
| !! | AGCATTGACAATGTCCAAGG+TGG | + | chr4_1:59319165-59319184 | Msa0560070:CDS | 45.0% |
| ATTGACAATGTCCAAGGTGG+TGG | + | chr4_1:59319168-59319187 | Msa0560070:CDS | 45.0% | |
| TTGACAATGTCCAAGGTGGT+GGG | + | chr4_1:59319169-59319188 | Msa0560070:CDS | 45.0% | |
| !! | GTTTTCTAGTCCCACCACCT+TGG | - | chr4_1:59319182-59319201 | None:intergenic | 50.0% |
| CATTCAGTCACTGGTGGGAA+AGG | - | chr4_1:59319258-59319277 | None:intergenic | 50.0% | |
| CTTTCCCACCAGTGACTGAA+TGG | + | chr4_1:59319256-59319275 | Msa0560070:CDS | 50.0% | |
| TACTCTGGCCATTCAGTCAC+TGG | - | chr4_1:59319267-59319286 | None:intergenic | 50.0% | |
| TGACTGAATGGCCAGAGTAC+AGG | + | chr4_1:59319268-59319287 | Msa0560070:CDS | 50.0% | |
| !! | GATGGTGGAGAGAAGAAGTC+AGG | - | chr4_1:59319318-59319337 | None:intergenic | 50.0% |
| TCAGTCACTGGTGGGAAAGG+AGG | - | chr4_1:59319255-59319274 | None:intergenic | 55.0% | |
| CTGGCCATTCAGTCACTGGT+GGG | - | chr4_1:59319263-59319282 | None:intergenic | 55.0% | |
| TCTGGCCATTCAGTCACTGG+TGG | - | chr4_1:59319264-59319283 | None:intergenic | 55.0% | |
| ! | GTTGTTGTGGTGGCGTCAGA+TGG | - | chr4_1:59319336-59319355 | None:intergenic | 55.0% |
| GGTGGAGGCAACCTGTACTC+TGG | - | chr4_1:59319282-59319301 | None:intergenic | 60.0% | |
| ! | GTTGTGGTGGCGTCAGATGG+TGG | - | chr4_1:59319333-59319352 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 59319111 | 59319371 | 59319111 | ID=Msa0560070;Name=Msa0560070 |
| chr4_1 | mRNA | 59319111 | 59319371 | 59319111 | ID=Msa0560070-mRNA-1;Parent=Msa0560070;Name=Msa0560070-mRNA-1;_AED=0.22;_eAED=0.23;_QI=0|-1|0|1|-1|1|1|0|86 |
| chr4_1 | exon | 59319111 | 59319371 | 59319111 | ID=Msa0560070-mRNA-1:exon:18304;Parent=Msa0560070-mRNA-1 |
| chr4_1 | CDS | 59319111 | 59319371 | 59319111 | ID=Msa0560070-mRNA-1:cds;Parent=Msa0560070-mRNA-1 |
| Gene Sequence |
| Protein sequence |
