Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene28137.t1 | RHN42992.1 | 91.5 | 199 | 11 | 2 | 1 | 198 | 1 | 194 | 1.50E-89 | 339 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene28137.t1 | Q9SJ02 | 55.4 | 195 | 81 | 3 | 1 | 192 | 1 | 192 | 1.2e-42 | 174.5 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene28137.t1 | A0A396GPG0 | 91.5 | 199 | 11 | 2 | 1 | 198 | 1 | 194 | 1.1e-89 | 339.0 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene052100 | MS.gene28137 | 0.824138 | 9.50E-54 | -1.69E-46 |
| MS.gene053108 | MS.gene28137 | -0.800327 | 1.52E-48 | -1.69E-46 |
| MS.gene054941 | MS.gene28137 | -0.816831 | 4.51E-52 | -1.69E-46 |
| MS.gene056266 | MS.gene28137 | 0.816498 | 5.36E-52 | -1.69E-46 |
| MS.gene056387 | MS.gene28137 | 0.8206 | 6.29E-53 | -1.69E-46 |
| MS.gene056508 | MS.gene28137 | 0.827364 | 1.63E-54 | -1.69E-46 |
| MS.gene05652 | MS.gene28137 | -0.802598 | 5.20E-49 | -1.69E-46 |
| MS.gene056618 | MS.gene28137 | -0.81986 | 9.31E-53 | -1.69E-46 |
| MS.gene059717 | MS.gene28137 | 0.834413 | 3.04E-56 | -1.69E-46 |
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 |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene28137.t1 | AT2G21970 | 55.385 | 195 | 81 | 3 | 1 | 192 | 1 | 192 | 4.91e-62 | 191 |
Find 63 sgRNAs with CRISPR-Local
Find 83 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATGTTTGTGTTCGCGCCTTC+TGG | 0.200953 | 4.4:+9844645 | None:intergenic |
| TTCTTTACGGGTCTTGATTA+TGG | 0.222006 | 4.4:+9844566 | None:intergenic |
| CTTGCATGTCTTCTTCTTTA+CGG | 0.282945 | 4.4:+9844553 | None:intergenic |
| TTGCATGTCTTCTTCTTTAC+GGG | 0.300636 | 4.4:+9844554 | None:intergenic |
| CTTAGAACTCTCGATATATT+CGG | 0.302152 | 4.4:+9844494 | None:intergenic |
| GAATTCGGTGTTCAGGAAAA+TGG | 0.321728 | 4.4:-9844245 | MS.gene28137:CDS |
| CCTTCTGGTTCAGTCGGTTT+GGG | 0.324652 | 4.4:+9844660 | None:intergenic |
| GCCTTCTGGTTCAGTCGGTT+TGG | 0.330559 | 4.4:+9844659 | None:intergenic |
| GAGGCGGGTGGGATTTGTTT+GGG | 0.354432 | 4.4:-9844205 | MS.gene28137:CDS |
| GGAGGCGGGTGGGATTTGTT+TGG | 0.366265 | 4.4:-9844206 | MS.gene28137:CDS |
| TGGTTCAGTCGGTTTGGGTT+TGG | 0.403211 | 4.4:+9844665 | None:intergenic |
| GAACGAGACGATGATACTTT+TGG | 0.405757 | 4.4:+9844726 | None:intergenic |
| GGAGTTGGTGACGGGGAATT+CGG | 0.411121 | 4.4:-9844260 | MS.gene28137:CDS |
| TTCAGGAAAATGGATATTGC+AGG | 0.423134 | 4.4:-9844235 | MS.gene28137:CDS |
| CTTTGGCGGCAATGTTTGCT+TGG | 0.423682 | 4.4:-9844174 | MS.gene28137:CDS |
| TGACGGGGAATTCGGTGTTC+AGG | 0.428337 | 4.4:-9844252 | MS.gene28137:CDS |
| ATCAATTAGCGAATCAATGA+AGG | 0.432023 | 4.4:+9844099 | None:intergenic |
| CGGAGATGATTTCGAAATCC+TGG | 0.437279 | 4.4:+9844466 | None:intergenic |
| TTTGGGTGCGGTTACTTTGG+CGG | 0.447382 | 4.4:-9844188 | MS.gene28137:CDS |
| GTGACGGTGGAGTTGGTGAC+GGG | 0.448839 | 4.4:-9844268 | MS.gene28137:CDS |
| CTAATTGATCAAATCGTTGA+CGG | 0.458559 | 4.4:-9844085 | MS.gene28137:CDS |
| TTGTTTGGGTGCGGTTACTT+TGG | 0.468382 | 4.4:-9844191 | MS.gene28137:CDS |
| GTCTTGATTATGGCGCCGAC+TGG | 0.478139 | 4.4:+9844576 | None:intergenic |
| TGTTACCATGGCGAGGCGGC+CGG | 0.483455 | 4.4:+9844446 | None:intergenic |
| TTGGTGACGGAAAATTGAAC+CGG | 0.499068 | 4.4:+9844684 | None:intergenic |
| AGTCGGTTTGGGTTTGGTGA+CGG | 0.503663 | 4.4:+9844671 | None:intergenic |
| GATTATGGCGCCGACTGGAT+CGG | 0.505400 | 4.4:+9844581 | None:intergenic |
| GACGGAAAATTGAACCGGAC+CGG | 0.507686 | 4.4:+9844689 | None:intergenic |
| AATGGATATTGCAGGGATAA+CGG | 0.508574 | 4.4:-9844227 | MS.gene28137:CDS |
| TTCGGAAAGAGTGGCGAAGA+AGG | 0.517357 | 4.4:+9844512 | None:intergenic |
| ACGGAAAATTGAACCGGACC+GGG | 0.517787 | 4.4:+9844690 | None:intergenic |
| TTCGCGCCTTCTGGTTCAGT+CGG | 0.523523 | 4.4:+9844654 | None:intergenic |
| TATTGCAGGGATAACGGAGG+CGG | 0.525078 | 4.4:-9844221 | MS.gene28137:CDS |
| GCAGATGGTGTTTGCAGCGA+CGG | 0.525390 | 4.4:-9844290 | MS.gene28137:intron |
| CCGCCCCAGAAAACCCGGTC+CGG | 0.543265 | 4.4:-9844703 | MS.gene28137:CDS |
| CGTTCCCGCCCCAGAAAACC+CGG | 0.547665 | 4.4:-9844708 | MS.gene28137:CDS |
| CTATGCACTCTCAGATCATA+CGG | 0.549836 | 4.4:-9844606 | MS.gene28137:CDS |
| GGGTGGGATTTGTTTGGGTG+CGG | 0.551031 | 4.4:-9844200 | MS.gene28137:CDS |
| CAGGGATAACGGAGGCGGGT+GGG | 0.551178 | 4.4:-9844216 | MS.gene28137:CDS |
| GCAGGGATAACGGAGGCGGG+TGG | 0.556957 | 4.4:-9844217 | MS.gene28137:CDS |
| CGAGAGTTCTAAGAAAAGCC+AGG | 0.559263 | 4.4:-9844484 | MS.gene28137:CDS |
| GGTGACGGTGGAGTTGGTGA+CGG | 0.559321 | 4.4:-9844269 | MS.gene28137:CDS |
| GTGTGACTAACTGCGAGCTC+CGG | 0.567817 | 4.4:-9844752 | MS.gene28137:CDS |
| ATTGCAGGGATAACGGAGGC+GGG | 0.570947 | 4.4:-9844220 | MS.gene28137:CDS |
| CATCTCCGGCCGCCTCGCCA+TGG | 0.570988 | 4.4:-9844451 | MS.gene28137:intron |
| TGACGGTGGAGTTGGTGACG+GGG | 0.573283 | 4.4:-9844267 | MS.gene28137:CDS |
| CAGGATTTCGAAATCATCTC+CGG | 0.574628 | 4.4:-9844465 | MS.gene28137:CDS |
| AGCGACGGTGACGGTGGAGT+TGG | 0.587633 | 4.4:-9844275 | MS.gene28137:CDS |
| CTCGATATATTCGGAAAGAG+TGG | 0.596447 | 4.4:+9844503 | None:intergenic |
| TGTGAAGATTCGATCCACTC+TGG | 0.602920 | 4.4:+9844135 | None:intergenic |
| GAAGAAGGAGGACACGTCAT+CGG | 0.616933 | 4.4:+9844527 | None:intergenic |
| GGAAAGAGTGGCGAAGAAGG+AGG | 0.623174 | 4.4:+9844515 | None:intergenic |
| GGTGTTTGCAGCGACGGTGA+CGG | 0.625726 | 4.4:-9844284 | MS.gene28137:CDS |
| CTCAAGTGCTCGTACCAGAG+TGG | 0.631041 | 4.4:-9844149 | MS.gene28137:CDS |
| TTGTTCTATGATGATAGCGA+GGG | 0.632266 | 4.4:-9844061 | MS.gene28137:CDS |
| TTTGTTCTATGATGATAGCG+AGG | 0.632796 | 4.4:-9844062 | MS.gene28137:CDS |
| TCAGGAAAATGGATATTGCA+GGG | 0.643208 | 4.4:-9844234 | MS.gene28137:CDS |
| CAAACATCGTTCTACAACCG+CGG | 0.645183 | 4.4:-9844629 | MS.gene28137:CDS |
| CCCAAACCGACTGAACCAGA+AGG | 0.654325 | 4.4:-9844660 | MS.gene28137:CDS |
| GTTTGCAGCGACGGTGACGG+TGG | 0.675734 | 4.4:-9844281 | MS.gene28137:CDS |
| GGATATTGCAGGGATAACGG+AGG | 0.721943 | 4.4:-9844224 | MS.gene28137:CDS |
| GATCTGAGAGTGCATAGCCG+CGG | 0.723172 | 4.4:+9844612 | None:intergenic |
| TCATACGGTTCCGATCCAGT+CGG | 0.759723 | 4.4:-9844591 | MS.gene28137:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | CATTATTCTCAGTTTATTAT+TGG | - | chr4.4:9844436-9844455 | MS.gene28137:intron | 20.0% |
| !! | TTCCTCTAATATAGTATATA+TGG | + | chr4.4:9844479-9844498 | None:intergenic | 20.0% |
| ! | AATATAGTATATATGGACAC+CGG | + | chr4.4:9844472-9844491 | None:intergenic | 25.0% |
| ! | GTCCATATATACTATATTAG+AGG | - | chr4.4:9844474-9844493 | MS.gene28137:CDS | 25.0% |
| !!! | ATTGTTGCTTTTTATTGATG+TGG | - | chr4.4:9844502-9844521 | MS.gene28137:CDS | 25.0% |
| ATCAATTAGCGAATCAATGA+AGG | + | chr4.4:9844723-9844742 | None:intergenic | 30.0% | |
| CTAATTGATCAAATCGTTGA+CGG | - | chr4.4:9844734-9844753 | MS.gene28137:CDS | 30.0% | |
| CTTAGAACTCTCGATATATT+CGG | + | chr4.4:9844328-9844347 | None:intergenic | 30.0% | |
| AATGGATATTGCAGGGATAA+CGG | - | chr4.4:9844592-9844611 | MS.gene28137:CDS | 35.0% | |
| CTTGCATGTCTTCTTCTTTA+CGG | + | chr4.4:9844269-9844288 | None:intergenic | 35.0% | |
| TCAGGAAAATGGATATTGCA+GGG | - | chr4.4:9844585-9844604 | MS.gene28137:CDS | 35.0% | |
| TTCAGGAAAATGGATATTGC+AGG | - | chr4.4:9844584-9844603 | MS.gene28137:CDS | 35.0% | |
| TTCTTTACGGGTCTTGATTA+TGG | + | chr4.4:9844256-9844275 | None:intergenic | 35.0% | |
| TTGCATGTCTTCTTCTTTAC+GGG | + | chr4.4:9844268-9844287 | None:intergenic | 35.0% | |
| ! | TTGTTCTATGATGATAGCGA+GGG | - | chr4.4:9844758-9844777 | MS.gene28137:CDS | 35.0% |
| ! | TTTGTTCTATGATGATAGCG+AGG | - | chr4.4:9844757-9844776 | MS.gene28137:CDS | 35.0% |
| !!! | GTTGCTTTTTATTGATGTGG+TGG | - | chr4.4:9844505-9844524 | MS.gene28137:CDS | 35.0% |
| CAGGATTTCGAAATCATCTC+CGG | - | chr4.4:9844354-9844373 | MS.gene28137:intron | 40.0% | |
| CTATGCACTCTCAGATCATA+CGG | - | chr4.4:9844213-9844232 | MS.gene28137:CDS | 40.0% | |
| CTCGATATATTCGGAAAGAG+TGG | + | chr4.4:9844319-9844338 | None:intergenic | 40.0% | |
| GATCACATGCGTTAGTGTTA+GGG | + | chr4.4:9844402-9844421 | None:intergenic | 40.0% | |
| TGATCACATGCGTTAGTGTT+AGG | + | chr4.4:9844403-9844422 | None:intergenic | 40.0% | |
| ! | GAACGAGACGATGATACTTT+TGG | + | chr4.4:9844096-9844115 | None:intergenic | 40.0% |
| !! | GAATTCGGTGTTCAGGAAAA+TGG | - | chr4.4:9844574-9844593 | MS.gene28137:CDS | 40.0% |
| !! | TATTATTGGTGTCAACGTGC+CGG | - | chr4.4:9844450-9844469 | MS.gene28137:intron | 40.0% |
| !! | TTGGTGACGGAAAATTGAAC+CGG | + | chr4.4:9844138-9844157 | None:intergenic | 40.0% |
| !!! | GTGTTAGGGTTTTGTTACCA+TGG | + | chr4.4:9844388-9844407 | None:intergenic | 40.0% |
| CAAACATCGTTCTACAACCG+CGG | - | chr4.4:9844190-9844209 | MS.gene28137:CDS | 45.0% | |
| CGGAGATGATTTCGAAATCC+TGG | + | chr4.4:9844356-9844375 | None:intergenic | 45.0% | |
| TGTGAAGATTCGATCCACTC+TGG | + | chr4.4:9844687-9844706 | None:intergenic | 45.0% | |
| TTGTTTGGGTGCGGTTACTT+TGG | - | chr4.4:9844628-9844647 | MS.gene28137:CDS | 45.0% | |
| ! | CGAGACGATGATACTTTTGG+TGG | + | chr4.4:9844093-9844112 | None:intergenic | 45.0% |
| ! | TATTGATGTGGTGGTGCAGA+TGG | - | chr4.4:9844514-9844533 | MS.gene28137:CDS | 45.0% |
| !! | ACGATGATACTTTTGGTGGC+CGG | + | chr4.4:9844089-9844108 | None:intergenic | 45.0% |
| !! | CGAGAGTTCTAAGAAAAGCC+AGG | - | chr4.4:9844335-9844354 | MS.gene28137:intron | 45.0% |
| ACGGAAAATTGAACCGGACC+GGG | + | chr4.4:9844132-9844151 | None:intergenic | 50.0% | |
| ATGTTTGTGTTCGCGCCTTC+TGG | + | chr4.4:9844177-9844196 | None:intergenic | 50.0% | |
| CTTTGGCGGCAATGTTTGCT+TGG | - | chr4.4:9844645-9844664 | MS.gene28137:CDS | 50.0% | |
| GAAGAAGGAGGACACGTCAT+CGG | + | chr4.4:9844295-9844314 | None:intergenic | 50.0% | |
| GACGGAAAATTGAACCGGAC+CGG | + | chr4.4:9844133-9844152 | None:intergenic | 50.0% | |
| TCATACGGTTCCGATCCAGT+CGG | - | chr4.4:9844228-9844247 | MS.gene28137:CDS | 50.0% | |
| TTCGGAAAGAGTGGCGAAGA+AGG | + | chr4.4:9844310-9844329 | None:intergenic | 50.0% | |
| ! | GGATATTGCAGGGATAACGG+AGG | - | chr4.4:9844595-9844614 | MS.gene28137:CDS | 50.0% |
| ! | TTTGGGTGCGGTTACTTTGG+CGG | - | chr4.4:9844631-9844650 | MS.gene28137:CDS | 50.0% |
| !! | AGTCGGTTTGGGTTTGGTGA+CGG | + | chr4.4:9844151-9844170 | None:intergenic | 50.0% |
| !! | CCTTCTGGTTCAGTCGGTTT+GGG | + | chr4.4:9844162-9844181 | None:intergenic | 50.0% |
| !! | GTTTTGTTACCATGGCGAGG+CGG | + | chr4.4:9844380-9844399 | None:intergenic | 50.0% |
| !! | TATTGCAGGGATAACGGAGG+CGG | - | chr4.4:9844598-9844617 | MS.gene28137:CDS | 50.0% |
| !! | TGGTTCAGTCGGTTTGGGTT+TGG | + | chr4.4:9844157-9844176 | None:intergenic | 50.0% |
| !!! | AGGGTTTTGTTACCATGGCG+AGG | + | chr4.4:9844383-9844402 | None:intergenic | 50.0% |
| CCCAAACCGACTGAACCAGA+AGG | - | chr4.4:9844159-9844178 | MS.gene28137:CDS | 55.0% | |
| CTCAAGTGCTCGTACCAGAG+TGG | - | chr4.4:9844670-9844689 | MS.gene28137:CDS | 55.0% | |
| GCAGATGGTGTTTGCAGCGA+CGG | - | chr4.4:9844529-9844548 | MS.gene28137:CDS | 55.0% | |
| GGAAAGAGTGGCGAAGAAGG+AGG | + | chr4.4:9844307-9844326 | None:intergenic | 55.0% | |
| GTGTGACTAACTGCGAGCTC+CGG | - | chr4.4:9844067-9844086 | MS.gene28137:CDS | 55.0% | |
| ! | GAGGCGGGTGGGATTTGTTT+GGG | - | chr4.4:9844614-9844633 | MS.gene28137:CDS | 55.0% |
| ! | GATCTGAGAGTGCATAGCCG+CGG | + | chr4.4:9844210-9844229 | None:intergenic | 55.0% |
| ! | GGGTGGGATTTGTTTGGGTG+CGG | - | chr4.4:9844619-9844638 | MS.gene28137:CDS | 55.0% |
| ! | TGAACCGGACCGGGTTTTCT+GGG | + | chr4.4:9844123-9844142 | None:intergenic | 55.0% |
| ! | TTGAACCGGACCGGGTTTTC+TGG | + | chr4.4:9844124-9844143 | None:intergenic | 55.0% |
| !! | ATTGCAGGGATAACGGAGGC+GGG | - | chr4.4:9844599-9844618 | MS.gene28137:CDS | 55.0% |
| !! | GATTATGGCGCCGACTGGAT+CGG | + | chr4.4:9844241-9844260 | None:intergenic | 55.0% |
| !! | GCCTTCTGGTTCAGTCGGTT+TGG | + | chr4.4:9844163-9844182 | None:intergenic | 55.0% |
| !! | GGAGTTGGTGACGGGGAATT+CGG | - | chr4.4:9844559-9844578 | MS.gene28137:CDS | 55.0% |
| !! | GTCTTGATTATGGCGCCGAC+TGG | + | chr4.4:9844246-9844265 | None:intergenic | 55.0% |
| !! | TGACGGGGAATTCGGTGTTC+AGG | - | chr4.4:9844567-9844586 | MS.gene28137:CDS | 55.0% |
| !! | TTCGCGCCTTCTGGTTCAGT+CGG | + | chr4.4:9844168-9844187 | None:intergenic | 55.0% |
| GGTGTTTGCAGCGACGGTGA+CGG | - | chr4.4:9844535-9844554 | MS.gene28137:CDS | 60.0% | |
| ! | GAACCGGACCGGGTTTTCTG+GGG | + | chr4.4:9844122-9844141 | None:intergenic | 60.0% |
| ! | GGAGGCGGGTGGGATTTGTT+TGG | - | chr4.4:9844613-9844632 | MS.gene28137:CDS | 60.0% |
| !! | GGTGACGGTGGAGTTGGTGA+CGG | - | chr4.4:9844550-9844569 | MS.gene28137:CDS | 60.0% |
| !! | GTGACGGTGGAGTTGGTGAC+GGG | - | chr4.4:9844551-9844570 | MS.gene28137:CDS | 60.0% |
| !! | TGACGGTGGAGTTGGTGACG+GGG | - | chr4.4:9844552-9844571 | MS.gene28137:CDS | 60.0% |
| CGTTCCCGCCCCAGAAAACC+CGG | - | chr4.4:9844111-9844130 | MS.gene28137:CDS | 65.0% | |
| TGTTACCATGGCGAGGCGGC+CGG | + | chr4.4:9844376-9844395 | None:intergenic | 65.0% | |
| ! | AGCGACGGTGACGGTGGAGT+TGG | - | chr4.4:9844544-9844563 | MS.gene28137:CDS | 65.0% |
| ! | GTTTGCAGCGACGGTGACGG+TGG | - | chr4.4:9844538-9844557 | MS.gene28137:CDS | 65.0% |
| !! | CAGGGATAACGGAGGCGGGT+GGG | - | chr4.4:9844603-9844622 | MS.gene28137:CDS | 65.0% |
| CCGCCCCAGAAAACCCGGTC+CGG | - | chr4.4:9844116-9844135 | MS.gene28137:CDS | 70.0% | |
| !! | CCGGACCGGGTTTTCTGGGG+CGG | + | chr4.4:9844119-9844138 | None:intergenic | 70.0% |
| !! | GCAGGGATAACGGAGGCGGG+TGG | - | chr4.4:9844602-9844621 | MS.gene28137:CDS | 70.0% |
| !!! | CGGACCGGGTTTTCTGGGGC+GGG | + | chr4.4:9844118-9844137 | None:intergenic | 70.0% |
| CATCTCCGGCCGCCTCGCCA+TGG | - | chr4.4:9844368-9844387 | MS.gene28137:intron | 75.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.4 | gene | 9844051 | 9844790 | 9844051 | ID=MS.gene28137 |
| chr4.4 | mRNA | 9844051 | 9844790 | 9844051 | ID=MS.gene28137.t1;Parent=MS.gene28137 |
| chr4.4 | exon | 9844452 | 9844790 | 9844452 | ID=MS.gene28137.t1.exon1;Parent=MS.gene28137.t1 |
| chr4.4 | CDS | 9844452 | 9844790 | 9844452 | ID=cds.MS.gene28137.t1;Parent=MS.gene28137.t1 |
| chr4.4 | exon | 9844051 | 9844308 | 9844051 | ID=MS.gene28137.t1.exon2;Parent=MS.gene28137.t1 |
| chr4.4 | CDS | 9844051 | 9844308 | 9844051 | ID=cds.MS.gene28137.t1;Parent=MS.gene28137.t1 |
| Gene Sequence |
| Protein sequence |
